Search to RefSeqBP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-000625
(1129 letters)
Database: RefSeq49_BP.fasta
33,088 sequences; 17,681,374 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_001029842.1| gamma-secretase subunit APH-1A [Bos taurus]. 450 e-126
Alignment gi|XP_002690889.1| PREDICTED: anterior pharynx defective 1c hom... 255 6e-68
Alignment gi|XP_871084.1| PREDICTED: presenilin stabilization factor-like... 255 6e-68
Alignment gi|NP_001178332.1| gamma-secretase subunit APH-1B [Bos taurus]. 175 6e-44
Alignment gi|XP_002690888.1| PREDICTED: anterior pharynx defective 1c hom... 175 6e-44
>ref|NP_001029842.1| gamma-secretase subunit APH-1A [Bos taurus].
Length = 247
Score = 450 bits (1157), Expect = e-126
Identities = 230/247 (93%), Positives = 231/247 (93%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAG ILVHVT
Sbjct: 1 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGAFFWLVSLLLASVVWFILVHVT 60
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV
Sbjct: 61 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 120
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 785
SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD
Sbjct: 121 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 180
Query: 786 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 965
ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVT+SMGLWAFITAGGSFRSIQ
Sbjct: 181 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTISMGLWAFITAGGSFRSIQ 240
Query: 966 RSLSCKD 986
RSLSCKD
Sbjct: 241 RSLSCKD 247
>ref|XP_002690889.1| PREDICTED: anterior pharynx defective 1c homolog isoform 2 [Bos
taurus].
Length = 257
Score = 255 bits (651), Expect = 6e-68
Identities = 126/247 (51%), Positives = 169/247 (68%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
M AAVFFGC F+AFGPA AL++ T+ +PLR+I L+ G +
Sbjct: 1 MTAAVFFGCAFIAFGPALALYIFTIVTEPLRIIFLIIGAFFWLVSLLFSSLIWFTTATLI 60
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
D + LLIFG +SVL+QE+FRFAYYKLLKKA EGL +++ ++P S+R +AYV
Sbjct: 61 GNKDEPREKYLLIFGVLISVLIQEMFRFAYYKLLKKASEGLKTINPYEKAP-SMRLLAYV 119
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 785
SGL FGI+SGVFS +N L+D+LGPG VGIHGD P +FL SAF+T I LLH FWG+VFFD
Sbjct: 120 SGLGFGIMSGVFSFVNTLSDSLGPGTVGIHGDPPQFFLYSAFMTLVITLLHVFWGIVFFD 179
Query: 786 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 965
CE+++++ L +V+ SHLL S LT ++P Y +L+ Y + V MG+WAF +GGS RS++
Sbjct: 180 GCEKKKWYTLLVVLLSHLLVSALTLISPHYGLNLVLAYIIMVLMGVWAFFVSGGSCRSLK 239
Query: 966 RSLSCKD 986
L C+D
Sbjct: 240 LCLLCQD 246
>ref|XP_871084.1| PREDICTED: presenilin stabilization factor-like isoform 3 [Bos
taurus].
Length = 257
Score = 255 bits (651), Expect = 6e-68
Identities = 126/247 (51%), Positives = 169/247 (68%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
M AAVFFGC F+AFGPA AL++ T+ +PLR+I L+ G +
Sbjct: 1 MTAAVFFGCAFIAFGPALALYIFTIVTEPLRIIFLIIGAFFWLVSLLFSSLIWFTTATLI 60
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
D + LLIFG +SVL+QE+FRFAYYKLLKKA EGL +++ ++P S+R +AYV
Sbjct: 61 GNKDEPREKYLLIFGVLISVLIQEMFRFAYYKLLKKASEGLKTINPYEKAP-SMRLLAYV 119
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 785
SGL FGI+SGVFS +N L+D+LGPG VGIHGD P +FL SAF+T I LLH FWG+VFFD
Sbjct: 120 SGLGFGIMSGVFSFVNTLSDSLGPGTVGIHGDPPQFFLYSAFMTLVITLLHVFWGIVFFD 179
Query: 786 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 965
CE+++++ L +V+ SHLL S LT ++P Y +L+ Y + V MG+WAF +GGS RS++
Sbjct: 180 GCEKKKWYTLLVVLLSHLLVSALTLISPHYGLNLVLAYIIMVLMGVWAFFVSGGSCRSLK 239
Query: 966 RSLSCKD 986
L C+D
Sbjct: 240 LCLLCQD 246
>ref|NP_001178332.1| gamma-secretase subunit APH-1B [Bos taurus].
Length = 216
Score = 175 bits (444), Expect = 6e-44
Identities = 97/247 (39%), Positives = 135/247 (54%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
M AAVFFGC F+AFGPA AL++ T+ +PLR+I L+ G +
Sbjct: 1 MTAAVFFGCAFIAFGPALALYIFTIVTEPLRIIFLIIGAFFWLVSLLFSSLIWFTTATLI 60
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
D + LLIFG +SVL+QE+FRFAYYKLLKKA EGL +++ ++P S+R +AY
Sbjct: 61 GNKDEPREKYLLIFGVLISVLIQEMFRFAYYKLLKKASEGLKTINPYEKAP-SMRLLAY- 118
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 785
AF+T I LLH FWG+VFFD
Sbjct: 119 ----------------------------------------AFMTLVITLLHVFWGIVFFD 138
Query: 786 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 965
CE+++++ L +V+ SHLL S LT ++P Y +L+ Y + V MG+WAF +GGS RS++
Sbjct: 139 GCEKKKWYTLLVVLLSHLLVSALTLISPHYGLNLVLAYIIMVLMGVWAFFVSGGSCRSLK 198
Query: 966 RSLSCKD 986
L C+D
Sbjct: 199 LCLLCQD 205
>ref|XP_002690888.1| PREDICTED: anterior pharynx defective 1c homolog isoform 1 [Bos
taurus].
Length = 216
Score = 175 bits (444), Expect = 6e-44
Identities = 97/247 (39%), Positives = 135/247 (54%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
M AAVFFGC F+AFGPA AL++ T+ +PLR+I L+ G +
Sbjct: 1 MTAAVFFGCAFIAFGPALALYIFTIVTEPLRIIFLIIGAFFWLVSLLFSSLIWFTTATLI 60
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
D + LLIFG +SVL+QE+FRFAYYKLLKKA EGL +++ ++P S+R +AY
Sbjct: 61 GNKDEPREKYLLIFGVLISVLIQEMFRFAYYKLLKKASEGLKTINPYEKAP-SMRLLAY- 118
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 785
AF+T I LLH FWG+VFFD
Sbjct: 119 ----------------------------------------AFMTLVITLLHVFWGIVFFD 138
Query: 786 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 965
CE+++++ L +V+ SHLL S LT ++P Y +L+ Y + V MG+WAF +GGS RS++
Sbjct: 139 GCEKKKWYTLLVVLLSHLLVSALTLISPHYGLNLVLAYIIMVLMGVWAFFVSGGSCRSLK 198
Query: 966 RSLSCKD 986
L C+D
Sbjct: 199 LCLLCQD 205
Database: RefSeq49_BP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 17,681,374
Number of sequences in database: 33,088
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33088
Number of Hits to DB: 50,833,464
Number of extensions: 1634054
Number of successful extensions: 7368
Number of sequences better than 1.0e-05: 5
Number of HSP's gapped: 7312
Number of HSP's successfully gapped: 7
Length of query: 376
Length of database: 17,681,374
Length adjustment: 104
Effective length of query: 272
Effective length of database: 14,240,222
Effective search space: 3873340384
Effective search space used: 3873340384
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)
Search to RefSeqCP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-000625
(1129 letters)
Database: RefSeq49_CP.fasta
33,336 sequences; 18,874,504 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|XP_860178.1| PREDICTED: similar to anterior pharynx defectiv... 450 e-126
Alignment gi|XP_860027.1| PREDICTED: similar to anterior pharynx defectiv... 450 e-126
Alignment gi|XP_540299.1| PREDICTED: similar to Gamma-secretase subunit A... 447 e-125
Alignment gi|XP_860100.1| PREDICTED: similar to anterior pharynx defectiv... 390 e-109
Alignment gi|XP_860067.1| PREDICTED: similar to anterior pharynx defectiv... 350 1e-96
Alignment gi|XP_860136.1| PREDICTED: similar to anterior pharynx defectiv... 327 2e-89
Alignment gi|XP_859990.1| PREDICTED: similar to Gamma-secretase subunit A... 273 2e-73
Alignment gi|XP_544714.2| PREDICTED: similar to anterior pharynx defectiv... 221 1e-57
>ref|XP_860178.1| PREDICTED: similar to anterior pharynx defective 1a homolog isoform
7 [Canis familiaris].
Length = 247
Score = 450 bits (1158), Expect = e-126
Identities = 231/247 (93%), Positives = 231/247 (93%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAG ILVHVT
Sbjct: 1 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGAFFWLVSLLLASVVWFILVHVT 60
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV
Sbjct: 61 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 120
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 785
SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD
Sbjct: 121 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 180
Query: 786 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 965
ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ
Sbjct: 181 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 240
Query: 966 RSLSCKD 986
RSLSCKD
Sbjct: 241 RSLSCKD 247
>ref|XP_860027.1| PREDICTED: similar to anterior pharynx defective 1a homolog isoform
3 [Canis familiaris].
Length = 247
Score = 450 bits (1158), Expect = e-126
Identities = 231/247 (93%), Positives = 231/247 (93%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAG ILVHVT
Sbjct: 1 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGAFFWLVSLLLASVVWFILVHVT 60
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV
Sbjct: 61 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 120
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 785
SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD
Sbjct: 121 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 180
Query: 786 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 965
ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ
Sbjct: 181 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 240
Query: 966 RSLSCKD 986
RSLSCKD
Sbjct: 241 RSLSCKD 247
>ref|XP_540299.1| PREDICTED: similar to Gamma-secretase subunit APH-1A (APH-1a)
(Aph-1alpha) isoform 1 [Canis familiaris].
Length = 265
Score = 447 bits (1149), Expect = e-125
Identities = 229/246 (93%), Positives = 230/246 (93%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAG ILVHVT
Sbjct: 1 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGAFFWLVSLLLASVVWFILVHVT 60
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV
Sbjct: 61 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 120
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 785
SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD
Sbjct: 121 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 180
Query: 786 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 965
ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ
Sbjct: 181 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 240
Query: 966 RSLSCK 983
RSLSC+
Sbjct: 241 RSLSCR 246
>ref|XP_860100.1| PREDICTED: similar to anterior pharynx defective 1a homolog isoform
5 [Canis familiaris].
Length = 222
Score = 390 bits (1003), Expect = e-109
Identities = 206/247 (83%), Positives = 206/247 (83%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAG ILVHVT
Sbjct: 1 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGAFFWLVSLLLASVVWFILVHVT 60
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAY
Sbjct: 61 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAY- 119
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 785
GVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD
Sbjct: 120 ------------------------GVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 155
Query: 786 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 965
ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ
Sbjct: 156 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 215
Query: 966 RSLSCKD 986
RSLSCKD
Sbjct: 216 RSLSCKD 222
>ref|XP_860067.1| PREDICTED: similar to anterior pharynx defective 1a homolog isoform
4 [Canis familiaris].
Length = 206
Score = 350 bits (899), Expect = 1e-96
Identities = 190/247 (76%), Positives = 190/247 (76%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAG ILVHVT
Sbjct: 1 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGAFFWLVSLLLASVVWFILVHVT 60
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAY
Sbjct: 61 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAY- 119
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 785
AFLTAAIILLHTFWGVVFFD
Sbjct: 120 ----------------------------------------AFLTAAIILLHTFWGVVFFD 139
Query: 786 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 965
ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ
Sbjct: 140 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 199
Query: 966 RSLSCKD 986
RSLSCKD
Sbjct: 200 RSLSCKD 206
>ref|XP_860136.1| PREDICTED: similar to anterior pharynx defective 1a homolog isoform
6 [Canis familiaris].
Length = 190
Score = 327 bits (837), Expect = 2e-89
Identities = 181/247 (73%), Positives = 184/247 (74%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
MGAAVFFGCTFVAFGPAFALFL I VAG
Sbjct: 1 MGAAVFFGCTFVAFGPAFALFL-----------ITVAGDP-------------------- 29
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
L+ +L+ G KADEGLASLSEDGRSPISIRQMAYV
Sbjct: 30 ------LRVIILVAG--------------------KADEGLASLSEDGRSPISIRQMAYV 63
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 785
SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD
Sbjct: 64 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 123
Query: 786 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 965
ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ
Sbjct: 124 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 183
Query: 966 RSLSCKD 986
RSLSCKD
Sbjct: 184 RSLSCKD 190
>ref|XP_859990.1| PREDICTED: similar to Gamma-secretase subunit APH-1A (APH-1a)
(Aph-1alpha) (Presenilin stabilization factor) isoform 2
[Canis familiaris].
Length = 213
Score = 273 bits (699), Expect = 2e-73
Identities = 144/160 (90%), Positives = 144/160 (90%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAG ILVHVT
Sbjct: 1 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGAFFWLVSLLLASVVWFILVHVT 60
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV
Sbjct: 61 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 120
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTS 725
SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTS
Sbjct: 121 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTS 160
>ref|XP_544714.2| PREDICTED: similar to anterior pharynx defective 1b homolog [Canis
familiaris].
Length = 346
Score = 221 bits (563), Expect = 1e-57
Identities = 106/189 (56%), Positives = 142/189 (75%)
Frame = +3
Query: 420 VTDRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMA 599
+T D +Q LLI G VSVL+QE+FRF YYKLLKKA EGL S++ D +P S+R +A
Sbjct: 148 ITANKDGPIQKYLLILGVLVSVLIQELFRFVYYKLLKKASEGLKSINPDETTP-SMRLLA 206
Query: 600 YVSGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVF 779
YVSGL FGI+SGVF+ +N L+D+LGPG VGIHGDSP +FL SAF+T IILLH FWG++F
Sbjct: 207 YVSGLGFGIMSGVFAFVNTLSDSLGPGTVGIHGDSPQFFLNSAFMTLVIILLHVFWGIIF 266
Query: 780 FDACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRS 959
FD CE++++ AL +V+ +HLL S LTF++P Y +L+ Y + + MG+WAF AGGS R+
Sbjct: 267 FDGCEKKKWSALLIVLLTHLLVSALTFISPHYGINLVSTYMIMLLMGIWAFFVAGGSCRN 326
Query: 960 IQRSLSCKD 986
++ L C+D
Sbjct: 327 LKLCLLCQD 335
Database: RefSeq49_CP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 18,874,504
Number of sequences in database: 33,336
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 33336
Number of Hits to DB: 53,077,235
Number of extensions: 1690816
Number of successful extensions: 7967
Number of sequences better than 1.0e-05: 8
Number of HSP's gapped: 7924
Number of HSP's successfully gapped: 10
Length of query: 376
Length of database: 18,874,504
Length adjustment: 104
Effective length of query: 272
Effective length of database: 15,407,560
Effective search space: 4190856320
Effective search space used: 4190856320
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)
Search to RefSeqHP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-000625
(1129 letters)
Database: RefSeq49_HP.fasta
32,964 sequences; 18,297,164 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_057106.2| gamma-secretase subunit APH-1A isoform 2 [Homo ... 446 e-125
Alignment gi|NP_001071096.1| gamma-secretase subunit APH-1A isoform 1 [Ho... 442 e-124
Alignment gi|NP_001230700.1| gamma-secretase subunit APH-1A isoform 3 [Ho... 322 4e-88
Alignment gi|NP_112591.2| gamma-secretase subunit APH-1B isoform 1 [Homo ... 262 4e-70
Alignment gi|NP_001230701.1| gamma-secretase subunit APH-1A isoform 4 [Ho... 252 8e-69
Alignment gi|NP_001139118.1| gamma-secretase subunit APH-1B isoform 2 [Ho... 181 1e-45
>ref|NP_057106.2| gamma-secretase subunit APH-1A isoform 2 [Homo sapiens].
Length = 247
Score = 446 bits (1146), Expect = e-125
Identities = 229/247 (92%), Positives = 229/247 (92%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAG ILVHVT
Sbjct: 1 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGAFFWLVSLLLASVVWFILVHVT 60
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV
Sbjct: 61 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 120
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 785
SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD
Sbjct: 121 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 180
Query: 786 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 965
ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGS RSIQ
Sbjct: 181 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSLRSIQ 240
Query: 966 RSLSCKD 986
RSL CKD
Sbjct: 241 RSLLCKD 247
>ref|NP_001071096.1| gamma-secretase subunit APH-1A isoform 1 [Homo sapiens].
Length = 265
Score = 442 bits (1137), Expect = e-124
Identities = 227/246 (92%), Positives = 228/246 (92%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAG ILVHVT
Sbjct: 1 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGAFFWLVSLLLASVVWFILVHVT 60
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV
Sbjct: 61 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 120
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 785
SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD
Sbjct: 121 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 180
Query: 786 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 965
ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGS RSIQ
Sbjct: 181 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSLRSIQ 240
Query: 966 RSLSCK 983
RSL C+
Sbjct: 241 RSLLCR 246
>ref|NP_001230700.1| gamma-secretase subunit APH-1A isoform 3 [Homo sapiens].
Length = 190
Score = 322 bits (825), Expect = 4e-88
Identities = 179/247 (72%), Positives = 182/247 (73%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
MGAAVFFGCTFVAFGPAFALFL I VAG
Sbjct: 1 MGAAVFFGCTFVAFGPAFALFL-----------ITVAGDP-------------------- 29
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
L+ +L+ G KADEGLASLSEDGRSPISIRQMAYV
Sbjct: 30 ------LRVIILVAG--------------------KADEGLASLSEDGRSPISIRQMAYV 63
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 785
SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD
Sbjct: 64 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 123
Query: 786 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 965
ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGS RSIQ
Sbjct: 124 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSLRSIQ 183
Query: 966 RSLSCKD 986
RSL CKD
Sbjct: 184 RSLLCKD 190
>ref|NP_112591.2| gamma-secretase subunit APH-1B isoform 1 [Homo sapiens].
Length = 257
Score = 262 bits (670), Expect = 4e-70
Identities = 132/247 (53%), Positives = 172/247 (69%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
M AAVFFGC F+AFGPA AL++ T+A +PLR+I L+AG + +
Sbjct: 1 MTAAVFFGCAFIAFGPALALYVFTIATEPLRIIFLIAGAFFWLVSLLISSLVWFMARVII 60
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
D D Q LLIFGA VSV +QE+FRFAYYKLLKKA EGL S++ +P S+R +AYV
Sbjct: 61 DNKDGPTQKYLLIFGAFVSVYIQEMFRFAYYKLLKKASEGLKSINPGETAP-SMRLLAYV 119
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 785
SGL FGI+SGVFS +N L+D+LGPG VGIHGDSP +FL SAF+T IILLH FWG+VFFD
Sbjct: 120 SGLGFGIMSGVFSFVNTLSDSLGPGTVGIHGDSPQFFLYSAFMTLVIILLHVFWGIVFFD 179
Query: 786 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 965
CE++++ L +V+ +HLL S TF++ +Y +L + + V MG WAF+ AGGS RS++
Sbjct: 180 GCEKKKWGILLIVLLTHLLVSAQTFISSYYGINLASAFIILVLMGTWAFLAAGGSCRSLK 239
Query: 966 RSLSCKD 986
L C+D
Sbjct: 240 LCLLCQD 246
>ref|NP_001230701.1| gamma-secretase subunit APH-1A isoform 4 [Homo sapiens].
Length = 195
Score = 252 bits (644), Expect(2) = 8e-69
Identities = 123/127 (96%), Positives = 125/127 (98%)
Frame = +3
Query: 603 VSGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFF 782
+SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFF
Sbjct: 50 ISGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFF 109
Query: 783 DACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSI 962
DACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGS RSI
Sbjct: 110 DACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSLRSI 169
Query: 963 QRSLSCK 983
QRSL C+
Sbjct: 170 QRSLLCR 176
Score = 27.7 bits (60), Expect(2) = 8e-69
Identities = 11/11 (100%), Positives = 11/11 (100%)
Frame = +1
Query: 496 RCSALPTTSCL 528
RCSALPTTSCL
Sbjct: 39 RCSALPTTSCL 49
Score = 78.2 bits (191), Expect = 1e-14
Identities = 38/38 (100%), Positives = 38/38 (100%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAG 359
MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAG
Sbjct: 1 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAG 38
>ref|NP_001139118.1| gamma-secretase subunit APH-1B isoform 2 [Homo sapiens].
Length = 216
Score = 181 bits (458), Expect = 1e-45
Identities = 102/247 (41%), Positives = 137/247 (55%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
M AAVFFGC F+AFGPA AL++ T+A +PLR+I L+AG + +
Sbjct: 1 MTAAVFFGCAFIAFGPALALYVFTIATEPLRIIFLIAGAFFWLVSLLISSLVWFMARVII 60
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
D D Q LLIFGA VSV +QE+FRFAYYKLLKKA EGL S++ +P S+R +AY
Sbjct: 61 DNKDGPTQKYLLIFGAFVSVYIQEMFRFAYYKLLKKASEGLKSINPGETAP-SMRLLAY- 118
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 785
AF+T IILLH FWG+VFFD
Sbjct: 119 ----------------------------------------AFMTLVIILLHVFWGIVFFD 138
Query: 786 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 965
CE++++ L +V+ +HLL S TF++ +Y +L + + V MG WAF+ AGGS RS++
Sbjct: 139 GCEKKKWGILLIVLLTHLLVSAQTFISSYYGINLASAFIILVLMGTWAFLAAGGSCRSLK 198
Query: 966 RSLSCKD 986
L C+D
Sbjct: 199 LCLLCQD 205
Database: RefSeq49_HP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 18,297,164
Number of sequences in database: 32,964
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 32964
Number of Hits to DB: 51,937,669
Number of extensions: 1651004
Number of successful extensions: 7413
Number of sequences better than 1.0e-05: 6
Number of HSP's gapped: 7373
Number of HSP's successfully gapped: 10
Length of query: 376
Length of database: 18,297,164
Length adjustment: 104
Effective length of query: 272
Effective length of database: 14,868,908
Effective search space: 4044342976
Effective search space used: 4044342976
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)
Search to RefSeqMP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-000625
(1129 letters)
Database: RefSeq49_MP.fasta
30,036 sequences; 15,617,559 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|NP_666216.1| gamma-secretase subunit APH-1A isoform 1 [Mus m... 447 e-126
Alignment gi|NP_666246.1| gamma-secretase subunit APH-1A isoform 2 [Mus m... 443 e-124
Alignment gi|NP_808251.1| gamma-secretase subunit APH-1B [Mus musculus]. 270 2e-72
Alignment gi|NP_080950.1| putative gamma-secretase subunit APH-1C [Mus mu... 268 8e-72
>ref|NP_666216.1| gamma-secretase subunit APH-1A isoform 1 [Mus musculus].
Length = 247
Score = 447 bits (1149), Expect = e-126
Identities = 229/247 (92%), Positives = 230/247 (93%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
MGAAVFFGCTFVAFGPAF+LFLITVAGDPLRVIILVAG ILVHVT
Sbjct: 1 MGAAVFFGCTFVAFGPAFSLFLITVAGDPLRVIILVAGAFFWLVSLLLASVVWFILVHVT 60
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV
Sbjct: 61 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 120
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 785
SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD
Sbjct: 121 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 180
Query: 786 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 965
ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGS RSIQ
Sbjct: 181 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSLRSIQ 240
Query: 966 RSLSCKD 986
RSLSCKD
Sbjct: 241 RSLSCKD 247
>ref|NP_666246.1| gamma-secretase subunit APH-1A isoform 2 [Mus musculus].
Length = 265
Score = 443 bits (1140), Expect = e-124
Identities = 227/246 (92%), Positives = 229/246 (93%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
MGAAVFFGCTFVAFGPAF+LFLITVAGDPLRVIILVAG ILVHVT
Sbjct: 1 MGAAVFFGCTFVAFGPAFSLFLITVAGDPLRVIILVAGAFFWLVSLLLASVVWFILVHVT 60
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV
Sbjct: 61 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 120
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 785
SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD
Sbjct: 121 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 180
Query: 786 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 965
ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGS RSIQ
Sbjct: 181 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSLRSIQ 240
Query: 966 RSLSCK 983
RSLSC+
Sbjct: 241 RSLSCR 246
>ref|NP_808251.1| gamma-secretase subunit APH-1B [Mus musculus].
Length = 257
Score = 270 bits (690), Expect = 2e-72
Identities = 133/247 (53%), Positives = 176/247 (71%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
M AAVFFGC F+AFGPA AL++ T+A DPLRVI L+AG ++ +T
Sbjct: 1 MTAAVFFGCAFIAFGPALALYVFTIATDPLRVIFLIAGAFFWLVSLLLSSVFWFLVRVIT 60
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
D D +Q LLIFG +SV +QE+FR AYYKLLKKA EGL S++ + +P S+R +AYV
Sbjct: 61 DNRDGPVQNYLLIFGVLLSVCIQELFRLAYYKLLKKASEGLKSINPEETAP-SMRLLAYV 119
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 785
SGL FGI+SGVFS +N L+++LGPG VGIHGDSP +FL SAF+T +I+LH FWGVVFFD
Sbjct: 120 SGLGFGIMSGVFSFVNTLSNSLGPGTVGIHGDSPQFFLNSAFMTLVVIMLHVFWGVVFFD 179
Query: 786 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 965
CE+ +++ L V+ +HL+ S TFL+P+YE +L+ Y + V MG+WAF AGGS RS++
Sbjct: 180 GCEKNKWYTLLTVLLTHLVVSTQTFLSPYYEVNLVTAYIIMVLMGIWAFYVAGGSCRSLK 239
Query: 966 RSLSCKD 986
L C+D
Sbjct: 240 LCLLCQD 246
>ref|NP_080950.1| putative gamma-secretase subunit APH-1C [Mus musculus].
Length = 258
Score = 268 bits (684), Expect = 8e-72
Identities = 132/247 (53%), Positives = 174/247 (70%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
M VFFGC F+AFGPAFAL+L T+A DPLRVI L+AG ++ +T
Sbjct: 1 MTLPVFFGCAFIAFGPAFALYLFTIATDPLRVIFLIAGAFFWLVSLLLSSMFWFLVRVIT 60
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
+ D +Q LLIFGA +SV +QE+FR AYYKLLKKA EGL S++ + S+R +AYV
Sbjct: 61 NNRDESVQNYLLIFGALLSVCIQELFRLAYYKLLKKASEGLKSINPEEDIAPSMRLLAYV 120
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 785
SGL FGI+SGVFS +N L+++LGPG VGIHGDSP +FL SAF+T +I+LH FWGVVFFD
Sbjct: 121 SGLGFGIMSGVFSFVNTLSNSLGPGTVGIHGDSPQFFLNSAFMTLVVIMLHVFWGVVFFD 180
Query: 786 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 965
CE+ +++ L V+ +HL+ S TFL+P+YE +L+ Y + V MG+WAF AGGS RS++
Sbjct: 181 GCEKNKWYTLLTVLLTHLVVSTQTFLSPYYEVNLVTAYIIMVLMGIWAFYVAGGSCRSLK 240
Query: 966 RSLSCKD 986
L C+D
Sbjct: 241 FCLLCQD 247
Database: RefSeq49_MP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 15,617,559
Number of sequences in database: 30,036
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 30036
Number of Hits to DB: 43,705,965
Number of extensions: 1359379
Number of successful extensions: 5767
Number of sequences better than 1.0e-05: 4
Number of HSP's gapped: 5732
Number of HSP's successfully gapped: 4
Length of query: 376
Length of database: 15,617,559
Length adjustment: 103
Effective length of query: 273
Effective length of database: 12,523,851
Effective search space: 3419011323
Effective search space used: 3419011323
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 35 (18.1 bits)
Search to RefSeqSP_Rel49
BLASTX 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-000625
(1129 letters)
Database: RefSeq49_SP.fasta
24,897 sequences; 11,343,932 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
Alignment gi|XP_001924704.2| PREDICTED: gamma-secretase subunit APH-1A [S... 445 e-125
Alignment gi|XP_003353379.1| PREDICTED: gamma-secretase subunit APH-1B-li... 181 9e-46
Alignment gi|XP_003353377.1| PREDICTED: gamma-secretase subunit APH-1B-li... 181 9e-46
>ref|XP_001924704.2| PREDICTED: gamma-secretase subunit APH-1A [Sus scrofa].
Length = 265
Score = 445 bits (1144), Expect = e-125
Identities = 228/246 (92%), Positives = 229/246 (93%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
MGAAVFFGCTFVAFGPAF LFLITVAGDPLRVIILVAG ILVHVT
Sbjct: 1 MGAAVFFGCTFVAFGPAFRLFLITVAGDPLRVIILVAGAFFWLVSLLLASVVWFILVHVT 60
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV
Sbjct: 61 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 120
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 785
SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD
Sbjct: 121 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTSAFLTAAIILLHTFWGVVFFD 180
Query: 786 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 965
ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ
Sbjct: 181 ACERRRYWALGLVVGSHLLTSGLTFLNPWYEASLLPIYAVTVSMGLWAFITAGGSFRSIQ 240
Query: 966 RSLSCK 983
RSLSC+
Sbjct: 241 RSLSCR 246
>ref|XP_003353379.1| PREDICTED: gamma-secretase subunit APH-1B-like, partial [Sus
scrofa].
Length = 159
Score = 181 bits (458), Expect = 9e-46
Identities = 92/160 (57%), Positives = 113/160 (70%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
M AAVFFGC F+AFGPA AL++ T+A +PLR+I+L+ G + +T
Sbjct: 1 MTAAVFFGCAFIAFGPALALYVFTIATEPLRIILLIIGAFFWLVSLLLSSLVWFMATTIT 60
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
D D R+Q LLIFG VSVL+QE FRFAYYKLLKKA EGL SL+ D +P S+R +AYV
Sbjct: 61 DNKDERVQKYLLIFGVLVSVLIQETFRFAYYKLLKKASEGLKSLNPDETAP-SMRLLAYV 119
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTS 725
SGL FGI+SGVFS +N L+D+LGPG VGIHGD P +FL S
Sbjct: 120 SGLGFGIMSGVFSFVNTLSDSLGPGTVGIHGDPPQFFLNS 159
>ref|XP_003353377.1| PREDICTED: gamma-secretase subunit APH-1B-like [Sus scrofa].
Length = 229
Score = 181 bits (458), Expect = 9e-46
Identities = 92/160 (57%), Positives = 113/160 (70%)
Frame = +3
Query: 246 MGAAVFFGCTFVAFGPAFALFLITVAGDPLRVIILVAGXXXXXXXXXXXXXXXXILVHVT 425
M AAVFFGC F+AFGPA AL++ T+A +PLR+I+L+ G + +T
Sbjct: 1 MTAAVFFGCAFIAFGPALALYVFTIATEPLRIILLIIGAFFWLVSLLLSSLVWFMATTIT 60
Query: 426 DRSDARLQYGLLIFGAAVSVLLQEVFRFAYYKLLKKADEGLASLSEDGRSPISIRQMAYV 605
D D R+Q LLIFG VSVL+QE FRFAYYKLLKKA EGL SL+ D +P S+R +AYV
Sbjct: 61 DNKDERVQKYLLIFGVLVSVLIQETFRFAYYKLLKKASEGLKSLNPDETAP-SMRLLAYV 119
Query: 606 SGLSFGIISGVFSVINILADALGPGVVGIHGDSPYYFLTS 725
SGL FGI+SGVFS +N L+D+LGPG VGIHGD P +FL S
Sbjct: 120 SGLGFGIMSGVFSFVNTLSDSLGPGTVGIHGDPPQFFLNS 159
Database: RefSeq49_SP.fasta
Posted date: Oct 17, 2011 1:42 PM
Number of letters in database: 11,343,932
Number of sequences in database: 24,897
Lambda K H
0.318 0.134 0.401
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24897
Number of Hits to DB: 32,878,564
Number of extensions: 1058278
Number of successful extensions: 4785
Number of sequences better than 1.0e-05: 3
Number of HSP's gapped: 4750
Number of HSP's successfully gapped: 3
Length of query: 376
Length of database: 11,343,932
Length adjustment: 101
Effective length of query: 275
Effective length of database: 8,829,335
Effective search space: 2428067125
Effective search space used: 2428067125
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 34 (17.7 bits)
Search to Sscrofa10_2
BLASTN 2.2.24 [Aug-08-2010]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Query= 20110601C-000625
(1129 letters)
Database: Sscrofa_10.2.fasta
4582 sequences; 2,808,509,378 total letters
Searching..................................................done
Score E
Sequences producing significant alignments: (bits) Value
gb|GL893333.2| Sus scrofa unplaced genomic scaffold ChrUScaf1218 438 e-120
>gb|GL893333.2| Sus scrofa unplaced genomic scaffold ChrUScaf1218
Length = 75020
Score = 438 bits (221), Expect = e-120
Identities = 265/277 (95%), Gaps = 2/277 (0%)
Strand = Plus / Minus
Query: 854 gacattcctgaacccttggtacgaggcaagcctgctgcccatctatgcagtcactgtttc 913
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 14093 gacattcctgaacccttggtacgaggcaagcctgctgcccatctatgcagtcactgtttc 14034
Query: 914 catggggctctgggccttcatcacagctggagggtccttccgaagtatccagcgcagtct 973
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 14033 catggggctctgggccttcatcacagctggagggtccttccgaagtatccagcgcagtct 13974
Query: 974 ctcgtgtaaggactgactacctggactgatcgcctgacagatccca-ctgcctgcccact 1032
|||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||
Sbjct: 13973 ctcgtgtaaggactgactacctggactgatcgcctgacagatcccacctgcctgcccact 13914
Query: 1033 gcccatgaatgaacccagccccacccgggtccatatgcccatcattccctgtccccctct 1092
|||||||| ||| ||||||||||||||||||||| |||||||||||| ||||| || |
Sbjct: 13913 gcccatgactgagcccagccccacccgggtccat-tgcccatcattctctgtctcctcgt 13855
Query: 1093 cggccttttccacacccttcagggttttgctttgtcc 1129
||| ||||||||| ||||||||||||||||||||||
Sbjct: 13854 cggtcttttccaccaccttcagggttttgctttgtcc 13818
Score = 343 bits (173), Expect = 1e-91
Identities = 173/173 (100%)
Strand = Plus / Minus
Query: 358 gggcatttttctggctggtctccttgctcttggcctctgtagtctggttcatcttggtcc 417
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15690 gggcatttttctggctggtctccttgctcttggcctctgtagtctggttcatcttggtcc 15631
Query: 418 atgtgaccgaccggtcagatgcccggctccagtatggcctcctgatttttggtgctgcag 477
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15630 atgtgaccgaccggtcagatgcccggctccagtatggcctcctgatttttggtgctgcag 15571
Query: 478 tttctgtccttctacaggaggtgttccgctttgcctactacaagctgcttaag 530
|||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15570 tttctgtccttctacaggaggtgttccgctttgcctactacaagctgcttaag 15518
Score = 321 bits (162), Expect = 5e-85
Identities = 162/162 (100%)
Strand = Plus / Minus
Query: 122 gggtgacattgcaccgcgccccttacggggtcgcgtcgccaacgaacgcggacactctag 181
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 16585 gggtgacattgcaccgcgccccttacggggtcgcgtcgccaacgaacgcggacactctag 16526
Query: 182 ttggcgtgctcctccccttcgcctctcttagccaggcctccaccccgcccccagctgccc 241
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 16525 ttggcgtgctcctccccttcgcctctcttagccaggcctccaccccgcccccagctgccc 16466
Query: 242 agccatgggggccgcagtgttttttggatgcactttcgtcgc 283
||||||||||||||||||||||||||||||||||||||||||
Sbjct: 16465 agccatgggggccgcagtgttttttggatgcactttcgtcgc 16424
Score = 260 bits (131), Expect = 1e-66
Identities = 131/131 (100%)
Strand = Plus / Minus
Query: 724 cagcctttctgacagcagccattatcctgctccataccttttggggagtcgtgttctttg 783
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 14652 cagcctttctgacagcagccattatcctgctccataccttttggggagtcgtgttctttg 14593
Query: 784 atgcctgtgagaggagacggtactgggctttgggcctggtggttgggagtcacctactga 843
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 14592 atgcctgtgagaggagacggtactgggctttgggcctggtggttgggagtcacctactga 14533
Query: 844 catcaggactg 854
|||||||||||
Sbjct: 14532 catcaggactg 14522
Score = 246 bits (124), Expect = 2e-62
Identities = 124/124 (100%)
Strand = Plus / Minus
Query: 603 gtttctggtctttccttcggtatcatcagtggtgtcttctctgttatcaatattttggct 662
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 14927 gtttctggtctttccttcggtatcatcagtggtgtcttctctgttatcaatattttggct 14868
Query: 663 gatgcacttgggccaggtgtggttgggatccatggagactcaccctattacttcttgact 722
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 14867 gatgcacttgggccaggtgtggttgggatccatggagactcaccctattacttcttgact 14808
Query: 723 tcag 726
||||
Sbjct: 14807 tcag 14804
Score = 149 bits (75), Expect = 4e-33
Identities = 75/75 (100%)
Strand = Plus / Minus
Query: 5 agatgggaggtggccatggggctgcggatggggtttgtccccttttcggcttccgtagag 64
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 16760 agatgggaggtggccatggggctgcggatggggtttgtccccttttcggcttccgtagag 16701
Query: 65 gaagtcgcggggacc 79
|||||||||||||||
Sbjct: 16700 gaagtcgcggggacc 16686
Score = 147 bits (74), Expect = 2e-32
Identities = 74/74 (100%)
Strand = Plus / Minus
Query: 530 gaaggcagatgaggggttagcatcgctgagtgaggacggaagatcacccatctccatccg 589
||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 15248 gaaggcagatgaggggttagcatcgctgagtgaggacggaagatcacccatctccatccg 15189
Query: 590 gcagatggcctatg 603
||||||||||||||
Sbjct: 15188 gcagatggcctatg 15175
Score = 137 bits (69), Expect = 1e-29
Identities = 75/77 (97%)
Strand = Plus / Minus
Query: 283 ctttcggtccagcctttgcgcttttcttgatcactgtggccggagacccgcttcgtgtca 342
||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 16323 ctttcggtccagcctttaggcttttcttgatcactgtggccggagacccgcttcgtgtca 16264
Query: 343 tcatcctagtcgctggg 359
|||||||||||||||||
Sbjct: 16263 tcatcctagtcgctggg 16247
Database: Sscrofa_10.2.fasta
Posted date: Nov 16, 2011 10:34 AM
Number of letters in database: 2,808,509,378
Number of sequences in database: 4582
Lambda K H
1.37 0.711 1.31
Gapped
Lambda K H
1.37 0.711 1.31
Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Sequences: 4582
Number of Hits to DB: 29,194,497
Number of extensions: 206
Number of successful extensions: 206
Number of sequences better than 1.0e-05: 1
Number of HSP's gapped: 204
Number of HSP's successfully gapped: 8
Length of query: 1129
Length of database: 2,808,509,378
Length adjustment: 21
Effective length of query: 1108
Effective length of database: 2,808,413,156
Effective search space: 3111721776848
Effective search space used: 3111721776848
X1: 11 (21.8 bits)
X2: 15 (29.7 bits)
X3: 50 (99.1 bits)
S1: 18 (36.2 bits)
S2: 30 (60.0 bits)