Assembly Information

[Overview] [RefSeq] [Assembly & SNP] [Alignment]

Assembly Name: 20110601C-002159

Sequence: [FASTA format sequence] AACTGCGGCC GGTGCCCGCG CCCCCGCTGT GGCCGCACTT GAACCCTGTT CAGCAGGAGC GCGGACGTCT CCGCCTACCA GTCGGGCCAG AACCAGGTCT ATAACGAACT CAATATCGGA CGAAGAGAGG AGTATGCGGT CTTGGATAGA AGAGGGGGCC TGGATCCTGA GATGGGGGGA AAACCGCAGA GGAAGAAGAA TCCCCATGAA GTCGTGTACA ATGAGCTGCG AAAAGACAAG ATGGCAGAGG CCTACAGTGA GATTGGGATG AAGGGTGAGA ACCAGCGGCG AAGAGGCAAG GGGCACGATG GCCTTTACCA GGGACTCAGC ACGGCCACCA AGGACACCTA TGATGCCCTC CACATGCAGA CCCTGCCGCC TCGCTAACAG CACTAGAGAT TTCACCACCC ACAGGCCAGA CCTGCAGACA CCCAGATTGT TCAAGACCCA AGAAAAGCAT TTACAACCCG TTTTACTCTT ATTTCTCTAC CACCCAAGTA TTCCTCTTTA TGAACAGGAT GCTTCCAGTT GTAACATTTG GTTATATTCC CATTCCAAAC TGTCACAGAG TTCTTCCCTG GACGCTAGGA GGGAGTGTGT CCCCCAGGCC TTATGCTTGA GGAGCCCGCT GTGAGTGCAG CATGCTGTGT TCTGGTTTCC CAGAGGCCGT GGGCCGGCCC AGCTCTGTGC AGCTCCAGGC TCTGACCTGG GAGACGGGCA CCCTCCTTTT CACACACACA GCTGGGTTCA GGCTAAATCC CCAAAGAAAC CCCAGATGTT AGTGCACACT CATCATCTGT ATTGTTCTGT CAGTATTGGA ATGGCTTCGC TTCTGCTGTA AATTTGGCTT CTGTTGTCAG CGAACCCTCT CATTTCTTGG TGACTGGGCC GGGGAAGGCT GTTCTGCCCC CCGTTGAAGG ATCCGGGCAA AGGGGAAAAT GGGAATTGGT ACCACCCCAA GAAGGCTAAA AAGGGAACAA TGGTGGCTCC AGGAATGGGA CCCGGGAGCC CAAAGCCCGG GAAGGGGGCA GGAAAGGACC CCCCC

SNP mapping information

SNP ID Rel. Chr. Location (cM)
Assembly Overview: TOP

Change score limit to

BLAST on RefSeq (Human): TOP

Locus Definition Score E value FL
CD247 T-cell surface glycoprotein CD3 zeta chain isoform 1 precursor [Homo sapiens]. 188 8e-48

CD247 T-cell surface glycoprotein CD3 zeta chain isoform 2 precursor [Homo sapiens]. 181 8e-46

		Locus	Definition	Score	E value	FL
		CD247	T-cell surface glycoprotein CD3 zeta chain isoform 1 precursor [Homo sapiens].	188	8e-48
		CD247	T-cell surface glycoprotein CD3 zeta chain isoform 2 precursor [Homo sapiens].	181	8e-46

BLAST on RefSeq (Mouse): TOP

Locus Definition Score E value FL
Cd247 CD247 antigen isoform zeta precursor [Mus musculus]. 165 5e-41

Cd247 CD247 antigen isoform eta precursor [Mus musculus]. 130 2e-30

Cd247 CD247 antigen isoform iota precursor [Mus musculus]. 130 2e-30

Cd247 CD247 antigen isoform eta precursor [Mus musculus]. 130 2e-30

Cd247 CD247 antigen isoform theta precursor [Mus musculus]. 125 4e-29

Locus	Definition	Score	E value
Cd247	CD247 antigen isoform zeta precursor [Mus musculus].	165	5e-41
Cd247	CD247 antigen isoform eta precursor [Mus musculus].	130	2e-30
Cd247	CD247 antigen isoform iota precursor [Mus musculus].	130	2e-30
Cd247	CD247 antigen isoform eta precursor [Mus musculus].	130	2e-30
Cd247	CD247 antigen isoform theta precursor [Mus musculus].	125	4e-29

BLAST on RefSeq (Dog): TOP

Locus Definition Score E value FL
LOC611571 PREDICTED: similar to T-cell receptor zeta chain isoform 2 precursor [Canis familiaris]. 137 2e-32

		Locus	Definition	Score	E value	FL
		LOC611571	PREDICTED: similar to T-cell receptor zeta chain isoform 2 precursor [Canis familiaris].	137	2e-32

BLAST on RefSeq (Cattle): TOP

Locus Definition Score E value FL
CD247 T-cell surface glycoprotein CD3 zeta chain [Bos taurus]. 203 2e-52

		Locus	Definition	Score	E value	FL
		CD247	T-cell surface glycoprotein CD3 zeta chain [Bos taurus].	203	2e-52

BLAST on RefSeq (Pig): TOP

Locus Definition Score E value FL
CD247 T-cell surface glycoprotein CD3 zeta chain [Sus scrofa]. 224 5e-59

		Locus	Definition	Score	E value	FL
		CD247	T-cell surface glycoprotein CD3 zeta chain [Sus scrofa].	224	5e-59

Assembly Members: 4 TOP

Library Plate Loc. Read Name Accession Full Seq.

CLNT1 0097 E04 CLNT1_0097_E04.b FS664106 AK400411
SPL01 0032 C02 SPL01_0032_C02.b CJ016499
TES01 0097 C10 TES01_0097_C10.b CJ036325
TES01 0111 F07 TES01_0111_F07.b CJ037338

SNPs: 2 TOP
Loc. Allele Individuals Freq. Type AA Change
Western Meishan
276 C 2 0 0.500 W S GGC/G
T 2 0 0.500 GGT/G
615 C 2 0 0.500 W -
G 2 0 0.500

Alignment: TOP

20110601C-002159 : ............................................................
                   ---------+---------+---------+---------+---------+---------+ 0
TES01_0097_C10.b :                                                             
CLNT1_0097_E04.b : ngccttttngggaaangtcagcgnacgagtgxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
SPL01_0032_C02.b :                                    nnnnnggctagtgacttnacxxxxx
TES01_0111_F07.b :                                                             


20110601C-002159 : ......................AACTGCGGCCGGTGCCCGCGCCCCCGCTGTGGCCGCAC
                   ---------+---------+---------+---------+---------+---------+ 38
TES01_0097_C10.b : nttttactgcgttggctactggAACTGCGGCCGGTGCCCGCGCCCCCGCTGTGGCCGCAC
CLNT1_0097_E04.b : xxxxxxxxxxxxxxxxxxcggtAACTGCGGCCGGTGCCCGCGCCCCCGCTGTGGCCGCAC
SPL01_0032_C02.b : xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxGCAC
TES01_0111_F07.b :                                                             


20110601C-002159 : TTGAACCCTGTTCAGCAGGAGCGCGGACGTCTCCGCCTACCAGTCGGGCCAGAACCAGGT
                   ---------+---------+---------+---------+---------+---------+ 98
TES01_0097_C10.b : TTGAACCCTGTTCAGCAGGAGCGCGGACGTCTCCGCCTACCAGTCGGGCCAGAACCAGGT
CLNT1_0097_E04.b : TTGAACCCTGTTCAGCAGGAGCGCGGACGTCTCCGCCTACCAGTCGGGCCAGAACCAGGT
SPL01_0032_C02.b : TTGAACCCTGTTCAGCAGGAGCGCGGACGTCTCCGCCTACCAGTCGGGCCAGAACCAGGT
TES01_0111_F07.b :                                                            n


20110601C-002159 : CTATAACGAACTCAATATCGGACGAAGAGAGGAGTATGCGGTCTTGGATAGAAGAGGGGG
                   ---------+---------+---------+---------+---------+---------+ 158
TES01_0097_C10.b : CTATAACGAACTCAATATCGGACGAAGAGAGGAGTATGCGGTCTTGGATAGAAGAGGGGG
CLNT1_0097_E04.b : CTATAACGAACTCAATATCGGACGAAGAGAGGAGTATGCGGTCTTGGATAGAAGAGGGGG
SPL01_0032_C02.b : CTATAACGAACTCAATATCGGACGAAGAGAGGAGTATGCGGTCTTGGATAGAAGAGGGGG
TES01_0111_F07.b : cctgctgtggctctcaATCGGACGAAGAGAGGAN*ATGCGGTCTTGGATAGAAGAGGGGG


20110601C-002159 : CCTGGATCCTGAGATGGGGGGAAAACCGCAGAGGAAGAAGAATCCCCATGAAGTCGTGTA
                   ---------+---------+---------+---------+---------+---------+ 218
TES01_0097_C10.b : CCTGGATCCTGAGATGGGGGGAAAACCGCAGAGGAGGAAGAATCCCCATGAAGTCGTGTA
CLNT1_0097_E04.b : CCTGGATCCTGAGATGGGGGGAAAACCGCAGAGGAAGAAGAATCCCCATGAAGTCGTGTA
SPL01_0032_C02.b : CCCGGATCCTGAGATGGGGGGAAAACCGCAGAGGAAGAAGAATCCCCATGAAGTCGTGTA
TES01_0111_F07.b : CCTGGATCCTGAGATGGGGGGAAAACCGCAGAGGAAGAAGAATCCCCATGAAGTCGTGTA


20110601C-002159 : CAATGAGCTGCGAAAAGACAAGATGGCAGAGGCCTACAGTGAGATTGGGATGAAGGGTGA
                   ---------+---------+---------+---------+---------+---------+ 278
TES01_0097_C10.b : CAATGAGCTGCGAAAAGACAAGATGGCAGAGGCCTACAGTGAGATTGGGATGAAGGGCGA
CLNT1_0097_E04.b : CAATGAGCTGCGAAAAGACAAGATGGCAGAGGCCTACAGTGAGATTGGGATGAAGGGTGA
SPL01_0032_C02.b : CAATGAGCTGCGAAAAGACAAGATGGCAGAGGCCTACAGTGAGATTGGGATGAAGGGTGA
TES01_0111_F07.b : CAATGAGCTGCGAAAAGACAAGATGGCAGAGGCCTACAGTGAGATTGGGATGAAGGGCGA


20110601C-002159 : GAACCAGCGGCGAAGAGGCAAGGGGCACGATGGCCTTTACCAGGGACTCAGCACGGCCAC
                   ---------+---------+---------+---------+---------+---------+ 338
TES01_0097_C10.b : GAACCAGCGGCGAAGAGGCAAGGGGCACGATGGCCTTTACCAGGGACTCAGCACGGCCAC
CLNT1_0097_E04.b : GAACCAGCGGCGAAGAGGCAAGGGGCACGATGGCCTTTACCAGGGACTCAGCACGGCCAC
SPL01_0032_C02.b : GAACCAGCGGCGAAGAGGCAAGGGGCACGATGGCCTTTACCAGGGACTCAGTACGGCCAC
TES01_0111_F07.b : GAACCAGCGGCGAAGAGGCAAGGGGCACGATAGCCTTTACCAGGGACTCAGCACGGCCAC


20110601C-002159 : CAAGGACACCTATGATGCCCTCCACATGCAGACCCTGCCGCCTCGCTAACAGCACTAGAG
                   ---------+---------+---------+---------+---------+---------+ 398
TES01_0097_C10.b : CAAGGACACCTATGATGCCCTCCACATGCAGACCCTGCCGCCTCGCTAACAGCACTAGAG
CLNT1_0097_E04.b : CAAGGACACCTATGATGCCCTCCACATGCAGACCCTGCCGCCTCGCTAACAGCACTAGAG
SPL01_0032_C02.b : CAAGGACACCTATGATGCCCTCCACATGCAGACCCTGCCGCCTCGCTAACAGCACTAGAG
TES01_0111_F07.b : CAAGGACACCTATGATGCCCTCCACATGCAGACCCTGCCGCCTCGCTAACAGCACTAGAG


20110601C-002159 : ATTTCACCACCCACAGGCCAGACCTGCAGACACCCAGATTGTTCAAGACCCAAGAAAAGC
                   ---------+---------+---------+---------+---------+---------+ 458
TES01_0097_C10.b : ATTTCACCACCCACAGGCCAGACCTGCAGACACCCAGATTGTTCAAGACCCAAGAAAAGC
CLNT1_0097_E04.b : ATTTCACCACCCACAGGCCAGACCTGCAGACACCCAGATTGTTCAAGACCCAAGAAAAGC
SPL01_0032_C02.b : ATTTCACCACCCACAGGCCAGACCTGCAGACACCCAGATTGTTCAAGACCCAAGAAAAGC
TES01_0111_F07.b : ATTTCACCACCCACAGGCCAGACCTGCAGACACCCAGATTGTTCAAGACCCAAGAAAAGC


20110601C-002159 : ATTTACAACCCGTTTTACTCTTATTTCTCTACCACCCAAGTATTCCTCTTTATGAACAGG
                   ---------+---------+---------+---------+---------+---------+ 518
TES01_0097_C10.b : ATTTACAACCCGTTTTACTCTTATCTCTCTACCACCCAAGTATTCCTCTTTATGAACAGG
CLNT1_0097_E04.b : ATTTACAACCCGTTTTACTCTTATTTCTCTACCACCCAAGTATTCCTCTTTATGAACAGG
SPL01_0032_C02.b : ATTTACAACCCGTTTTACTCTTATTTCTCTACCACCCAAGTATTCCTCTTTATGAACAGG
TES01_0111_F07.b : ATTTACAACCCGTTTTACTCTTATTTCTCTACCACCCAAGTATTCCTCTTTATGAACAGG


20110601C-002159 : ATGCTTCCAGTTGTAACATTTGGTTATATTCCCATTCCAAACTGTCACAGAGTTCTTCCC
                   ---------+---------+---------+---------+---------+---------+ 578
TES01_0097_C10.b : ATGCTTCCAGTTGTAACATTTGGTTATATTCCCATTCCAAACTGTCACAGAGTTCTTCCC
CLNT1_0097_E04.b : ATGCTTCCAGTTGTAACATTTGGTTATATTCCCATTCCAAACTGTCACAGAGTTCTTCCC
SPL01_0032_C02.b : ATGCTTCCAGTTGTAACATTTGGTTATATTCCCATTCCAAACTGTCACAGAGTTCTTCCC
TES01_0111_F07.b : ATGCTTCCAGTTGTAACATTTGGTTATATTCCCATTCCAAACTGTCACAGAGTTCTTCCC


20110601C-002159 : TGGACGCTAGGAGGGAGTGTGTCCCCCAGGCCTTATGCTTGAGGAGCCCGCTGTGAGTGC
                   ---------+---------+---------+---------+---------+---------+ 638
TES01_0097_C10.b : TGGACGCTAGGAGGGAGTGTGTCCCCCAGGCCTTATCCTTGAGGAGCCCGCTGTGAGTGC
CLNT1_0097_E04.b : TGGACGCTAGGAGGGAGTGTGTCCCCCAGGCCTTATGCTTGAGGAGCCCGCTGTGAGTGC
SPL01_0032_C02.b : TGGACGCTAGGAGGGAGTGTGNTCCCCAGGCCTTATGCTTTGAGGAGCCGCTGTGAGTGC
TES01_0111_F07.b : TGGACGCTAGGAGGGAGTGTGTCCCCCAGGCCTTATCCTTGAGGAGCCCGCTGTGAGTGC


20110601C-002159 : AGCATGCTGTGTTCTGGTTTCCCAGAGGCCGTGGGCCGGCCCAGCTCTGTGCAGCTCCAG
                   ---------+---------+---------+---------+---------+---------+ 698
TES01_0097_C10.b : AGCATGCTGTGTTCTGGTTTCTCAGAGGCCGTGGGCCGGCCCAGCTCTGTGCAGCTCCAG
CLNT1_0097_E04.b : AGCATGCTGTGTTCTGGTTTCCCAGAGGCCGTGGGCCGGCCCAGCTCTGTGCAGCTCCAG
SPL01_0032_C02.b : AGCATGCTGTGTTCTGGTTTTCCAGAGGCCGTGGGCCGGCCCAGCTCTGTGCAGCTCCAG
TES01_0111_F07.b : AGCATGCTGTGTTCTGGTTTCTCAGAGGCCGTGGGCCGGCCCAGCTCTGTGCAGCTCCAG


20110601C-002159 : GCTCTGACCTGGGAGACGGGCACCCTCCTTTTCACACACACAGCTGGGTTCAGGCTAAAT
                   ---------+---------+---------+---------+---------+---------+ 758
TES01_0097_C10.b : GCTCTGACCTGGGAGACGGGCACCCTCCTTTTCACACACACAGCTGGGTTCAGGCTAAAT
CLNT1_0097_E04.b : GCTCTGACCTGNGAGACGGGCACCCTCCTTTTCACACACACAGCTGGGTTCAGGCTAAAT
SPL01_0032_C02.b : GCTCTGACCTGGGGAGACGGCACCCT*CTTTTCACACACACAGCTGGGTTCAGGCTAAAT
TES01_0111_F07.b : GCTCTGACCTGNGAGACGGGCACCCTCCTTTTCACACACACAGCTGGGTTCAGGCTAAAT


20110601C-002159 : CCCCAAAGAAACCCCAGATGTTAGTGCACACTCATCATCTGTATTGTTCTGTCAGTATTG
                   ---------+---------+---------+---------+---------+---------+ 818
TES01_0097_C10.b : CCCCAAAGAACCCCCAGATGTTAGTGCCCACTCATCATCTGTATTGTTCTGTCAGTACTG
CLNT1_0097_E04.b : CCCCNAAGAAACCCCAGATGTTAGTGCACACTCATCATCTGTATTGTTCTGTCAGTATTG
SPL01_0032_C02.b : CCCC*AAGAAAACCCAGATGTTAGTGCACACTCATCATCTGTATTGTTCTGTCAGTATGG
TES01_0111_F07.b : CCCCAAAGAAACCCCAGATGTTAGTGCACACTCATCATCTGTATTGTTCTGTCAGTACTG


20110601C-002159 : GAATGGCTTCGCTTCTGCTGTAAATTTGGCTTCTGTTGTCAGCGAACCCTCTCATTTCTT
                   ---------+---------+---------+---------+---------+---------+ 878
TES01_0097_C10.b : GAATGGCTTCCCTTCTGCTGTAAATTTGGCTTCCGTTGTCAGCGAACCCTCCCATTTCTT
CLNT1_0097_E04.b : GAATGGCTTCGCTTCTGCTGTAAATTTGCCTTCTGGTGTCAGCGAACCCTCTCATTTCTT
SPL01_0032_C02.b : GAATGGCTTCGCTTCTGCTGTAAATTGGGCT*CTGTTGTCAGCGGACCCTCTCATTTCTT
TES01_0111_F07.b : GAATGGCTTCGCTTCTGCTGTAAATTTGGCTTCTGTTGTCAGCGAACCCTCTCATTTCTT


20110601C-002159 : GGTGACTGGGCCGGGGAAGGCTGTTCTGCCCCCCGTTGAAGGATCCGGGCAAAGGGGAAA
                   ---------+---------+---------+---------+---------+---------+ 938
TES01_0097_C10.b : GGTGACTGGGCCGGGGAAGGCTGTTCTGCCCCCCCTTGAAGGATCCCGGCAAAGGGGAAA
CLNT1_0097_E04.b : GGTGACTGGGNCGGGNA*GGCTGGTCTGCACCCCGTGAAGGATCCGGcagaaggggagat
SPL01_0032_C02.b : GTGAACTGGGCCGGGGA*AGCTGTTCTGCCACCCCCTGAAGattcgggcagaggggaaaa
TES01_0111_F07.b : GGTGACTGGGGCGGGGGAGGCTGTCTGCCACCCC**TGAAGGATCCGGGCAAAGGGGAAA


20110601C-002159 : ATGGGAATTGGTACCACCCCAAGAAGGCTAAAAAGGGAACAATGGTGGCTCCAGGAATGG
                   ---------+---------+---------+---------+---------+---------+ 998
TES01_0097_C10.b : ATGGGAGTTGGTtacccccccaaggaagctgaaaagggaaccctgggggcctcagggaag
CLNT1_0097_E04.b : gggattgggaacaccaaaggagctgaaaagggagcattgttggttcagnatgggaacagg
SPL01_0032_C02.b : gggagttggtaacacccaaagaggctgaanaggaaacaatggtggctcgggatgggagca
TES01_0111_F07.b : ATGGGAATTGGTACCACCCCAAGAAGGCTAAAAAGGGAACAATGGTGGCTCCAGGAATGG


20110601C-002159 : GACCCGGGAGCCCAAAGCCCGGGAAGGGGGCAGGAAAGGACCCCCCC.............
                   ---------+---------+---------+---------+---------+---------+ 1045
TES01_0097_C10.b : ggaacagggagcccaagggcccggggagggggggcagaaaagaacccccccctcccacca
CLNT1_0097_E04.b : agcccaagcccgggagggggcaggaaagaccccccgcatcaacattgtccccgttaaaat
SPL01_0032_C02.b : ggagccgaggcccgggaggggggcaggaaggacccccctggcatcaacctagttccccgt
TES01_0111_F07.b : GACCCGGGAGCCCAAAGCCCGGGAAGGGGGCAGGAAAGGACCCCCCCgggaatcaaaaat


20110601C-002159 : ............................................................
                   ---------+---------+---------+---------+---------+---------+ 1045
TES01_0097_C10.b : aataaattttcccccgtttataatttttgtttgcaaaccctgtggtgggactaaaaaata
CLNT1_0097_E04.b : tgtggccgaaccggggggacaaaaaaaaaaaccttatttgcccggggaaccaactccggg
SPL01_0032_C02.b : tttagaattgtgggccaaccctgggggaccaaaaaaaaagagccatttttggccccgggg
TES01_0111_F07.b : tggtccccctttaaaaaacttggggcccaaacctgtgggggacccaaaaaaaaaaaaacc


20110601C-002159 : ............................................................
                   ---------+---------+---------+---------+---------+---------+ 1045
TES01_0097_C10.b : taaaacccctttcttttcccccctgggaacccccaccctcccgggcacccagtgtgtaaa
CLNT1_0097_E04.b : gacaaatttgaaaaactgggtgaaaaagtttgccttgcccccccactgggccaaaaaacg
SPL01_0032_C02.b : agccccccccagggcaccagttgtaaaatctgggggaaaaaatgttgggcttgctccccc
TES01_0111_F07.b : ttttttttcccccggggaaccccccctcccgggccacaaatttgtaaaaaactgggggga


20110601C-002159 : ............................................................
                   ---------+---------+---------+---------+---------+---------+ 1045
TES01_0097_C10.b : agacctgggtgggaaaaaaatgttgcgcctttcttctccttcaacagttttcaaaaaaac
CLNT1_0097_E04.b : gtcggggagaatcagggaaacccgcccctcgccaaaaaccccgagaggggggggaccccg
SPL01_0032_C02.b : caatgggtcaaaaat                                            
TES01_0111_F07.b : aaaaaatttaggcccttttcccccctcacctggtgcccaaaaaaaccttgacggtgggaa


20110601C-002159 : ............................................................
                   ---------+---------+---------+---------+---------+---------+ 1045
TES01_0097_C10.b : catctacggtgaagaccctttgtgatt                                
CLNT1_0097_E04.b : gccctttgggaggggggtaaaagggggcccggggaaacacccgcccggggataattggtg
SPL01_0032_C02.b :                                                             
TES01_0111_F07.b : actccccggggaaattcgcccccctttcccccaaaaaattccccaagaataggtccccaa


20110601C-002159 : ............................................................
                   ---------+---------+---------+---------+---------+---------+ 1045
TES01_0097_C10.b :                                                             
CLNT1_0097_E04.b : gaggccttcggggaaagcggggaaaaaaaaaaggagggggccgggcggcgaaaaaa   
SPL01_0032_C02.b :                                                             
TES01_0111_F07.b : aaccccttgggccacttttgggaacggggggtgtataaaaggggcgtgggcccgcggtgg


20110601C-002159 : ............................................................
                   ---------+---------+---------+---------+---------+---------+ 1045
TES01_0097_C10.b :                                                             
CLNT1_0097_E04.b :                                                             
SPL01_0032_C02.b :                                                             
TES01_0111_F07.b : aaatataaaaaaaaaaggcccttgttctcccttgggggggcgcgccaaaa