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Target CDS Information

Gene Symbol (Gene ID) Sema4a (ENSMUSG00000028064)
Cross Reference
CCDS CCDS17475.1
EMBL AC102388, CH466547, X85991
GO GO:0001525, GO:0002292, GO:0005886, ...show all
goslim_goa GO:0000902, GO:0002376, GO:0005575, ...show all
MGI_trans_name Sema4a-001
OTTP OTTMUSP00000023497
OTTT OTTMUST00000050356
protein_id CAA59983.1, EDL15277.1, EDL15278.1, ...show all
Reactome R-MMU-1266738, R-MMU-373755, R-MMU-416700, ...show all
RefSeq_mRNA NM_013658.3
RefSeq_mRNA_predicted XM_006501188.2, XM_006501189.1
RefSeq_peptide NP_038686
RefSeq_peptide_predicted XP_006501250.1, XP_006501251.1, XP_006501252.1
UCSC uc008pvh.2
UniParc UPI0000022DA6
Uniprot/SWISSPROT Q62178
Vega_transcript OTTMUST00000050356, Sema4a-001
Vega_translation 187558, OTTMUSP00000023497
Definition protein_id:ENSMUSP00000029700
translation:
MALPSLGQDSWSLLRVFFFQLFLLPSLPPASGTGGQGPMPRVKYHAGDGHRALSFFQQKG
LRDFDTLLLSDDGNTLYVGAREAVLALNIQNPGIPRLKNMIPWPASERKKTECAFKKKSN
ETQCFNFIRVLVSYNATHLYACGTFAFSPACTFIELQDSLLLPILIDKVMDGKGQSPFDP
VHKHTAVLVDGMLYSGTMNNFLGSEPILMRTLGSQPVLKTDIFLRWLHADASFVAAIPST
QVVYFFFEETASEFDFFEELYISRVAQVCKNDVGGEKLLQKKWTTFLKAQLLCAQPGQLP
FNIIRHAVLLPADSPSVSRIYAVFTSQWQVGGTRSSAVCAFSLTDIERVFKGKYKELNKE
TSRWTTYRGSEVSPRPGSCSMGPSSDKALTFMKDHFLMDEHVVGTPLLVKSGVEYTRLAV
ESARGLDGSSHVVMYLGTSTGSLHKAVVPQDSSAYLVEEIQLSPDSEPVRNLQLAPAQGA
VFAGFSGGIWRVPRANCSVYESCVDCVLARDPHCAWDPESRLCSLLSGSTKPWKQDMERG
NPEWVCTRGPMARSPRRQSPPQLIKEVLTVPNSILELPCPHLSALASYHWSHGRAKISEA
SATVYNGSLLLLPQDGVGGLYQCVATENGYSYPVVSYWVDSQDQPLALDPELAGVPRERV
QVPLTRVGGGASMAAQRSYWPHFLIVTVLLAIVLLGVLTLLLASPLGALRARGKVQGCGM
LPPREKAPLSRDQHLQPSKDHRTSASDVDADNNHLGAEVA

Chromosome 3
Length
Position(start - end)
18,156
88,436,660 - 88,454,817
Orient to Chromosome minus
Link Location : (3:88436660-88454817)
/

Detail Map


 

Report

Polymorphisms Report

Target Strain  MSMv4  JF1v3  KJRv1  SWNv1  CHDv1  NJLv1  BLG2v1  HMIv1  BFMv1  PGN2v1
Gene Symbol (Gene ID) Sema4a (ENSMUSG00000028064)
Transcript ID ENSMUST00000029700
Reports
substitution
cSNPs10
Insertion9
Deletion18
SNPs
+1kb
5'UTR
CDS
3'UTR
INTRON
-1kb
Insertions
+1kb
5'UTR
CDS
3'UTR
INTRON
-1kb
Deletions
+1kb
5'UTR
CDS
3'UTR
INTRON
-1kb
coding sequence substitutions
premature termination by the nucleotide substitution0
synonymous num7
non-synonymous num3
synonymous substitutions 88436972 (p.Arg657Arg), 88437056 (p.Gly629Gly), 88437867 (p.Pro542Pro), 88438518 (p.Ser453Ser), 88448117 (p.Ser336Ser), 88452980 (p.Leu97Leu), 88454812 (p.Ala2Ala),
non-synonymous substitutions 88437133 (p.Val604Ile), 88452978 (p.Lys98Arg), 88454781 (p.Leu13Phe),
B6 transcript
(ENSMUST00000029700)
MALPSLGQDSWSLLRVFFFQLFLLPSLPPASGTGGQGPMPRVKYHAGDGHRALSFFQQKG
LRDFDTLLLSDDGNTLYVGAREAVLALNIQNPGIPRLKNMIPWPASERKKTECAFKKKSN
ETQCFNFIRVLVSYNATHLYACGTFAFSPACTFIELQDSLLLPILIDKVMDGKGQSPFDP
VHKHTAVLVDGMLYSGTMNNFLGSEPILMRTLGSQPVLKTDIFLRWLHADASFVAAIPST
QVVYFFFEETASEFDFFEELYISRVAQVCKNDVGGEKLLQKKWTTFLKAQLLCAQPGQLP
FNIIRHAVLLPADSPSVSRIYAVFTSQWQVGGTRSSAVCAFSLTDIERVFKGKYKELNKE
TSRWTTYRGSEVSPRPGSCSMGPSSDKALTFMKDHFLMDEHVVGTPLLVKSGVEYTRLAV
ESARGLDGSSHVVMYLGTSTGSLHKAVVPQDSSAYLVEEIQLSPDSEPVRNLQLAPAQGA
VFAGFSGGIWRVPRANCSVYESCVDCVLARDPHCAWDPESRLCSLLSGSTKPWKQDMERG
NPEWVCTRGPMARSPRRQSPPQLIKEVLTVPNSILELPCPHLSALASYHWSHGRAKISEA
SATVYNGSLLLLPQDGVGGLYQCVATENGYSYPVVSYWVDSQDQPLALDPELAGVPRERV
QVPLTRVGGGASMAAQRSYWPHFLIVTVLLAIVLLGVLTLLLASPLGALRARGKVQGCGM
LPPREKAPLSRDQHLQPSKDHRTSASDVDADNNHLGAEVA*
MSMv4 transcript
MALPSLGQDSWSFLRVFFFQLFLLPSLPPASGTGGQGPMPRVKYHAGDGHRALSFFQQKG
LRDFDTLLLSDDGNTLYVGAREAVLALNIQNPGIPRLRNMIPWPASERKKTECAFKKKSN
ETQCFNFIRVLVSYNATHLYACGTFAFSPACTFIELQDSLLLPILIDKVMDGKGQSPFDP
VHKHTAVLVDGMLYSGTMNNFLGSEPILMRTLGSQPVLKTDIFLRWLHADASFVAAIPST
QVVYFFFEETASEFDFFEELYISRVAQVCKNDVGGEKLLQKKWTTFLKAQLLCAQPGQLP
FNIIRHAVLLPADSPSVSRIYAVFTSQWQVGGTRSSAVCAFSLTDIERVFKGKYKELNKE
TSRWTTYRGSEVSPRPGSCSMGPSSDKALTFMKDHFLMDEHVVGTPLLVKSGVEYTRLAV
ESARGLDGSSHVVMYLGTSTGSLHKAVVPQDSSAYLVEEIQLSPDSEPVRNLQLAPAQGA
VFAGFSGGIWRVPRANCSVYESCVDCVLARDPHCAWDPESRLCSLLSGSTKPWKQDMERG
NPEWVCTRGPMARSPRRQSPPQLIKEVLTVPNSILELPCPHLSALASYHWSHGRAKISEA
SATIYNGSLLLLPQDGVGGLYQCVATENGYSYPVVSYWVDSQDQPLALDPELAGVPRERV
QVPLTRVGGGASMAAQRSYWPHFLIVTVLLAIVLLGVLTLLLASPLGALRARGKVQGCGM
LPPREKAPLSRDQHLQPSKDHRTSASDVDADNNHLGAEVA*
homology99.61 (761 / 761)

Exon Detail Report

Target Strain  MSMv4  JF1v3  KJRv1  SWNv1  CHDv1  NJLv1  BLG2v1  HMIv1  BFMv1  PGN2v1
Gene Symbol (Gene ID) Sema4a (ENSMUSG00000028064)
Transcript ID ENSMUST00000029700
No. Exon / Intron Start End Start Phase End Phase Length Sequence
5' upstream sequence
..........CAGAGGGGAAAGCATGAAGGGAAGGCCAAGCAGGCTCTACCGAGGAATGC
TTTCAGTCTAGGAGCTGTAACTGGAAGGGTGGAGGACAGCCTACAGTGGGGACCATCCTG
GCAGTGAGGATGGTGTTTACAGTGAAGATAGGGTATGTCCTGGAGGTAGACCAGCTTGGG
TCACTGTGCTCTTTAACCTGAAGTCAGCTGACCCGGGAGAGTGGGCAGCAGCCCAACCAC
TCTTTATTGGCCTAGGAGCCCTTGGTTACTCATTAACCCTGCGTTATGAGGTCTTCCTGG
AACCTTTGGGGAGGAGGAACCAACCACCATGCCAGCTGGGTGCTTCAGCTCCAAAGCGTA
TCCCAAGAAGCACGCGTTCAAATGGGGAATTTCTCCAATTTCCCACTGAGACGTCAAATT
ACTAGGGCTTCCTCAGCAAAGTCATAGGGAAAAACCAAAAAACTAATACAAATGTAGGAT
TTTTATTTATTTTTTATTTTTTTGATACGGGGTTTCTCTGTATAGCCCTGGATGACCTGG
AGCACACTCTGTAGATCAGGCTGGCCTCGAACTCAGAGATCTGCCTGCCTCTGCCTCCCG
AGTACTTGGATTAAAGGTATGCCTCGCCACCATGCCAGCTTTAAACGTGTTATCTTTCAA
GAATGTGGTCCTACTGGGTGTGGGAGGTCGGGAGGTCTCAGTATGTGGCAGTGGGGGAAC
CCCACAATGGGGTCAGAGAGAGAAGGAATAGGAGAGAGACGGTGTCATACCGAGCTCTCT
TGAGCAAGAGGAGTCTGCAGCTTGGGCTGGTTAGACTGGAAGTGGTGTGCGGGAGAAACA
AGGGCATCACTGAACTGGCCGGGAAGGAACTCTTAATTTCTGGATAGACTAAGGAGGGAG
GGAGGTGTGTCTCCTGCAAGGCCTTCAAGCCTCACCCCCACTCCCACACTCCACCAGTCT
CCCCGCCCTGATCCACCAACTTCCGCCCAAGCCAGCCAGGATCTGTCACA
1 EXON 1 88,455,548 88,455,739 - - 192
ACTCGAGGTAGAAATTCTGGTTTCCCTGGCCTGAAACCCACACTGGCTCTGGCAGGATGG
GTGCCTGGAGGGCCGCGCGCCCGTTCCAGCCAGGCTGAGCCTGCTTGCCTTGCCTGGACC
CCCTTCTTTGCCTCGGATGGCACCCTGATTCAGGGTTTGAACACAGGACTTCTCAGTGTG
GCTGGCTCAAGG
INTRON 1 - 2 88,454,847 88,455,547 701
GTATGTGAGATGAGGCGGGGGCGGG..........ACCCAGAAAGTGCCTGTTTCCTCAG
2 EXON 2 88,454,679 88,454,846 - 1 168
AACCATCTGGTGACCATCTCAGGCTGACCATGGCTCTACCATCCCTGGGCCAGGACTCAT
GGAGTTTCCTGCGTGTTTTTTTCTTCCAACTCTTCCTGCTGCCATCACTGCCACCTGCTT
CTGGGACTGGTGGTCAGGGGCCCATGCCCAGAGTCAAATACCATGCTG
INTRON 2 - 3 88,453,132 88,454,678 1,547
GTAAGTGTCTAGTACCTGGGAGGTA..........TCTCCTTGTCATTGCCTCCCAACAG
3 EXON 3 88,452,971 88,453,131 1 0 161
GAGACGGGCACAGGGCCCTCAGCTTCTTCCAACAAAAAGGCCTCCGAGACTTTGACACGC
TGCTCCTGAGTGACGATGGCAACACTCTCTATGTGGGGGCTCGAGAGGCCGTCCTGGCCT
TGAATATCCAGAACCCAGGAATCCCAAGGCTGAGGAACATG
INTRON 3 - 4 88,452,083 88,452,970 888
GTGAGGAGGCCAGGGGCCAGAGTCC..........TACCCCTTTCAACTCTCCACTTTAG
4 EXON 4 88,452,020 88,452,082 0 0 63
ATACCCTGGCCAGCCAGTGAGAGAAAAAAGACCGAATGTGCCTTTAAGAAGAAGAGCAAT
GAG
INTRON 4 - 5 88,451,787 88,452,019 233
GTAAACGCAGGTGGGGGCAGAGGGT..........GCCTGATTTCTTTGCTTCTCCATAG
5 EXON 5 88,451,688 88,451,786 0 0 99
ACACAGTGTTTCAACTTCATTCGAGTCCTGGTCTCTTACAATGCTACTCACCTCTATGCC
TGTGGGACCTTTGCCTTCAGCCCTGCCTGTACCTTCATT
INTRON 5 - 6 88,451,451 88,451,687 237
GTGAGTTGTCTGACCCCCACTACCC..........GCTCCCAGCCTCTTCCCCCCTCTAG
6 EXON 6 88,451,345 88,451,450 0 1 106
GAACTCCAAGATTCCCTCCTGTTGCCCATCTTGATAGACAAGGTCATGGACGGGAAGGGC
CAAAGCCCCTTTGACCCTGTTCACAAGCACACAGCTGTCTTGGTCG
INTRON 6 - 7 88,450,628 88,451,344 717
GTGAGTGTGGGGCTTTCCTGACCCT..........TTCTCCCCCCTCTCCCTGGTCTTAG
7 EXON 7 88,450,511 88,450,627 1 1 117
ATGGGATGCTTTATTCCGGCACCATGAACAACTTCCTGGGCAGCGAGCCCATCCTGATGC
GGACACTGGGATCCCAGCCTGTTCTCAAGACTGACATCTTCTTACGCTGGCTGCACG
INTRON 7 - 8 88,450,113 88,450,510 398
GTAAAAGTCCCTGACTCCCAGTCAA..........GAGCCTGTCTGTTCTGTCCCTGCAG
8 EXON 8 88,449,988 88,450,112 1 0 125
CGGATGCCTCCTTCGTGGCAGCCATTCCATCCACCCAGGTCGTCTATTTCTTCTTTGAGG
AGACAGCCAGCGAGTTTGACTTCTTTGAAGAGCTGTATATATCCAGGGTGGCTCAAGTCT
GCAAG
INTRON 8 - 9 88,449,853 88,449,987 135
GTCTGCCCTCATCCCCCAAGCTGCC..........GCCTTGACTCCATCCTTTCCCCTAG
9 EXON 9 88,449,680 88,449,852 0 2 173
AACGACGTGGGCGGTGAAAAGCTGCTGCAGAAGAAGTGGACCACCTTCCTCAAAGCCCAG
TTGCTCTGCGCTCAGCCAGGGCAGCTGCCATTCAACATCATCCGCCACGCGGTCCTGCTG
CCCGCCGATTCTCCCTCTGTTTCCCGCATCTACGCAGTCTTTACCTCCCAGTG
INTRON 9 - 10 88,448,142 88,449,679 1,538
GTGAGCAGCAAGGCAGGGAAAAGGA..........GAATGTCTTCTCTGGCTGTCTTCAG
10 EXON 10 88,447,991 88,448,141 2 0 151
GCAGGTTGGCGGGACCAGGAGCTCGGCAGTCTGTGCCTTCTCTCTCACGGACATTGAGCG
AGTCTTTAAAGGGAAGTACAAGGAGCTGAACAAGGAGACCTCCCGCTGGACCACTTACCG
GGGCTCAGAGGTCAGCCCGAGGCCAGGCAGT
INTRON 10 - 11 88,440,879 88,447,990 7,112
GTAAGTACCACCCACTCCTCCCAGC..........ACACTCTGCTTTCCTCCTCCTCTAG
11 EXON 11 88,440,698 88,440,878 0 1 181
TGCTCCATGGGCCCCTCCTCTGACAAAGCCTTGACCTTCATGAAGGACCATTTTCTGATG
GATGAGCACGTGGTAGGAACACCCCTGCTGGTGAAGTCTGGTGTGGAGTACACACGGCTT
GCTGTGGAGTCAGCTCGGGGCCTTGATGGGAGCAGCCATGTGGTCATGTATCTGGGTACC
T
INTRON 11 - 12 88,438,562 88,440,697 2,136
GTGAGTAGAGGCTTCCAGAATATAC..........TTCTACCTTGTCTCTGTCTCTGCAG
12 EXON 12 88,438,443 88,438,561 1 0 119
CCACGGGGTCCCTGCACAAGGCTGTGGTGCCTCAGGACAGCAGCGCTTATCTCGTGGAGG
AGATTCAGCTGAGCCCTGACTCTGAGCCTGTTCGAAACCTGCAGCTGGCCCCCGCCCAG
INTRON 12 - 13 88,438,341 88,438,442 102
GTGAGAAGGGACCTGAACAGAACAC..........TGACACCCTCCATCTCTTTGCCCAG
13 EXON 13 88,438,183 88,438,340 0 2 158
GGTGCAGTGTTTGCAGGCTTCTCTGGAGGCATCTGGAGAGTTCCCAGGGCCAATTGCAGT
GTCTACGAGAGCTGTGTGGACTGTGTGCTTGCCAGGGACCCTCACTGTGCCTGGGACCCT
GAATCAAGACTCTGCAGCCTTCTGTCTGGCTCTACCAA
INTRON 13 - 14 88,437,901 88,438,182 282
GTGAGTGCTGACCCTGAATGGTGAC..........GAGTTTGCTTGCTTTGTCTTCTCAG
14 EXON 14 88,437,803 88,437,900 2 1 98
GCCTTGGAAGCAGGACATGGAACGCGGCAACCCAGAGTGGGTATGCACCCGTGGCCCCAT
GGCCAGGAGCCCCCGGCGTCAGAGCCCCCCTCAACTAA
INTRON 14 - 15 88,437,253 88,437,802 550
GTGAGTGTGGGACTGGAGGAGGTAA..........ATGTCACCTCTTTTCTCTTCTCCAG
15 EXON 15 88,435,959 88,437,252 1 - 1,294
TTAAAGAAGTCCTGACAGTCCCCAACTCCATCCTGGAGCTGCCCTGCCCCCACCTGTCAG
CACTGGCCTCTTACCACTGGAGTCATGGCCGAGCCAAAATCTCAGAAGCCTCTGCTACCA
TCTACAATGGCTCCCTCTTGCTGCTGCCGCAGGATGGTGTCGGGGGCCTCTACCAGTGTG
TGGCGACTGAGAACGGGTACTCATACCCTGTGGTCTCCTATTGGGTAGACAGCCAGGACC
AGCCCCTGGCGCTGGACCCTGAGCTGGCGGGCGTTCCCCGCGAGCGTGTGCAGGTCCCGC
TGACCAGGGTCGGAGGCGGAGCTTCCATGGCTGCCCAGCGGTCCTACTGGCCCCATTTTC
TCATCGTTACCGTCCTCCTGGCCATCGTGCTCCTGGGAGTGCTCACTCTCCTCCTCGCTT
CCCCACTGGGGGCGCTGCGGGCTCGGGGTAAGGTTCAGGGCTGTGGGATGCTGCCCCCCA
GGGAAAAGGCTCCACTGAGCAGGGACCAGCACCTCCAGCCCTCCAAGGACCACAGGACCT
CTGCCAGTGACGTAGATGCCGACAACAACCATCTGGGCGCCGAAGTGGCTTAAACAGGGA
CACAGATCCGCAGCTGAGCAGAGCAAGCCACTGGCCTTGTTGGCTATGCCAGGCACAGTG
CCACTCTGACCAGGGTAGGAGGCTCTCCTGCTAACGTGTGTCACCTACAGCACCCAGTAG
GTCCTCCCCTGTGGGACTCTCTTCTGCAAGCACATTGGGCTGTCTCCATACCTGTACTTG
TGCTGTGACAGGAAGAGCCAGGCAGGTTTCTTTGATTTTGATTGACCCAAGAGCCCTCCT
GTAACAAACGTGCTCCAGGAGACCATGAAAGGTGTGGCTGTCTGGGATTCTGTGATGACA
AACCTAAGCATCCGAGCAAGCTGGGGCTATTCCTGCAAACTCCATCCTGAACGCTGTCAC
TCTAGAAGCAGCTGCTGCTTTGAACACCAGCCCACCCTCCTTCCCAAGAGTCTCTATGGA
GTTGGCCCCTTGTGTTTCCTTTACCAGTCATGCCATACTGTTTGGGAAGTCATCTCTGAA
GTCTAACCACCTTCCTTCTTGCTTCAGTTTGGACAGATTGTTATTATTGTCTCTGCCCTG
GCTAGAATGGGGGGCATAATCTGAGCCTTGTTCCCTTGTCCAGTGTGGCTGACCCTTGAC
CTCTTCCTTCCTCCTCCCTTTGTTTTGGGATTCAGAAAACTGCTTGTCACAGACAATTTA
TTTTTTATTAAAAAAGATATAAGCTTTAAAGAAA
3' upstream sequence
GCTTATGGCGTGCTGTGCTGTTTTTCTTACGGCTAAGTTCCCACCTGTGTGGAGGATCAG
GTCTGCCCTAGCCAGCCCTTCTCTGGTCTCCAGGCAGAGCTAGGACTGTGTGGACCAGCC
TCAGCAGTGCGTGCGAGACTCTCTGGCTGCCACACACCTGCTGTTCCCAGCACTCCCACG
CTCATCGTGACTCCAGCTCAGCTCTGCCCCCAGCCGCAGTTTCTGGAGGTGCTCCACAGC
CACCCCCACCCTGGCCTCATCCGTCTGTCTGTCTCCACACTTCCCCACACTGCCTTTTCC
TCTCTCTGCCAGACGCGGCAGCCTGCCTAACCTCTGTTCTCTAGTGTAATTCCCAGCAGG
GCCCCCCACTTCACTTAGCTGGTTCCCTCCTTCTGACTGCAGGTGCACACAGGCCATGCA
AAACTGAACACAAAGGTTTAGGGGCATCTACCTGTGAGCCCAGCATTCAGGAGGCTGAGG
CACGAGAACCCAGAGCTGAAAACTAGCCTTGGCCAAATAATAAGACAGAGGCCAACCTGG
GCTACAAGAATGTCTCAAAACATCAAAACCAAAAAGCCAAAAACCTTCTCCATAACTCTA
CCTATATATCCCGTACTTAGTTTCTCTTTCCTATGACCACTGAACAACGCCAGAGTCCAC
TGTGGCCTCCCATTTCCCCCTCCCTGGCTCTCTTTGAGCCCCTGTGGTATCGTTCTCCCC
ACTTTCTGCTCTGAGACCTCTTTAAGATTGACATTAAGTCTTTAACAACAGCTTAACTGT
GACCTCTGCTCACAGCTACCTATTCCTCACCAACCTTCTACTATAGAGTTTTTAAAAAGT
TCTTAGAGCCAGTGAGATGGCTGGACAAGCAAAGGTGTCTGCCCCAAGCCCATTTGACCT
GAGTTCAGTCCCTGGGACCCACACACTGGACTGAAACCTGAGCTCTACACATGTGATGTT
GTACCTATATGTCCACACATGCACACATGAATGGAGGCTG..........

Sequence Detail Report

Gene Symbol (Gene ID) Sema4a (ENSMUSG00000028064)
Transcript ID ENSMUST00000029700
SNP Information
Strain :
Sequence Retrieve :
Exon translate :
CDS Start ( 1 ) - End ( 761 )
-
Strand : forward reverse
Show sequence : nucleotide amino acid
Color information