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Tutorials are available here.
http://dna.brc.riken.jp/en/msm_bac_en BAC clone ordering.

Target CDS Information

Gene Symbol (Gene ID) Shc1 (ENSMUSG00000042626)
Cross Reference
EMBL AC171273
GO GO:0000165, GO:0000187, GO:0001525, ...show all
goslim_goa GO:0003674, GO:0005575, GO:0005622, ...show all
MGI_trans_name Shc1-008
OTTP OTTMUSP00000024853
OTTT OTTMUST00000052410
UCSC uc008pzn.2
UniParc UPI0000F22230
Uniprot/SPTREMBL D3Z5U6
Vega_transcript OTTMUST00000052410, Shc1-008
Vega_translation 187726, OTTMUSP00000024853
Definition protein_id:ENSMUSP00000117190
translation:
MNKLSGGGGRRTRVEGGQLGGEEWTRHGSFVNKPTRGWLHPNDKVMGPGVSYLVRYMGCV
EVLQSMRALDFNTRTQVTREAISLVCEAVPGAKGATRRRKPCSRPLSSILGRSNLKFAGM
PITLTVSTSSLNLMAADCKQIIANHHMQSISFASGGDPDTAEYVAYVAKDPVNQRACHIL
ECPEGLAQDVISTIGQAFELRFKQYLRNPPKLVTPHDRMAGFDGSAWDEEEEEPPDHQYY
NDFPGKEPPLGGVVDMRLREGAARPTLPSAQMSSHLGATL
Chromosome 3
Length
Position(start - end) 		4,520
89,422,181 - 89,426,702
Orient to Chromosome plus
Link Location : (3:89422181-89426702)
/

Detail Map


 

Report

Polymorphisms Report

Target Strain  MSMv4  JF1v3  KJRv1  SWNv1  CHDv1  NJLv1  BLG2v1  HMIv1  BFMv1  PGN2v1
Gene Symbol (Gene ID) Shc1 (ENSMUSG00000042626)
Transcript ID ENSMUST00000137793
Reports
substitution
cSNPs3
Insertion5
Deletion9
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 num3
non-synonymous num0
synonymous substitutions 89423556 (p.Ala95Ala), 89424866 (p.Pro209Pro), 89426656 (p.Pro265Pro),
non-synonymous substitutions
B6 transcript
(ENSMUST00000137793) 
MNKLSGGGGRRTRVEGGQLGGEEWTRHGSFVNKPTRGWLHPNDKVMGPGVSYLVRYMGCV
EVLQSMRALDFNTRTQVTREAISLVCEAVPGAKGATRRRKPCSRPLSSILGRSNLKFAGM
PITLTVSTSSLNLMAADCKQIIANHHMQSISFASGGDPDTAEYVAYVAKDPVNQRACHIL
ECPEGLAQDVISTIGQAFELRFKQYLRNPPKLVTPHDRMAGFDGSAWDEEEEEPPDHQYY
NDFPGKEPPLGGVVDMRLREGAARPTLPSAQMSSHLGATL
MSMv4 transcript 
MNKLSGGGGRRTRVEGGQLGGEEWTRHGSFVNKPTRGWLHPNDKVMGPGVSYLVRYMGCV
EVLQSMRALDFNTRTQVTREAISLVCEAVPGAKGATRRRKPCSRPLSSILGRSNLKFAGM
PITLTVSTSSLNLMAADCKQIIANHHMQSISFASGGDPDTAEYVAYVAKDPVNQRACHIL
ECPEGLAQDVISTIGQAFELRFKQYLRNPPKLVTPHDRMAGFDGSAWDEEEEEPPDHQYY
NDFPGKEPPLGGVVDMRLREGAARPTLPSAQMSSHLGATL
homology100.00 (280 / 280)

Exon Detail Report

Target Strain  MSMv4  JF1v3  KJRv1  SWNv1  CHDv1  NJLv1  BLG2v1  HMIv1  BFMv1  PGN2v1
Gene Symbol (Gene ID) Shc1 (ENSMUSG00000042626)
Transcript ID ENSMUST00000137793
No. Exon / Intron Start End Start Phase End Phase Length Sequence
5' upstream sequence 
..........TGGGTTTGGTATTATTATGCACTTATGGCCAGACTCCAACTTCTAATATC
CCTTTCTCCTTCCTGTCTTTATTAACACAGATTTGTTTATGACCCTATTATCCCTTTGTG
GCTTGTAGGCACCAGTTCTGTTTCTTTCCCCTACCTCCAAGGCCAACTCCTCCACTAGCC
TGAGGTACACTGTCAGGTGGTTTACAGCCTGTAAGGAGTAACAATATATCTGTAGGTCCA
AGGGGTGGCTGCATGTCTCTGTATCCTCTGGGGAAGCCCTACTCCCACCCCCCAAGTCTG
TTGGTCCTTGGTGACTTGTAGAAACAGGCTTGCTCTAGCTCTTGTCTGGTAGCCCCCTGA
TGTACCACCAATAAATTGGCCTTTATTCCCATTTTAGCTTGTCTTTCCTCTTGGCTTTGC
ACTATATCCACTGGGACTTACTTTCTCTCCCTGGTTCTCTACTGTGGTCCACAGCTGTTG
TGGTGGAGGATGCTAATGGCCCAGGTTCCCTGGAGCTACCACCTCACTCACTGTATGGTG
GGGATGGGAGTGGTCTGGGCTGTCTGGGCTAGGGGGCTAGTCACGTCTTCAGCCAGGACT
GGAAAGGAAATGCTAAACTCTGGGGGACATCTCCCCCCTTCCCCTCCCCGCCCAGCAGCT
TCTGTTTCCTCTCTATCCCTTCCTGTCTTCCTGCTCTCTTTGGCTTGCCCACGTCGGTTT
GGATTGGTCCAGAGTTTCTCTTAACTCCTTCCTTTCTTTTTTCTCTTTTGCTTATTTTTC
CATCTTTTTTTCGCGCCGGGCACCTCCTCCTTCCCAGACAGTTGTTTGTATTGGGCTGGG
AGAGTGGCCTGGCTTGCACAAATTGTGTGGGGAGGTGTCTCAGCCCCTCTGAGCCTGTGA
GTCAGCACTGTCCTGGGGATTGGTCTCTCTCCTTAGTTCCCCGCCTCTGGGGAGGAGCCA
GTAAGCTCTGGGTCCAGCCTGTACTCCTCAGCCAGTAGAGGTTTCCTAGC
1 EXON 1 89,421,642 89,421,748 - - 107 
TGGGCTGTGCAAGGATGTGGTCTCAAACTGTCTAGGTCTGAGTTGGGAGAGCAGAGGTCA
CTTGTCCTTCGCCTCCCCAGGTCATCTGTTATCACCGGGCTGCCGAG
INTRON 1 - 2 89,421,749 89,422,177 429 
GTCAGACTAGGCTAAGGGCCTGGGG..........CTCAGGCCTCTTGCCCCTCCTCCAG
2 EXON 2 89,422,178 89,422,345 - 0 168 
GACATGAACAAGCTGAGTGGAGGCGGCGGGCGCAGGACTCGGGTAGAAGGGGGCCAGCTG
GGGGGCGAGGAGTGGACCAGACACGGGAGCTTTGTCAATAAGCCCACACGAGGCTGGCTG
CATCCCAACGACAAAGTCATGGGACCTGGGGTTTCCTACTTGGTTCGG
INTRON 2 - 3 89,422,346 89,422,925 580 
GTGAGTGCATACCCCCCTCCCACTC..........CCATTCTTCCCTCCTTCCCCTACAG
3 EXON 3 89,422,926 89,422,996 0 2 71 
TACATGGGCTGTGTGGAGGTCTTACAGTCAATGCGAGCCCTTGACTTCAATACCCGGACT
CAGGTCACCAG
INTRON 3 - 4 89,422,997 89,423,507 511 
GTTAGTGGGAAGGCGGGTATATTGC..........GGTCTGAGTACTCCTGTTTCTCCAG
4 EXON 4 89,423,508 89,423,571 2 0 64 
GGAGGCCATCAGTTTGGTGTGTGAAGCTGTGCCTGGTGCCAAAGGGGCAACAAGGAGGAG
AAAG
INTRON 4 - 5 89,423,572 89,423,696 125 
GTATATGTGGTGGTTGGGGCTGGGT..........TCTGAGACTCTGGGCCCTTTCCTAG
5 EXON 5 89,423,697 89,423,816 0 0 120 
CCTTGTAGCCGCCCACTCAGCTCCATCCTGGGGAGGAGTAACCTGAAGTTTGCTGGAATG
CCAATCACTCTCACTGTGTCTACCAGCAGCCTTAACCTCATGGCAGCCGACTGCAAACAG
INTRON 5 - 6 89,423,817 89,424,189 373 
GTAGGTAGGGCTGCTGAAAGGGACC..........CCTTCTCCATCCCCACCCTCATCAG
6 EXON 6 89,424,190 89,424,243 0 0 54 
ATCATTGCCAACCATCACATGCAATCTATCTCTTTCGCGTCCGGTGGGGATCCG
INTRON 6 - 7 89,424,244 89,424,554 311 
GTGAGTTGGGGACCAGAGGAAAGAC..........GGTCTCCTGAATCTACCCTCTCCAG
7 EXON 7 89,424,555 89,424,606 0 1 52 
GACACAGCTGAGTATGTTGCCTATGTTGCCAAAGACCCTGTGAATCAGAGAG
INTRON 7 - 8 89,424,607 89,424,765 159 
GTGAGGCTTGCGGGCAGCACTGGGT..........ACTGGTGGTCTCCACTGTGTCCCAG
8 EXON 8 89,424,766 89,424,892 1 2 127 
CCTGCCATATCCTGGAGTGTCCTGAAGGGCTTGCTCAGGATGTCATCAGCACCATCGGGC
AGGCCTTTGAGTTGCGCTTCAAACAGTATCTCAGGAATCCGCCGAAGCTGGTCACCCCCC
ATGACAG
INTRON 8 - 9 89,424,893 89,426,514 1,622 
GTGAGCTGGTGGGAGAGGGCGAGGC..........TCTTCTCTCATCCTTCTCTTTTCAG
9 EXON 9 89,426,515 89,426,702 2 - 188 
GATGGCTGGCTTTGATGGCTCAGCTTGGGATGAGGAGGAAGAAGAGCCCCCTGACCATCA
GTACTACAATGACTTTCCAGGGAAGGAACCCCCTCTTGGTGGGGTGGTAGATATGAGGCT
TCGGGAAGGGGCTGCTCGACCTACTCTGCCTAGTGCCCAGATGTCCAGCCACTTGGGAGC
TACACTGG
3' upstream sequence 
TAAGGAGCCAGGATGGAGATGCTTAAGACCAGGGTGGGAATGGCTGGCTAGGGCCTTGGT
CTCACCCAATTTTCTTCTTCTGTAGCCTATAGGGCAGCATGCTGCAGGAGACCATGAAGT
CCGTAAACAGATGTTGCCTCCGCCGCCTTGCCCAGGTGAGCACAGTTTGCTGATACGGAC
AGAGATGAGTACAGAAGGCGGGGCTGGGATTGATGCTGTCTTTTTTTCCTTAACAGGCAG
AGAACTCTTCGATGACCCCTCCTATGTCAACATCCAGAATCTAGACAAGGCCCGGCAGGC
TGGGGGTGGGGCTGGGCCCCCAAATCCTTCTCTTAATGGCAGTGCACCCCGAGACCTTTT
TGACATGAGTGAGTGAGTCTCTTGTAGCCCCACCTTCCGTTGTTCCTTCTTTTCTGCCCG
TTCTCCCCTACCTGGCTTCCCACACTGAGTCTGGGTCTCAGGTGATACTGGGGCACCTCT
CCCAGCTGTCTCTCTACACCCCTAGAGCCCTTTGAAGATGCACTTCGGGTGCCACCCCCA
CCGCAGTCCATGTCCATGGCTGAGCAGCTGCAAGGGGAGCCCTGGTTCCACGGGAAGTTG
AGCCGGAGGGAGGCCGAGGCGCTGCTGCAGCTCAATGGTGACTTCTTGGTGCGAGAGAGC
ACGACCACGCCTGGCCAGTATGTGCTCACTGGCCTGCAGAGTGGGCAGCCCAAGCACTTG
CTGCTGGTGGACCCTGAAGGTGTGGTAAGTGTGACAGAGGTGTGGCAGGGGCTGGTGTGG
TTTTGCTTTCTAGACTTCCTTTGCCGGAGGCTTCCTGTGGACTCCTTTGCCCTTGCTGGA
CACTTGCATCCACCTGCAGTGGCTCAGGGTTCCTTCCCTGCTGTCCTCGAGTCTGAGCTG
TGTTCTTCTCAGTTCTGACCAGTCCTCACATCCCAGTGAAGCCTGCCAGCCCCCAGAGAG
TGCTTACTTGATCTTTTGCTAAGTGAGGAAATGACACTGG..........

Sequence Detail Report

Gene Symbol (Gene ID) Shc1 (ENSMUSG00000042626)
Transcript ID ENSMUST00000137793
SNP Information
Strain :
Sequence Retrieve :
Exon translate :
CDS Start ( 1 ) - End ( 280 )
-
Strand : forward reverse
Show sequence : nucleotide amino acid
Color information