BtaINT0133174 @ bosTau6
Intron Retention
Gene
ENSBTAG00000034998 | SIMC1
Description
SUMO-interacting motifs containing 1 [Source:HGNC Symbol;Acc:HGNC:24779]
Coordinates
chr10:4990795-4993039:-
Coord C1 exon
chr10:4992887-4993039
Coord A exon
chr10:4990924-4992886
Coord C2 exon
chr10:4990795-4990923
Length
1963 bp
Sequences
Splice sites
5' ss Seq
GCTGTAAGG
5' ss Score
4.86
3' ss Seq
GTTCTGTGTTCTGGACTCAGGAT
3' ss Score
7.34
Exon sequences
Seq C1 exon
GGATGTCATCAAGTGGTTGATCAGAGCAGTAACTGAAGACAGATTAATCCAGCCCCCAAATGAGAATCAAACCTCTCCAGGAAAAGGAATCTTGAAGACCAGCAGTAGCCACCCTTCTTCCCAACCTAACCTGACAAAGAACGCCAATCAGCT
Seq A exon
GTAAGGAGCGGACAGAAGTTATCTTTCCTAGAGCTCTGGGGTTTACTGTGTTGGAGACTAGCACCACTCTCTACAAGCAGTTTCCCCAAAATTAACAGCTCTTATAACATAGGCTGATTCTTACTAAAAACTACCTTATTTTGACTAAAGGCTAAGTTCCTAATTCCAGAGGTAAAACAAAAGCAGATACTTTCCCCCTAGATGAACAGGACTTCACTAAATGAATTCACCAGCTGAAGTGGAGCAAAAGCTGAACAACCGTGCCCTCCCCTTCCTAGATTCCCAGGGACAATACAGGATCATGGGCAGTGGGCATTCTAGCAGTCTCTAATCCTCAAGGGCCTGGGTCTCTTTCCTCCAGTCCTGGAAGAAGAACAGCAGTTCAACCTGCAGGCTCCAACAGGTTGTAACAGCAGTGGCTCAGACCAGATCAGGTCCCATTCCCTCAGCCTGCACTGGAAAGAAATTCTGGCATTTCTTCTATGGAATTAAAAGTGGTCGTGGCATTTTTGGGGAAATGCCAGGATTTCATGGGCTGGAGCTGCCCTTGTACAAGTAACCTGCTATTCTATGTCAGTTATGTTTTTTAAAAAGCCAGTTAAACTTGATATTTCAAATACAGCATTTGTGCCTAAATTCACAGTGCTATAATTTAGTTGCACTGATCGGATTCTTAAATAAGTACTATGGATTTTAACTAATCTAGGAGACAATCGTGTATCTAAAGGGAGTATGTTTTGGAACGATGAAGCGTTTGCTTGGGCAGAGTGGGGAAGGTCCTAAAGTAGGAAAATAAGATTATGTAAGAACCCCAGGATATAGACCAAGAGAGAGGCAGACACTGTTTCTTAAGAGAAAGCTAATATAATAATAGTAATTATAAGTAGATATTAGAAGAATAAAATTAGAGTCCTTGAAAATCAATTTATCATCATCTTAACAACAATAGGCACTGCTGTTTACCATTAACTAGTGCCTATATGCCAGATCTGTTACTCAGCACAACTTTATGAAATAGGTGGTGTTATGTCCCCTTTTTTGAGATGAGAGAGTTTTGACTCAGAGCAGTTTAGTAATTTGTCAAAAATTGAATAGCTTGTCATTGCAGAGCCAGAATCTCATCTGACTCTGGTCTACCTATTGTGTCCCCGGCTGCAGATTTTCTGCAAACAGAGCCCCTCTTTGCCTCACAAATAACGGCACACATTAGAAAAGGCCAGCTTCAGGTGAGGCTCACCTTCTGAGGGGCTGCTCAGATTCCTTCCTTCAGCCTGGGTCTCTCCCACAGTTAGGTCTGATGGGAGAGCGGGTCACGTTTCACCAGTTGAAATTCTGACACTGAACTTAGGTAAAGATTGTTGTAAAGGAACCAGTAACAGGAGAAAACTACGTAGTAAATTTGTATTTTCTCCTATCAAAGAAATTCAGATAATTGTTAGTCATTCTGGAGCTGTTTCTTCATCTGTAGAATATAGAATTTTTAGGTTAGATATCCTTAAAGTTCTCTAGATCCTTAAGATTATATGTTCCTAGGGACTTCCTTGGCAGTCTAGTGGTTGGGACACCATGCTTCCATTGCAGGGGCAGATTGAGGAAGGTTCTAGAGGTTTGATCCCTGGTTAGGAAACTAAGATCCCACTTGCCTTGTGGCATGGCCAAATTTTTTTTTTTAAATAATTAGATAAGCAACAAGAACTCTATTTTTAAAAAGATTGTATGTTTCTATTTTCAAATTTAAAAGCAGCTTGCTTTTGCAGCGCAACCCCAGGTTCTGAGAGGTTGATAGTATGATCTGGCAAAAGGGATTCAGGTAGGTGAAATTGCTAATAAAAGCATGCTGATGCTTGAGTAGTTCTCCCTGACCTAGTGTGTGCTTTACAAGAGCCTTTAGTACACTGGCGGGCACCTCATCCCAGCCAGCAGGGACCCTCCCGCTCATTTATGTTCTGTGTTCTGGACTCAG
Seq C2 exon
GATTATATGCCAGCTCCAGAGGATGCTGTCTATCGCTGTAGAGGTGGACAGGACCCCCACATGCAGCTCCAATAAAATTGCTGAAATGATGTTTGGGTTTGTGCTGGACATTCCTGAGAGGAGTCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000034998:ENSBTAT00000020753:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.538 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAAGTGGTTGATCAGAGCAGT
R:
TCCTCTCAGGAATGTCCAGCA
Band lengths:
267-2230
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development