BtaINT0040565 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021844 | COCH
Description
Bos taurus coagulation factor C homolog, cochlin (Limulus polyphemus) (COCH), mRNA. [Source:RefSeq mRNA;Acc:NM_001077842]
Coordinates
chr21:41953477-41956405:+
Coord C1 exon
chr21:41953477-41953624
Coord A exon
chr21:41953625-41956301
Coord C2 exon
chr21:41956302-41956405
Length
2677 bp
Sequences
Splice sites
5' ss Seq
CAGGTACAA
5' ss Score
7.09
3' ss Seq
TTTTCTTTTTTTTAACCTAGTGA
3' ss Score
7.2
Exon sequences
Seq C1 exon
ACTGTAAAGCAGACATTGCATTTCTGATCGATGGAAGTTTTAATATTGGGCAACGCCGATTTAATCTACAGAAGAATTTTGTTGGGAAAGTGGCTCTAATGTTGGGAATTGGAACCGAAGGACCACACGTGGGCCTTGTTCAAGCCAG
Seq A exon
GTACAACCCTTGAGAAAATGGAAGGAGACTTGAATGATGTCTTGAATGACAACAAATGATCCTTTTAGCGGGTACATTAATTTCAGTTTGGTATAAACATACTGAGTTGCAGACAGTCTGGATTCTCAAACTGTAAAGTCAGAATCTAAGACTGCTTAAGCAGACTGGGAAGTGCTTCCTCTTTTGGAATAAAAGGATTTTGAGAATTACATGCTACCTTTTGAGGACCAGAAGGCAGGCTAAAGTCTTATTGCTTATACAGATTACCTCTGCACATCTACTTTGCTCAGTTCCTAGGTTCTCTTCACTGAAGGAGGAAGCTGTGATGTTTATTTCTCTTTCCTATCCTATTGTTACTCTTTTTAGCTCTTTCCATATTCCATTGATTGGCAATCTGAAGCTTAATCTTTTATTTTATAATACTATATACTGATGTCTTTTAGGATTATAATATGCTTATTAGAGAAAGCTTGAACAACATATAAAACACACAAATTTCCTAAATATACCCCTCAGAGATAATCAATATAAAATGTTGTATTTCCTTTCAATATTTTAAGAAAACATTTGATTATACCTATGTTTCTTTTTCAAAAGTTCAGATTATAAACCTGCTTTTTTATCATTCAGTATTTTGAACATCTCATATCACAAATATGCTTCGAAAAATTGAATATGTTCCTTAGCATGATTTATTTAACCATTCTATTGTTTTTTCACACTTGCCCTGTGCTGAACATCCTGTCATCTTTGTGCCATCTCTGATGAGTTCATTAGGCTAGAGTCCCAGAAGTGAAATTGGGTCAAAGGGTTGTGACATTTTTAAGGCTTCTGATATAAACAGTTAAATTGTTTTCTAAAAAGTTGATTCAGTTTAAACTACTCTCAGCAGTGTGTAAGGGTGTCACTAGTAGTATTACAAATATTTATATTTCATTTGTTCTTATGTTATTTTTTACAGTTGGTTCTTAATTTAGATAGAATTTTCTTAACTTTTGGTGTTTTTTTGGCCATGCTACGTGGCATGTGGGATCTTAGTTCCTCAACCAGTGACTGAACCTACAGCCCCTGAAGTGGAAGCTGAGAGTCTTAATTGCTGGATCACCAGGGGAGTCCCCTAGATAGAATTCTTTCAGTGTGAGAATCTTTACCTTTGTTGTTTTTAATACATAATTTAACCACTGTCCCCCCCCCAAAATTGAGCTTATTCTATTCAATATCAATTTATAACTTTAGACACATGTTTCTTTGATATGTATGCTAATTCTAACATCTTTTCTACAATGCTTGGATTATAGTAGCTTTAGTGTACATTTTAACATCTCATAGGGCAAATTCCCCTCAATTTTTTCTTCTAATTTTTTTCTTTGCTGTTTTTATCCAATTGGTTTTTCAAGATGAAAGTCTACACTACTTTGTAGACTCATACAAAGACTGCTGCTGCTGTTGCTGCTCAGTCGCTTCAGTCATGTCCAACTCTTCTCTAAACTTTCTGCTTTATAATTTTTCTATTTTACGAAGAACATTAAATAGATAAACTATGTCAAGTTTAAGTAGAATAAAAGAATGTCTCATTAAGGATGCACAAATAAGACTAAACCACGTAAATTATTTGGATAGTGGCAAAGTGACCATAAAAATGAAAAAGTTATTCATGACATCTGATTTTGTGACCCAACATTATAATACCAGGTATGCAGAAATCATGCCACCAGAAATGCAGGAATACAATGAGTGCAATACTTGTCCTTCAGAAATCTTGATTTAATGGCAATTGATAATGCTAAGATCTTAAAATATTGCACTGATGAAATTTTGACATCTCTAAAAACTAAACATAATAAATTATGCTGTTTTTACTCAACATGGGTTCTAATGAACAGAGTGGTTATAAAAGCTGCAATTTATGCTATGTAAATAGTAAAATTTACTATTAAATCTAAAAAATCTCAAATTTGTTAAAATATATGTAATTCTAAGATTGGCAAATGTCAATATCATCTAAAAAAAATTCAGTATTATAATACTTTATAATTTGCTTGTAAGTTACCTTTAAAAAATGTTGGCCTTAGTGTCACTGAAATTGCCTTGTCTGATCAGAAAACTGGGTTAATAGACCCAGACTGTTCAGAGCTTCCAAGGTCCCTCCCTGAAGCAGACTTAGCCTCACACCCACCTGTGATTCAATTATCCGGTGCCCAACTCTGCAGAGTTTCATTGAGCTCAGTGCCCTGAGCCACTTGGTCCAGGTACTTCATATAGTTGAGGAGTCAGGCAAACCTGAATTTTAAATGTGGTGTGTGTGTGTGTGTTTTTTTGGGGGGGGGTAGGGGGGTAAGTTACCTAAATGTTTTGGGCCTCCATTTTTTCATTTATTAATTGGGACAATAATTCCTACCTTGTAGAGTTATGATGAAGTGAGATTAGACTTGTAGCAGGTATTTAGCATATTACTCAGAATACAATAAACCCTCAAGGTAGCAATTGTTTTTGTTACATTTCTGAAAGAACCCTAAAACTTCAAGTAAAATGCCATACGTTAGTTGCCTGTATGCTGTGGAATTAAGAAACTTAGGCATTGTCCAATGTAAGGACTTTAAAAAAGGTATATAATGTTCCTTGTTTGTCTTTCCAATTCTCTCTGGATAACTTTTTTTTTTTCTTTTTTTTAACCTAG
Seq C2 exon
TGAACATCCTAAAATAGAATTTTACTTGAAAAACTTTACATCAGCCAAAGATGTTTTGTTTGCTATAAAGGAAGTAGCTTTCAGAGGGGGTAATTCCAATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021844:ENSBTAT00000053676:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009223=VWA=PU(27.8=90.0)
A:
NA
C2:
PF0009223=VWA=FE(21.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]