BtaINT0040560 @ 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
chr21:41948570-41950901:+
Coord C1 exon
chr21:41948570-41948617
Coord A exon
chr21:41948618-41950744
Coord C2 exon
chr21:41950745-41950901
Length
2127 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGT
5' ss Score
10.9
3' ss Seq
ATTCTCTCCTTTCTCTTCAGTTC
3' ss Score
10.23
Exon sequences
Seq C1 exon
GTGTCTGTCTGCTGTTGCCGCCGGAGCCGGTAGGCAGCGAGGGAGCCG
Seq A exon
GTGAGTTGCGGATCCAGGTAGTGGGAGGGGCTGCGGGCCGGCTTGTGGAATAGCGCTCAGATGGAGCCTCTGGGCCAAGGCCGGGTACCGGAGCGTGAGGACGCGAGGGCTGGCACTGCTGCCTGGCTCACCCCATTCATACCCACAGTCTGTCTACTCCAGCTTCCCCGTTTGTCCCTTGCAAAGGAGCTCCTGGGGTCCGACCGGGACAGTCTTCCCAAGGTGCGGAGAAGGAAACCTCCCATATTCCCCTCCCCCCAGCAAGCCGAGCAGACTGTCAAGGCTAGGGGTGTTCGTTGAGCCCCACCGAGGGAAACACTAGTCCCGGGTGTTCCGCAGCGTTTGGGATCAGGGAGAAGCCTTCAGACTGTCAGAGGAGACAGAGAGAGAGAGAGATACTTACATCGTTGTCCCATCTCGTGTGACCCTCTTTTTGTGTTTTTAGGAATGACCCTATAAAAGCATCTATGGGCTCATTTCACATTCGAGAGAATCTAAAAATAGTTTGTTCCCCATCTAGTAGTCTGAGTAAGGGTGTGTGGTTCGGTGTATTTTATAAAATGTAAAAAGCAGACTCTTTTCAAAATCTATCCTTTATTTTCCTTGAAAGGAGAAATGAAGGTAAGTATTGCAGAGGACTGTATTCAGCGCCCCCTGACACACCCACACACTCACACACACACACACACACACACACGCACGCGCGCGCCCGCCAGAGCTGGCAGCTAAAGGCTGAGCCTCTCTGGTGCGTCTGAAACTGGGAGGTAGGATTGAGGCTGTTTGGTAACAGGCATGAAGCACGTAGTATGAGGCTGCTGGTTTGGGTAAGGATTTTAACTGGCCCAGCAATCTAGAATGTTTCAGAGCATTCATAGTCAGCATTGTACTTTTCGTGGAGTCCTGCCTTCCCTTCCATGGATGTATACAGTCCAGGGTACAGCTTGGCACAGAGAGCTCTTAGAAGAGGCTCCTTGTTAGAGACAGGATACTCAGTTGGGCAGTGTGACCAGATAGTAATGCTATCTTGGGGGAAAAAAACCAAATTTTTAAAAAATTATTAACATCTGTTTCAAAAAGGTTTGGATAACCACAATTTCCAGTGTTTGGAAAATAGTATTTAATAACAATATTTAATAATTCACTTTAATATTCACAGCAGATTGATGAATTAATATGTTTATTAAGGTATCTTGTTACATGTAGCCAAGGGCTTGTCTCTAACATCTTTTGAAGTAGTAACTGTTATTATTCATCAAGTTGATCATGTAAAACCTCAGTATTAGCGCAGGCAGATTCTTTACTGTCTGAGCAGCCAGGGAAGCCTTCAGTATTAACGCAGGCAGATTCTGTGCTGTCTGAGCTGCCGGGGAAGCCCTCAATATGTGCCTTCTAAAACTGCATTCACTGCCTGATCTCTCTCCCTGCACAGATCTGGAGCGGAAATAAGCTGGTTCAATTCAGATAAAAATGCTCTGTTCTGAAGGGGACTAACTTCTCTGTTTCCTGCCCTGCAGGAGAGGTAGAATTTTCCTTGAGCTGTGTGACCTTGGGCAAATTAACCTCATGGCTTTATTTATTTCAGCTAAAATGAATGGTTGAGCTAAATGGTATTCTTTAAAGTGAAGCATCTTTTGACTGATTTGCTTAAATTAAAATATAATTTTAATGCACAGCACTTGACAAAAACTGACATAAATGGCCCTCCGAAGTAAAGGATGACTTCAATTTGTGTGTGTCATGAAAATATTCCTCAGAGGTTCAACCTAGATTTAATATCTTCACCTCAGGCAACTATGTACACAATTAAAATCAGAGTTGAGATTCTGGAATGAATTAATAAATGGCCAATGACTAACAGTATTTTCTAGTTCTCATATATTCCCAAACTAATAAGAACTGAGAAAATTCTCCCATTAGACTTTATAGTGACTGAGGACTAGATTAATTGGAAAACTTATTTTTGGCTTGCTAAAATCTGGAATGGTAGAAATTGTACCTAAGTCAATATTCTTAACAAAAAGTGTAGAAATTGGGAAAGTAAAATTTTAATCTCACATCCTAGTTCCCCCACCACTACTCACCTAAAAGTCCTAAGAATGGTTATTACATTCTCTCCTTTCTCTTCAG
Seq C2 exon
TTCCCATCCCTATCACATGCTCTACCAGAGGCCTGGACATCAGGAAAGAAAAAGCAGATGTCCTCTGCCCAGGCGGCTGCCCTCTAGAGGAGTTCTCCGTGTTTGGGCACATAGTGTATGCGTCTGTGTCGAGCATATGTGGCGCCGCTGTCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021844:ENSBTAT00000053676:3
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:
NO
A:
NA
C2:
PF0381514=LCCL=PU(53.3=90.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
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]