BtaINT0042043 @ bosTau6
Intron Retention
Gene
ENSBTAG00000027020 | COL5A2
Description
collagen, type V, alpha 2 [Source:HGNC Symbol;Acc:HGNC:2210]
Coordinates
chr2:7228025-7229155:+
Coord C1 exon
chr2:7228025-7228057
Coord A exon
chr2:7228058-7229122
Coord C2 exon
chr2:7229123-7229155
Length
1065 bp
Sequences
Splice sites
5' ss Seq
GTTGTAAGT
5' ss Score
8.3
3' ss Seq
TTCTCTCGTCTGTTGTTTAGGTG
3' ss Score
8.37
Exon sequences
Seq C1 exon
GGACAAAAGGGAGAACCAGGATTAGTACCTGTT
Seq A exon
GTAAGTATACATGTATATACGTTTTCATGTACCTTTGATAAACTTAGTTATAGCATCGTTGTATATTATTGCTTATATACATACTTTCAAAAATAGGGAATTTAATTATTTTATAACCAAACTTTTAGTATAAAACAAGCAAAATAAAATAAATCAATGCTTAATTTAATATGATATTTTATGTTTATTTTTCCTGACTTTTATTTATTTATTGTCCCATGACTAAAGGTGTAAATCAAGATTTACAAAATTAAATATATTGTATGTGAATATACAGTGATAATTAAGATGTATATTTTTATAGTATATTTAGCTATATCATCCAAATGGAGAGGCATGATTTAATGTGCCACAGTTTTGGAAATATGTTATTATCATGATGTAAAGTCCATAGTGTATAGAGTTCTTAAGAGTTATTTAGACTTGGAGATGATCATAAAGTATATCATTATATAGGATGAAAGTTCTTCACTATTCTCCTTGCTTTTAAAGGAGTTATCATTTTGTTAAGACAAAAGTAGAGCATGTTGATTTGTTTGACAATATTTGCATTTTTGCTTTGCTTTTAAATTGACTTGTTTTTAACAAAGATCACCTAAAAGGTGAAACCATCCATATTGTTTGTGTTCATTTAAAAGCACAATGCCTAAGGTACTGTATTAAGCACTTCCTACATATTTATTTGTTTGTCTTCACAACAACTCTGAGAGGGAGTTAATTTCATAATCATTATCACCATTTTACAGAAGAGGAATCTTAAATACAGAGAGGATAATTAATTAGCTCAAGGTCATACAATTGGTAAGGGTTGGAGTTAGGATTTGAACGCAGGTTTCCTGGATCCAGCATTGGCTCTTAATCACTATACCAGTGCTGCCTCCTTGCATTAGAATTTAAATTAATGTCTTAGCCTTAGAAGAAAGTTGGGGAGGGAACAAGCACCAATTGTTAACATCCATTTGTTCTAAAATTATAGCCGGGCCTTTTGTTCTTCTTATACATTTGACTATTGAGCTTCTAAAACTCTTGAAACTTTGTCTCTGTGTTCTCTCGTCTGTTGTTTAG
Seq C2 exon
GTGACAGGCATACGTGGACGTCCAGGACCTGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000027020:ENSBTAT00000038684:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF148281=Amnionless=PD(0.1=0.0)
A:
NA
C2:
PF0139113=Collagen=PU(12.7=72.7)
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]