BtaINT0041068 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010050 | COL16A1
Description
collagen, type XVI, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2193]
Coordinates
chr2:122562230-122562608:+
Coord C1 exon
chr2:122562230-122562310
Coord A exon
chr2:122562311-122562482
Coord C2 exon
chr2:122562483-122562608
Length
172 bp
Sequences
Splice sites
5' ss Seq
GGGGTGAGT
5' ss Score
7.93
3' ss Seq
CCTTCCCCAACACTGGACAGTGT
3' ss Score
3.2
Exon sequences
Seq C1 exon
TTTGACCTTCAGCAGGCACACATCTACTGTGACCCAGAGTTCGTGCTGGAGGAGGGCTGCTGTGAGATATTACCAGGAGGG
Seq A exon
GTGAGTGGCCTGGACCCAGCCCAGCTGGGAGAGGCTGGGGCACTGCCTTGGGGCACAGTGTGCTGGAGGAGAAGGGCTGGGAAGGGGATGCCTAGACATCTTAGGATGCTGAGTGTGTTAAGGGGGGGTCCATCTTCTGTACTGACCCCAGCCCTTCCCCAACACTGGACAG
Seq C2 exon
TGTCCCCCAGAGACCTCCAAGGCCCGCCGGGACACCCAGAACAATGAGCTCATCGAGATCAATCCACAGACTGAGGGCAAGGTCTACACCCGCTGCTTCTGCCTGGAGGAGCCCCAGAACAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010050:ENSBTAT00000038016:6
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=0.429
Domain overlap (PFAM):
C1:
PF0221019=Laminin_G_2=PD(0.1=0.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTCAGCAGGCACACATCTA
R:
CTTGCTGTTCTGGGGCTCCTC
Band lengths:
202-374
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]