BtaINT0041812 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021310 | COL4A4
Description
collagen, type IV, alpha 4 [Source:HGNC Symbol;Acc:HGNC:2206]
Coordinates
chr2:116059357-116059737:-
Coord C1 exon
chr2:116059684-116059737
Coord A exon
chr2:116059417-116059683
Coord C2 exon
chr2:116059357-116059416
Length
267 bp
Sequences
Splice sites
5' ss Seq
AGGGTAATT
5' ss Score
6.62
3' ss Seq
AACGTTGTTATGTCTTTAAGGGA
3' ss Score
7.09
Exon sequences
Seq C1 exon
GGTATTAAAGGAATGCCTGGAATGACTGGACTTCCTGGACCACCGGGACCCAGG
Seq A exon
GTAATTTATTCAAATAATGTTAAAAAAATTTGTATGATGTACTATCTTCATTTTTAAAAATTTTACTTGGTTATTATCCTTGCTTTAAATGCTGATCTGTTACTAGAATTTTTCACTATTTTATCATAATCATGTAGGAATACTATTCCAAAATATTCATTTTCTTTAAGTTGATGGCAGTAATTTTTATTTCTTATTTTGTTTTTGCATTCCATATTGCTGAAATATAGTTGCTTAAACCCCTCTAAACGTTGTTATGTCTTTAAG
Seq C2 exon
GGAGAGCCTGGTATTGGGAGAAAAGGAGAGAAAGGGATTCCTGGGTTTCCAGGACCTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021310:ENSBTAT00000018302:15
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:
PF0139113=Collagen=FE(19.3=100)
A:
NA
C2:
PF0139113=Collagen=FE(21.6=100),PF0139113=Collagen=PU(21.5=70.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
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]