GgaINT0032132 @ galGal4
Intron Retention
Gene
ENSGALG00000004946 | COL4A4
Description
collagen, type IV, alpha 4 [Source:HGNC Symbol;Acc:HGNC:2206]
Coordinates
chr9:8825164-8825895:-
Coord C1 exon
chr9:8825836-8825895
Coord A exon
chr9:8825209-8825835
Coord C2 exon
chr9:8825164-8825208
Length
627 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGG
5' ss Score
10.17
3' ss Seq
ACTCACATTGTTTTCATCAGGGT
3' ss Score
7.5
Exon sequences
Seq C1 exon
GGAATACCTGGGAAAGGAGAAAAGGGTGAAAAAGGCATTCCTGGATTCCCTGGATTGCGG
Seq A exon
GTAAGGAAGTTTCAGAATAAATTATTTTGCAAATTCACTGCAATTACTCTTAGAAGATATCTGGTGGTTTAACTATGCATTTCCAAACAAGATTTCAAGGTTTCTTTTAAACTAATTTGTCATTCTTTCTGTATAGAATATTTAGCAGTCCTGCTCTGGGAGTCACTGTGTCACAGACTTAGACACAAGCTCATTCCTTCCTTGGAAAGAAAGCAGATCTGTATGGTTACCTTTTAAATATTTAGTGCTGCATAAATTCTTAGAAGTAGTTCTAATCTACCAATTTTAATCTATTCCATACTTGCCAATGGCAGTTTTGTTTTTTTTCCCCACAGCAGCTTGTTCATGATGTGCATAACAGTATATATGCATGGAGCAACATTATCCATCACTATATTTGCTGCAACGTGATAAAAATAAATGAATACCCATCTGGTTTACTTTGAGCAGTAGTTCAAAATTCATGCCCAGTTCTCATAAGATATTTGCAAAAATTTTGCAAGTGCTAGCTATTGGTAGATATGATCCCAAATAGTAAATATGTAAGGAATATTGACTGCTTAGCAATACTGTATAGGTCTAATTTGTATAAGTTTTTACTATTCTAACTCACATTGTTTTCATCAG
Seq C2 exon
GGTAGCCCTGGTTCTCATGGACCTGCAGGCTTTCCTGGAATAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004946:ENSGALT00000007918:15
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=PD(22.2=80.0),PF0139113=Collagen=FE(20.9=100)
A:
NA
C2:
PF0139113=Collagen=FE(12.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
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]