GgaINT1009908 @ galGal4
Intron Retention
Gene
ENSGALG00000026836 | COL16A1
Description
collagen, type XVI, alpha 1 [Source:HGNC Symbol;Acc:HGNC:2193]
Coordinates
chr23:4922915-4923119:-
Coord C1 exon
chr23:4923030-4923119
Coord A exon
chr23:4922951-4923029
Coord C2 exon
chr23:4922915-4922950
Length
79 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGA
5' ss Score
8.72
3' ss Seq
GCCGCACTTTCATCCCACAGGGG
3' ss Score
9.42
Exon sequences
Seq C1 exon
GGGCTGAAGGGTGAGCGTGGCTCAGCGGGGGACCGAGGTCTGCCGGGAATGCCAGGACAGCCAGGGCCACCAGGACACCCAGGGCCACCG
Seq A exon
GTGAGAGCGGCGGGTGGGCACAGGGGACAGCGAGCACTGTGCCAGGCACACCTCATATTGCCGCACTTTCATCCCACAG
Seq C2 exon
GGGGAACAGGGACCGGACGGACCCGCTGGTAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000026836:ENSGALT00000045237:63
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTGAAGGGTGAGCGTG
R:
GTCCGTCCGGTCCCTGTTC
Band lengths:
111-190
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]