GgaINT0003981 @ galGal3
Intron Retention
Gene
ENSGALG00000013587 | COL2A1
Description
NA
Coordinates
chrUn_random:31478624-31478722:-
Coord C1 exon
chrUn_random:31478681-31478722
Coord A exon
chrUn_random:31478678-31478680
Coord C2 exon
chrUn_random:31478624-31478677
Length
3 bp
Sequences
Splice sites
5' ss Seq
CATTAGGGT
5' ss Score
-13.76
3' ss Seq
CCCCCATCTCTTCCCATTAGGGT
3' ss Score
10.32
Exon sequences
Seq C1 exon
CCCCCATCAACCCCTTTATCAACCTCCCCCATCTCTTCCCAT
Seq A exon
TAG
Seq C2 exon
GGTGAGCGTGGCGAGCCCGGTGCCCCCGGTCCTGCTGGATTTGCTGGCCCCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013587:ENSGALT00000035835:3
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=PU(6.9=28.6)
A:
NA
C2:
PF0139113=Collagen=FE(29.3=100)
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:
CCCCCATCAACCCCTTTATCA
R:
GGGCCAGCAAATCCAGCAG
Band lengths:
92-95
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]