GgaINT0002116 @ galGal3
Intron Retention
Gene
ENSGALG00000003008 | NCAN
Description
NA
Coordinates
chrUn_random:26554666-26554999:+
Coord C1 exon
chrUn_random:26554666-26554782
Coord A exon
chrUn_random:26554783-26554885
Coord C2 exon
chrUn_random:26554886-26554999
Length
103 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGC
5' ss Score
9.1
3' ss Seq
GCCCCTCACCATCCCTGCAGACA
3' ss Score
10.11
Exon sequences
Seq C1 exon
CTCCGGCTGACCCATGCCAGACCAACCCCTGTCTGCACGGCGGGACGTGCCACGCCAACGGCTCCATCTGCGGCTGCAGCTGCGCCCCGGGCTTCACCGGGGAGAACTGTGAGATCG
Seq A exon
GTGAGCGGGAGGCCGTGCTGGGATGGATGCTGGTGGTGGGGACGGGGAGGGCAGGGGGTGCCGGGGGTATCGACGTGCCTGCAGCCCCTCACCATCCCTGCAG
Seq C2 exon
ACATTGACGACTGCCTGTCGAGCCCCTGCCAGAACGGTGGCACCTGCATCGATGAGGTCAACGCCTTCGTCTGCCTCTGCCTGCCCAGCTACGGCGGCAGCCGCTGTGAAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003008:ENSGALT00000035919:8
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=0.000
Domain overlap (PFAM):
C1:
PF126612=hEGF=WD(100=32.5)
A:
NA
C2:
PF0000822=EGF=WD(100=79.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTGACCCATGCCAGACCAA
R:
CTTTTTCACAGCGGCTGCC
Band lengths:
226-329
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]