GgaINT0049826 @ galGal3
Intron Retention
Gene
ENSGALG00000012495 | Q9DEH4_CHICK
Description
NA
Coordinates
chr7:36804020-36804510:-
Coord C1 exon
chr7:36804403-36804510
Coord A exon
chr7:36804204-36804402
Coord C2 exon
chr7:36804020-36804203
Length
199 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGA
5' ss Score
5.96
3' ss Seq
CTTTTTTTTTCCCATGACAGGTG
3' ss Score
11.28
Exon sequences
Seq C1 exon
GTCCTTTACTCAGACAGCTTCCGAAAACAGGTACAAGGTAAAGCTGCATATGTTCTGGATACACCTGAAATGCGGCGTGTGCGGGAGACACAGAAACACATCTCTACA
Seq A exon
GTAAGAAAACTCCTCTGTAGGTCTGTTACGTAAAGCTTTGTTCCTGAGATGCCACAGGGTTGCCTTCTTGGGGACAACATGTATTTATCAGTAACAGACCAGTTTTACCTTGGTGAATGCAAATCTTCAGAAGAGCATTGGCCCTCTGCGAGAAATTCACTTGATAGTAGCATGACTGACTTTTTTTTTCCCATGACAG
Seq C2 exon
GTGAAATACCACGAGGATTTTGAGAAAAACAAAGGTACTTTCACACCTGTAGTCACTGACCCCATTACAGAACGTGTGAAGAAGAACATGCACGACTTCAGTGACATCAGCTATAGGGGCATTCAGAGACGAGTGGTAGAAATGGAGCAAAAGCGCGTGGACCAGGACCAGGAGAACCTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012495:ENSGALT00000020410:138
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.583 A=NA C2=0.699
Domain overlap (PFAM):
C1:
PF0088013=Nebulin=PD(37.9=30.6),PF0088013=Nebulin=PU(55.2=44.4)
A:
NA
C2:
PF0088013=Nebulin=PD(37.9=17.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGACAGCTTCCGAAAACAGGT
R:
CACGCGCTTTTGCTCCATTTC
Band lengths:
257-456
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]