GgaINT0017172 @ galGal3
Intron Retention
Gene
ENSGALG00000001916 | Q90Z43_CHICK
Description
NA
Coordinates
chr13:4353023-4353346:+
Coord C1 exon
chr13:4353023-4353094
Coord A exon
chr13:4353095-4353274
Coord C2 exon
chr13:4353275-4353346
Length
180 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGT
5' ss Score
8.59
3' ss Seq
GTGTTCTCTCATTCTCACAGCAT
3' ss Score
9.4
Exon sequences
Seq C1 exon
TGATTTGAGCAACAACAGCATAAGTGTATTGGCCAATTATACCTTCAGCAACATGACCCAGTTATCAACACT
Seq A exon
GTAAGTAACCCAGTGTTTTTGAAATGTGAATTGCTTTTCAGACACCATTTTAGATGTTAAACAGTTAGTATGTACCTTGTGACTCAAGCATGTGGCTTTGCGTGCTTCTTCATTGTTGAAGAAACAGTGGAATAATCAAAGAAAATATGGTGTTGTAATTGTGTTCTCTCATTCTCACAG
Seq C2 exon
CATCTTGAGCTACAACAGACTTCGGTGCATTCCAGTCCACGCGTTCAATGGGCTCAGGTCTCTTAGAGTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001916:ENSGALT00000002967:17
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:
PF127992=LRR_4=PD(38.6=68.0),PF138551=LRR_8=PU(8.2=20.0)
A:
NA
C2:
PF138551=LRR_8=FE(39.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGCAACAACAGCATAAGTGT
R:
GCACTCTAAGAGACCTGAGCC
Band lengths:
138-318
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]