GgaINT1000224 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:H9KYZ6]
Coordinates
chr23:4047273-4047663:-
Coord C1 exon
chr23:4047445-4047663
Coord A exon
chr23:4047359-4047444
Coord C2 exon
chr23:4047273-4047358
Length
86 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGA
5' ss Score
7.4
3' ss Seq
CACCCCTCTCCCCTCCGCAGGTG
3' ss Score
12.92
Exon sequences
Seq C1 exon
ATGCTGCGTGACCGCGTCCGGCCCCTCTTCTACACGCGGCTGCGGCTGGGGGAGTTCGACCCCCCGGCCATGAACCCCTACAACGCCCTGGAGCTGAGCGTGGTGCAGAGCTCTGAGCACCGCAACCTCTCTCTGGAGGCAGCCATCAAGAGCTTCGTGCTGCTGAAGAACCAGCGGGACACGCTGCCGCTCCGCGAGCTGCACGGCAAGCGCCTGGCG
Seq A exon
GTGAGAGCCGGGCTGCTCCACAGCAGTGCATCCCCTCCTTGGCACGGGGCTGTGGGTGCCTGTCTTCACCCCTCTCCCCTCCGCAG
Seq C2 exon
GTGGTGGGTCCCTTTGCGGACAACCCCCGTGTGCTGTTTGGGGACTACGCGCCAGTGCCAGAGCCACAGTATATCTACACACCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001242:ENSGALT00000001886:8
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:
PF0093316=Glyco_hydro_3=PD(3.2=13.7),PF0191517=Glyco_hydro_3_C=PU(9.1=28.8)
A:
NA
C2:
PF0191517=Glyco_hydro_3_C=FE(12.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTGCAGAGCTCTGAGCA
R:
GTAGTCCCCAAACAGCACACG
Band lengths:
167-253
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]