GgaINT0129134 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NW73]
Coordinates
chr18:8201415-8201829:-
Coord C1 exon
chr18:8201671-8201829
Coord A exon
chr18:8201516-8201670
Coord C2 exon
chr18:8201415-8201515
Length
155 bp
Sequences
Splice sites
5' ss Seq
TAGGTACCC
5' ss Score
5.35
3' ss Seq
TTTTCCCCCCATCCCTGCAGATA
3' ss Score
12.22
Exon sequences
Seq C1 exon
GGATAAAACTGGAGGCACTGGACACCGAGAGAGCCTTGGAGGAAGCCGGGATTTTGAATGATGAGATTATAGGAGTTGTATTTAAAAACAACTTCTCCTATCACCTCCGGTTTCCTGCTGGGAACGTGGTTTTTCCAAATGAAAACCTTGAATATATAG
Seq A exon
GTACCCAGTTGTTTTCTGATGCTGTTTGATGCTCTTATTATAATGTTGGTTTTTTTACACTATTGATTCCTGCAGAGGATCTTAATCTTGTTTTGCTCTTCTATTACATCAGTTGTGTATGTATGAGTGATGCCCTTTTCCCCCCATCCCTGCAG
Seq C2 exon
ATACCTGTTACAATTACTCAGGGCAGTACTGCGAGAGCCCCAAGTACTGGTACAAAGGTTTCCTGTCCCTGCAGTCCAGCATTGATGCTGCTATTATAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021399:ENSGALT00000006909:4
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:
PF126982=ABC2_membrane_3=FE(13.8=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(8.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
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:
AAAACTGGAGGCACTGGACAC
R:
CATCAATGCTGGACTGCAGGG
Band lengths:
242-397
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]