GgaINT0051545 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NZY2]
Coordinates
chr5:14252173-14252511:-
Coord C1 exon
chr5:14252442-14252511
Coord A exon
chr5:14252295-14252441
Coord C2 exon
chr5:14252173-14252294
Length
147 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TTTATATCCTAATTGTACAGAGA
3' ss Score
5.31
Exon sequences
Seq C1 exon
AGGCCACCTGTGCTCGGGATCAGGTCTACAAGCCATGTGGGGAAGCAAAAAGAAACACTTGCTTCAGCAG
Seq A exon
GTGAGTCATTTCCTATGGCAAAGGTCCATAACTTGAGAAGTGCCAAGGAAGGCTCAAAGATAACATTCCCCTGGGTTTTAGGTGTCTGCTTGTCCCTGAGCACATTTCTGCCTCTCATTCATTTCTGTTTATATCCTAATTGTACAG
Seq C2 exon
AGAAGTCATTGTGGACACCCTCCTCTCCCGAAACAACACACCAGTGTTTGTTGAGGGATGTTACTGCCCTGATGGGAATATTCTGCTGAATGAGCATGATGGCATCTGTGTTTCTGTCTGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000006717:ENSGALT00000010866:36
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:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=PU(31.7=83.3)
A:
NA
C2:
PF0182612=TIL=FE(65.1=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
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:
CCTGTGCTCGGGATCAGGTC
R:
CGCAGACAGAAACACAGATGC
Band lengths:
186-333
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]