GgaINT0129132 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NW73]
Coordinates
chr18:8202406-8203222:-
Coord C1 exon
chr18:8203113-8203222
Coord A exon
chr18:8202617-8203112
Coord C2 exon
chr18:8202406-8202616
Length
496 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
TCTCTGTTTCCCTCACCCAGGAG
3' ss Score
9.33
Exon sequences
Seq C1 exon
GTACAAAGATGAGGAGACCTAAGAGAAATCTGAGTGTGTTCCAGCAAACTAAAATTCTCTTGTGGAAAAATGTGCTTATCAAATGGAGGATGAAAATGCAGAGTTTTCAG
Seq A exon
GTAGGTTTAAAAAAAACCCGTGAAGTGGCCCCTGGAGATGGTCTAATCTCTGCCTTCCTCTATACCTCCTCCTCTTTTTCTAGTGTTAAAAACCATTTCAAAAGCTCAGTTTGTACCATGGCCAAGAGTTGCTCCAACACTTGGTGTGAAGCCTAGAGCACATTAATATTACATGAATCTAGATGTTGATGATCTTGGCTGATCGCGTTGTTGTCATCTCTTGAACATTAAGGCCACCCAAGCCAATCAGGTCTGACTGGCAATGAACACGTTTGCCTTTTTAGCTGGTATATTTGTCTTTTGCATGACATGGAAGGGCACAGATGGGTTCTCCAAGCAGAGTAAATTTCTGAGGAGATGTGCACAACACAGCGACCCCATTAGTCAATCACTGACTGAGAAACCAATGCGACTCAGTGCCTTGTTCACCCTGATCCAACAGAGATGCTCCTCTACTGCTCTACCACTAAATCCCTTCTCTGTTTCCCTCACCCAG
Seq C2 exon
GAGTGGATGCTGTCCCTGCTCTTCCTGCCACTGATGTTCATTGTGGGCCACTTCATGATGTACATGCCCTACCCCGAGGTGCCACACAAACACCTGGGGCAGCTGGATGATCCTGCCTACAATGCCACCGGAGTCACCATTGCTTTCACACCCATCACTGCAGCCACCAGGCAGATAATGAACACAGTGGCCTCAAAGTCTGTGATGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021399:ENSGALT00000006909:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(18.2=98.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAAGATGAGGAGACCTAAGAGA
R:
TGTCATCACAGACTTTGAGGCC
Band lengths:
318-814
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]