GgaINT0129140 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NW73]
Coordinates
chr18:8198158-8198868:-
Coord C1 exon
chr18:8198697-8198868
Coord A exon
chr18:8198217-8198696
Coord C2 exon
chr18:8198158-8198216
Length
480 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGGA
5' ss Score
5.59
3' ss Seq
TGCCTTTCCTTCCTTTTTAGACT
3' ss Score
11.46
Exon sequences
Seq C1 exon
GTAAATACGGCATCCCAGCTCCACCGCTTTTCTGCCTGAAGCCCTCGTATTGGATGCAGAGCAGGAGGGGCTCTCCTGGGGAAGGGCACAGAGGTGCTGGGAGCCCTGAGGAGCCCCCAGGGGACAACGTGGAGCCAGTGCCCCTCGAGTTCAGGGGGAAAGAGGCTATCAG
Seq A exon
GTTGGAACTGAGGATTGTGCTGTTTGGTAGCTTGGGTCAATGCTCCTGCTGGCACCATTCCGCCATCAGCTCTGTTTCCATCTTCACGTGGTTTTGTTTCATGGAGAAACAGTAGAGTAAGATGTTGATGAGATAAATAGGTAATTCAGGTCACTAATGGTGAAATCCCCATAAACTCTCTGCTGTTTACTTTGCCGTGGACTTTGTTAAATTGCCGTTACAGACAACAAGGAGAACCTGGAGGGCAGCCTATTGCAAAGGGGCCACCTGTTGCAATGCGCCTGACCTTGTCTTTGCAAGGCTTGGTGCCCTGTTAGCATGTGCCAGGTAGAAATGTCCTCATCTGTATATAGAGCACTCAAACTCACAGTTCCCATACCATTCCTGTCATTTTGAATTCCGACCCATGAGAATAAGAAAGGACACATAAATGCATTTACAAAAATTCTGAAATAATGTCTGCCTTTCCTTCCTTTTTAG
Seq C2 exon
ACTCCACAATATTAAAAAAACATACAAAAAGAAAGACAAGAAGACAGAAGCCTTGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021399:ENSGALT00000006909:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.466 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000522=ABC_tran=PU(1.4=9.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTAAATACGGCATCCCAGCTCC
R:
TCTCAAGGCTTCTGTCTTCTTGT
Band lengths:
230-710
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]