GgaINT0129143 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NW73]
Coordinates
chr18:8197054-8197541:-
Coord C1 exon
chr18:8197366-8197541
Coord A exon
chr18:8197174-8197365
Coord C2 exon
chr18:8197054-8197173
Length
192 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
GCTTTCTTGTGCTTTTCTAGGTG
3' ss Score
11.95
Exon sequences
Seq C1 exon
GCTCTGCAACCATCTATGACTACAAGCTGTCAGAGATAGGAGATAGGGAAGAGATCAGAGAGATGGTCGGTGTTTGCCCACAGTTCAACACACAGTTCGAAGTCCTAACGGTGAAAGAAAATTTGCGAACCTTTGCAGAGATCAAGGGCATCAAATCCAAAGAGGTAGAGCGAGAG
Seq A exon
GTAAGTGCAAGTTCCCCTGCAACGTGAGCATGGGGCCTCGGTGCACTCAAAGCAACCCAACCTTGGTGCACCAAAAGCAACCCAACATACCCTTAGAAATCACTCCTTTGTTCCCAGCTACACCTCTATTTTGGCTCACAAAGGACAGACTGACAGCTGGTTCTGGGAATGGGCTTTCTTGTGCTTTTCTAG
Seq C2 exon
GTGCAAAACATTTTGGAACTGCTGGATATCAGTAGTGTGCAAGACACTCAAGCTGAGAAACTGAGTGGTGGGCAAAAAAGGAAGTTATCCATTGGGATAGCCATGCTTGGGAACCCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000021399:ENSGALT00000006909:13
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:
PF0000522=ABC_tran=FE(39.5=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(26.5=100)
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:
AGAGATCAGAGAGATGGTCGGTG
R:
GGTTCCCAAGCATGGCTATCC
Band lengths:
242-434
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]