GgaINT0050564 @ galGal3
Intron Retention
Gene
ENSGALG00000009583 | Q5F353_CHICK
Description
NA
Coordinates
chr7:19633550-19634158:-
Coord C1 exon
chr7:19634035-19634158
Coord A exon
chr7:19633637-19634034
Coord C2 exon
chr7:19633550-19633636
Length
398 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
TTTCCTGTGTGCTCCAGCAGGAG
3' ss Score
7.21
Exon sequences
Seq C1 exon
GTTCAGCTGTCATCAGTTAACCCCTCACCGGCATTACCCCCTGGGCCAGCAGGACTCGAGCAGAGTCTGTCAGGACTTTCTATTAGCTCGCCCTCGACTACTGTCAGTAATGTTCTTAGTACAG
Seq A exon
GTCAGTATGGAAGTCACTCCCAAAATGCTCAGGTGGATTGACTTCTTTGGATTCACACGTGTTTCCATTGGTTTAATAGAGGGCAGAAGGGAAAATAAACTTCTCTCTTTCTCCTTCCCAAACTTTTCTGAACAACAAAGGCTGGAGTGCTGTAATAATGTATTTCACTTTGTAACCTGAGTGTGCTTTACTTGCTCAGAAGAGATTTGATAACGTCTATCAGAAAGAAGATGTGTGTTATTCAGAATACTGCTTTTCTTCGTCAGTGTTTTATGGTTATTTAAGGCAAATAACAAATCTCCTGTGAGCAATTATTCATTTGTACTCTCTTGAGGACTACAATCACTGAAGTGTAGTACTCTTAAAATTGACATTTGTTTTCCTGTGTGCTCCAGCAG
Seq C2 exon
GAGTTCCGACAGTCCCGTTGTTACCACCGCAGGTCAGTCAGTCCCTTACCTCCGTGCCACCAGTTAACCCAGCAACAACACTACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009583:ENSGALT00000038551:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.714 A=NA C2=0.835
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GCTGTCATCAGTTAACCCCTCA
R:
CAGGTAGTGTTGTTGCTGGGT
Band lengths:
206-604
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]