GgaINT0021557 @ galGal3
Intron Retention
Description
NA
Coordinates
chr12:8944275-8945266:-
Coord C1 exon
chr12:8945191-8945266
Coord A exon
chr12:8944416-8945190
Coord C2 exon
chr12:8944275-8944415
Length
775 bp
Sequences
Splice sites
5' ss Seq
ATTGTGAGT
5' ss Score
7.35
3' ss Seq
AGAGGCCTAGATTTTTCTAGTCC
3' ss Score
-2.28
Exon sequences
Seq C1 exon
TGCGAAGTGTTCTTATTAAGCCCAATGTGAAAGGACTTGAGGATGAAGAGGAGGCACCTTTGCCTTTATCACCATT
Seq A exon
GTGAGTGGATTAAATCAGCACATAACCCACAGGCAAAGCACACTCAGTTGCACCTGAGCTGCATGAGCAGAGTTACGGTGTAATATTGCTTCCAGAGGCCCTTAATGAAAGTTTTTCTATTTATAGAGAACCTTCTATCTGAAAGTCTGAATTACAGAGTTTTAGCACTGCTTATGTTCTATTACTTTTCCTCCAGTTACATAGGGTAGCACCAATGATTACAAAGGAGACTTTTAGCTCTGAATGCCCTGACAACTAAGTGGTATTGAACTGTCTTTGCAATGAAGTGCATCTGTGTGGGACGCTTCACTGTTGTTGTCAGGCAGCAACACTGTGCAGTAGTTTAACACACTGAAACTGCACCCTATGTCGACGTTTCCTCTGACTGTGGTGTTATGTTGTGAAACCTTTGACATCAAATGGAAAAATACTATACTTGCAAAGCACAAGAGGAAGTCAGGTAGACAGAATACAGTTGCACAATTCCTGGAACATCAGAATGTCTGCCATCTAGATATTGATGATAAATACTTCCTGTTAGCAGTTACTGAAGTTAGAAGTTTACATTGATAAAGGTTCAGGAGAAGCAGATGATTTGATATGGACGATTAGACAGATTATCTTTTGCTGCTTAATACTGGAGATATGCTTGTGGCACTTAAATACAATTCCTGCTGTTTATCTGTAAGGATGTTTTATTCAATTATTACTTGAGCACTTCACTTGTTTTTATTTCTTTGTCTATTTATTTACTCAGAGGCCTAGATTTTTCTAG
Seq C2 exon
TCCATGGCATAAACATTTTATCCAAGCAAAAAAGCGGATCCTCTCTAACCTGCACATTCTTCACCCCACAATGAAAACTTTGCTGGATTTTGGTTATGCCGAATTCTCTACCTTTCTTTTAGCGGATTTTTTAAGTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000005601:ENSGALT00000008986:2
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCGAAGTGTTCTTATTAAGCCCA
R:
AAAATCCGCTAAAAGAAAGGTAGAGA
Band lengths:
206-981
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]