GgaINT0059796 @ galGal3
Intron Retention
Gene
ENSGALG00000008332 | F1NXV6_CHICK
Description
NA
Coordinates
chr5:25591176-25591691:-
Coord C1 exon
chr5:25591518-25591691
Coord A exon
chr5:25591355-25591517
Coord C2 exon
chr5:25591176-25591354
Length
163 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
AATCCTATTTCTTTCCACAGGCT
3' ss Score
10.08
Exon sequences
Seq C1 exon
ATACGAAAGGAATAAAGAGAAAATTGTTCTGTTGGATAAAGTCATCATCCATCCTAAGTACAACTGGAAAGAGAACATGGACCGAGATATTGCACTCCTGCACCTGAAGCGACCGGTCATCTTCAGCGACTACATCCATCCTGTCTGCTTGCCTACCAAGGAGCTTGTGCAGAG
Seq A exon
GTGAGGTAGCTGTCCCTTCAACCCCAGAAATACAGACTACAACAACCTTCAGGCCCATCGTGGAAGACAAGAACAATGCTTGTTTAGGCTACTTGCAGTGAAAGAGCCTAGCAAGAGAGAGCTGTTACAACACATTGTATTATAATCCTATTTCTTTCCACAG
Seq C2 exon
GCTGATGCTGGCAGGTTTTAAAGGGCGGGTAACTGGCTGGGGAAATCTGAAAGAAACGTGGGCCACTACCCCAGAAAACCTGCCAACAGTTCTGCAACAGCTCAATCTGCCCATTGTAGACCAAAACACCTGCAAGGCATCCACCAGGGTTAAAGTCACAGACAATATGTTCTGTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008332:ENSGALT00000013559:11
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:
PF0008921=Trypsin=FE(23.3=100)
A:
NA
C2:
PF0008921=Trypsin=FE(24.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCGAGATATTGCACTCCTGC
R:
ACTTTAACCCTGGTGGATGCC
Band lengths:
250-413
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]