GgaINT0031584 @ galGal3
Intron Retention
Gene
ENSGALG00000004463 | F1NSE5_CHICK
Description
NA
Coordinates
chr9:16701816-16702244:+
Coord C1 exon
chr9:16701816-16701975
Coord A exon
chr9:16701976-16702101
Coord C2 exon
chr9:16702102-16702244
Length
126 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGT
5' ss Score
10.29
3' ss Seq
ACTGGCACCTTGCCTGGCAGAGG
3' ss Score
6.28
Exon sequences
Seq C1 exon
TTCAACCCCAAGACGTTTCATGGGGATCTGGCGCTGCTGGAGCTGGCGGAGCCGCTGGCACCGTCGGGCACCGTGAGCCCCGTGTGCCTGCCCAGCGGTACCACCGAGCCCAGCCCCGGCACCCCCTGCCACATCGCGGGGTGGGGGTCCCTGTATGAAG
Seq A exon
GTAGGTGCCACCCAGCACCCATGGGGTCTGTGCTCAGTGCTGAGCCACCAAGCCAAAGGAGCAAAAAGAAGAGGGTGTGGGCACCCCAAGTGCGGAGTACCCCATAACTGGCACCTTGCCTGGCAG
Seq C2 exon
AGGGGCCATCGGCCGAGGTGGTGATGGAAGCACAGGTGCCTCTGCTCAGCCAGGAGACGTGCCGGGCAGCCCTGGGCAGAGAGCTGCTCACCAGCACCATGTTCTGTGCCGGGTATCTGTCTGGGGGCATCGATTCCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004463:ENSGALT00000007102:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.185 A=NA C2=0.021
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(23.0=100)
A:
NA
C2:
PF0008921=Trypsin=FE(20.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACGTTTCATGGGGATCTGGC
R:
CACAGAACATGGTGCTGGTGA
Band lengths:
257-383
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]