GgaINT0031585 @ galGal3
Intron Retention
Gene
ENSGALG00000004463 | F1NSE5_CHICK
Description
NA
Coordinates
chr9:16702102-16702500:+
Coord C1 exon
chr9:16702102-16702244
Coord A exon
chr9:16702245-16702340
Coord C2 exon
chr9:16702341-16702500
Length
96 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
TGTGCAGATGTCCCCCCCAGGGT
3' ss Score
5.31
Exon sequences
Seq C1 exon
AGGGGCCATCGGCCGAGGTGGTGATGGAAGCACAGGTGCCTCTGCTCAGCCAGGAGACGTGCCGGGCAGCCCTGGGCAGAGAGCTGCTCACCAGCACCATGTTCTGTGCCGGGTATCTGTCTGGGGGCATCGATTCCTGCCAG
Seq A exon
GTACTGTCACCCCACAACATGACAGTGCCCCGGGCATGGGGTGAGCACAGAGCCCTGTCTGTCCTGCTTGGGCTGATGTGCAGATGTCCCCCCCAG
Seq C2 exon
GGTGACTCGGGTGGTCCGCTGGTGTGCCAGGACCCCTCCTCGCACAGCTTTGTCCTCTATGGCATCACTTCGTGGGGTGATGGCTGCGGCGAGCGGGGCAAACCAGGTGTCTACACTCGCGTGGCTGCCTTTGCCGACTGGCTCAGCCTGCAGATGAACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004463:ENSGALT00000007102:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.021 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(20.4=100)
A:
NA
C2:
PF0008921=Trypsin=PD(20.4=87.0)
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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCACCAGCACCATGTTCTGTG
R:
GTGTAGACACCTGGTTTGCCC
Band lengths:
172-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]