GgaINT0031586 @ galGal3
Intron Retention
Gene
ENSGALG00000004463 | F1NSE5_CHICK
Description
NA
Coordinates
chr9:16702341-16702694:+
Coord C1 exon
chr9:16702341-16702500
Coord A exon
chr9:16702501-16702587
Coord C2 exon
chr9:16702588-16702694
Length
87 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGT
5' ss Score
9.4
3' ss Seq
CTCACAGCTGTTCCTGGCAGCCG
3' ss Score
4.37
Exon sequences
Seq C1 exon
GGTGACTCGGGTGGTCCGCTGGTGTGCCAGGACCCCTCCTCGCACAGCTTTGTCCTCTATGGCATCACTTCGTGGGGTGATGGCTGCGGCGAGCGGGGCAAACCAGGTGTCTACACTCGCGTGGCTGCCTTTGCCGACTGGCTCAGCCTGCAGATGAACC
Seq A exon
GTGAGTGCCAGTGGGGGGCACGGGGTGGCATCCCAGGGGGCTCAGCATCTCACGGCAGCGCTGTGCCCTCACAGCTGTTCCTGGCAG
Seq C2 exon
CCGGGAGCCAAGCTGCTTTGACCTGCTGGCCCTGTCCCAGCTGGCCCCCGAGCAGCAGCCCCTCGAGCGCACCCGTCTCTGCTCCTTCTATGAGAGGTCCTGCCGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004463:ENSGALT00000007102:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.444
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PD(20.4=87.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGCAAACCAGGTGTCTACAC
R:
CCGGCAGGACCTCTCATAGAA
Band lengths:
171-258
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]