GgaINT0139177 @ galGal3
Intron Retention
Gene
ENSGALG00000001331 | F1NLW7_CHICK
Description
NA
Coordinates
chr24:1601322-1601930:+
Coord C1 exon
chr24:1601322-1601357
Coord A exon
chr24:1601358-1601692
Coord C2 exon
chr24:1601693-1601930
Length
335 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
TTTGCTGTTCTCCTGGGCAGATA
3' ss Score
9.91
Exon sequences
Seq C1 exon
CTGCCGACCCCAGCATCGCTCAGACTGCTCGGGACA
Seq A exon
GTGAGTACAGTTCTTCTTCAGTCTCAGTGTAATGGCCTCTGTGCATCCCCAGCTGTCTGCAGGGTGACAGTTTCCCTTTTGGGGTGAGGAAGGGCCTGAAGGGAGGTGCTTTGCCTGAGGCAGATCTCCACGTGCTACTTGGAGCTGGTCTGGGGTTGGCCAAACTTGCTGTTATCCAGCAGTGGTGGGTGGCCTGGTCTGTCCTGCCGCAGTGCCTTTCTCCAGGAAGGCAAAACTCCAACACATCTGCAGTCCTCTGCATACCCTGTACCCACAAGAAAGATCTCTCCTCCTCCTCGTTTGTCCTGATAACTCTTTGCTGTTCTCCTGGGCAG
Seq C2 exon
ATAGCTGCCTTTTCGCCCTCCACGCCAAGGAAGGGGAGATCACCAGTTTCAACACACCAGGGTTCCCCCACAGCCCATACCCCAACAATGCACGCTGCTACTGGGCACTGAGGGCAGATGCCAACTCCGTCATCAGCCTGACCTTCAAGACACTGGACTTGGAGCAGTGCACAGACAGCAGTGACTACGTCAAGGTGTATGACTCTCTGAGCCCTGTGGAGCCCCATGCTCTGGTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001331:ENSGALT00000002027:5
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=0.013
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0043115=CUB=PU(65.8=96.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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:
CCGACCCCAGCATCGCTC
R:
CTCCACAGGGCTCAGAGAGTC
Band lengths:
254-589
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]