GgaINT0040101 @ galGal3
Intron Retention
Description
NA
Coordinates
chr6:32953989-32954574:+
Coord C1 exon
chr6:32953989-32954124
Coord A exon
chr6:32954125-32954359
Coord C2 exon
chr6:32954360-32954574
Length
235 bp
Sequences
Splice sites
5' ss Seq
TAAGTAAGT
5' ss Score
8.07
3' ss Seq
GTGTTCGGTTTTTTAAATAGATT
3' ss Score
8.83
Exon sequences
Seq C1 exon
GTGAACCTCAATGCGGTGCTTCGCTCTCAGACCCCAACAAAGCACTCAAGATCAACCTCAATTCAAATGCAAACTGTCTCTGGCACATTCAGAGGAGTGAAAATCAAACAATTAGGCTCATCTTCTCTTATTTTAA
Seq A exon
GTAAGTATCTCCTCCCGCTGTTCCGGTAGCATTTCATTCCATCAAAACAGAGCACAGAAAAATGTTGAAATATATCACTATGGCCGGGCTGAATATCTTAATTTCATCTCAAGACATTGCAGCCTCCAAATATTTATCTGTATTTGCTTCAGTAAAATGCTTGCTGAGCTTGTGCTGTGGGCTCCAAGGAACCTGGATATTTATCTGTTCTGTTTGTGTTCGGTTTTTTAAATAG
Seq C2 exon
ATTTAATCCTTCTTCAAGCTGTGAAACAGAAAGTATTAAAGTCTATGATGGCCCCTCATCTAATTCACCTCTTCTTGGACAAGTATGTAACAACACTGACGCCGTCCCAGTGTTCCAATCATCTTCAAACAGTCTGACTTTCCTCATTACAACAAACTCTGTGGCTTTCACACGGAATTTCTTTGTTTCCTATTACTACTTCTCACCAGAAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023421:ENSGALT00000038694:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PU(38.7=89.1)
A:
NA
C2:
PF0043115=CUB=PD(60.4=87.7),PF082396=SH3_3=WD(100=49.3)
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:
CGCTCTCAGACCCCAACAAAG
R:
AGAAATTCCGTGTGAAAGCCAC
Band lengths:
297-532
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]