GgaINT0125853 @ galGal3
Intron Retention
Gene
ENSGALG00000004180 | TOR1B
Description
NA
Coordinates
chr17:6250309-6250850:+
Coord C1 exon
chr17:6250309-6250513
Coord A exon
chr17:6250514-6250584
Coord C2 exon
chr17:6250585-6250850
Length
71 bp
Sequences
Splice sites
5' ss Seq
CCGGTACCG
5' ss Score
6.65
3' ss Seq
CTGACTGCGTTTCCCCGCAGCGC
3' ss Score
10.92
Exon sequences
Seq C1 exon
GAAGCGGGGCCGTTCGGAGGCGCCATGCCGCGGGCGGCCGTGCTGCTGTGGCTGCTGCTGCCGGGGCTGGCGGCGCTGGAGCCGCTCAGCGTGGGGTTGGCCATCGGCGTGGCCTCGGCGCTCACCGGTTACCTGTCCCATCCCAGCTTCTACTGCAGCTACGTGGAGTGCTGCCCCGGCGCCGGGCACCGCCTCAACGCCACCG
Seq A exon
GTACCGGGGAGCGGGGAGGGGCGCGGGTTGCGGGGCGCGGAGGGCTCGGCGCTGACTGCGTTTCCCCGCAG
Seq C2 exon
CGCTGCGGGAGCAGCTGGACGGCAGGCTGTTCGGGCAGCACCTGGCCAAGGAGGTGGTGCTGCGGGCGGTGACGGGCTTCAGCAACAACCCCAGCCCCAAGAAGCCGCTGACGCTGTCGCTGCACGGCTGGGCCGGCACCGGGAAGAACTTCCTGAGCCAGCTGCTGGCGCGGCACGTGCACCCCGCCGGGCTGCGCAGTAAATTCGTGCACCTCTTCCTGGCCACGCTGCACTTCCCGCACCCGCAGCGCGTGCCGCTGTACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004180:ENSGALT00000034684:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF063096=Torsin=PU(13.4=24.6)
A:
NA
C2:
PF063096=Torsin=FE(69.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGTCCCATCCCAGCTTCTA
R:
CTGGGGTTGTTGCTGAAGCC
Band lengths:
168-239
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]