GgaINT0125846 @ galGal3
Intron Retention
Gene
ENSGALG00000004165 | TOR1A
Description
NA
Coordinates
chr17:6259719-6260294:-
Coord C1 exon
chr17:6260077-6260294
Coord A exon
chr17:6259985-6260076
Coord C2 exon
chr17:6259719-6259984
Length
92 bp
Sequences
Splice sites
5' ss Seq
CCGGTACGG
5' ss Score
9.77
3' ss Seq
CGGCTCCGTGTGCTCCACAGCGC
3' ss Score
8.89
Exon sequences
Seq C1 exon
GGCCATGAAGCCGTGGCGGGGAGCGCGGCGGGCGGCTCTGGGCCTGGCGCTGCTGCTGCTCCTCGCGCCGCCAGCGCGGGCCGTGGAACCCATCAGCCTGGGGCTGGCGATCGCCGGGGCCGCCGCCTCGGCCCTTACCGGCATCATCTCGTACCCGCGGCTCTACTGCTACTTTAGGGAGTGCTGCCTCCAGCGGCACGAGCAGCGCGTCGCCGCCG
Seq A exon
GTACGGGCCGGGCCGGGGGAGCGGGGAGGGTGTGGGCGGCCGGGATGGGGCCGGGGTTCTGCCCGCCGCTAACGGCTCCGTGTGCTCCACAG
Seq C2 exon
CGCTGCAGGAGAGCCTGGACAGACGGCTGTTCGGGCAGCACCTGGTCAGCAAGGTGGTGGTCAGGGCCGTGCGGGGCTTCCTCAGCAACGCCCAGGCCAAGAAGCCGCTGGCGCTGTCCCTGCACGGCTGGACGGGCACCGGCAAGAACTTCGTCAGCAAAATCATCGCCGAGAGCATCTATAAGAGGGGGCTGAAGAGTAACTACGTCCATCAGTTCGTGGCTACGCTGCATTTCCCTCACGCTCACAGCATCAACCTCTACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004165:ENSGALT00000006623:1
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=23.6)
A:
NA
C2:
PF063096=Torsin=FE(69.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACCGGCATCATCTCGTACCC
R:
CTGGGCGTTGCTGAGGAAG
Band lengths:
178-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]