GgaINT0125848 @ galGal3
Intron Retention
Gene
ENSGALG00000004165 | TOR1A
Description
NA
Coordinates
chr17:6258693-6259087:-
Coord C1 exon
chr17:6258912-6259087
Coord A exon
chr17:6258821-6258911
Coord C2 exon
chr17:6258693-6258820
Length
91 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TTTGTTTTCTCTTTTCTTAGCAA
3' ss Score
7.71
Exon sequences
Seq C1 exon
GACCAATTGCAGTCATGGATTCGGGGAAACGTGAGCATCTGCCCCAGGTCAATCTTCATATTTGATGAAATGGATAAAATGCACGCAGGACTCATTGATGCCATCAAGCCATTTCTGGACTATTATGAGCTTCTGGATGGAGTGTCGTACCGACAAGCCATCTTCATATTCCTCAG
Seq A exon
GTAAGGAGCAACTCCTTGGGCTTGCTGTCCTGGGCACGCAGGGCCTTTTAAAACTACCTTCAGCTACAACCTTTGTTTTCTCTTTTCTTAG
Seq C2 exon
CAACGCCGGAGCTGAAAAGATAACAGAAGTGGCACTCGATTTCTGGAGAAACGGGAAGGAGAGGGAAGATATACAGCTCACAGACATGCAGAACGCGCTGTCTGTGTCTGTCTTCAATAACAGAAATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004165:ENSGALT00000006623:3
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=0.000
Domain overlap (PFAM):
C1:
PF063096=Torsin=PD(15.7=33.9)
A:
NA
C2:
NO
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:
ATTCGGGGAAACGTGAGCATC
R:
ATCTTTTCAGCTCCGGCGTTG
Band lengths:
179-270
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]