GgaINT0125847 @ galGal3
Intron Retention
Gene
ENSGALG00000004165 | TOR1A
Description
NA
Coordinates
chr17:6258912-6259984:-
Coord C1 exon
chr17:6259719-6259984
Coord A exon
chr17:6259088-6259718
Coord C2 exon
chr17:6258912-6259087
Length
631 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
CCTGTTTTTATGCTACTCAGGAC
3' ss Score
6.46
Exon sequences
Seq C1 exon
CGCTGCAGGAGAGCCTGGACAGACGGCTGTTCGGGCAGCACCTGGTCAGCAAGGTGGTGGTCAGGGCCGTGCGGGGCTTCCTCAGCAACGCCCAGGCCAAGAAGCCGCTGGCGCTGTCCCTGCACGGCTGGACGGGCACCGGCAAGAACTTCGTCAGCAAAATCATCGCCGAGAGCATCTATAAGAGGGGGCTGAAGAGTAACTACGTCCATCAGTTCGTGGCTACGCTGCATTTCCCTCACGCTCACAGCATCAACCTCTACAAG
Seq A exon
GTAAAGGTGGTGGGAGGGCAGTGGCACTGATGGGGGCTGCGATGGATCGTTAGGGTTGGAAATGGCCTCGAAGATCTTAAGTGAGAGGACCTCATAATGCAGCAGAGCATTCGTTTGTGTGCTGTGTTTTAAGAAGGCCTCATCGTTGTGTTCCTTTAATTTCTGAGCGACTCAAAATGAGGGCTGAGGACTGAATTCTGCTGCCTGTTCCAGTGACTGCAGGTGGGGTTTCACAGAGTGAGTCGCACAGTGTGGCTTTGATGGGGGATGCTTGGACCAAAGCGCTGCCAAAAGCTCTCAGTGTGCTTCACAAGGCTCTGCTCCGTGCTGCTGTTCCCCCTGGTACTCAGCCTTTGTCCCGATGTGCAGCCTTTCCTTTTTGATGTGGTTGCAGGAATATCTTTCTCTTGAGAGTTCGTGCACGTCTCATCCTGTCTCTGGGTGTCCTCATTTTTGAGAACCAACACGGCATTCTAAGTTTTACGTTCAGCTTTTAGCCATCTTTTAGTCCAGAAGCGAAGCTACCGAAATAATGCAATTGAAAGGAGTACAAAACTCAGGAAGCACAACTCCTGTTTGCTGGCTTTTCAACACAAACTCTTTCAGCCTCTCCTGTTTTTATGCTACTCAG
Seq C2 exon
GACCAATTGCAGTCATGGATTCGGGGAAACGTGAGCATCTGCCCCAGGTCAATCTTCATATTTGATGAAATGGATAAAATGCACGCAGGACTCATTGATGCCATCAAGCCATTTCTGGACTATTATGAGCTTCTGGATGGAGTGTCGTACCGACAAGCCATCTTCATATTCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004165:ENSGALT00000006623:2
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=FE(69.3=100)
A:
NA
C2:
PF063096=Torsin=PD(15.7=33.9)
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:
GTCAGCAAGGTGGTGGTCAG
R:
GTCCAGAAATGGCTTGATGGC
Band lengths:
342-973
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]