GgaINT0123907 @ galGal4
Intron Retention
Description
torsin family 1, member B-like precursor [Source:RefSeq peptide;Acc:NP_001264587]
Coordinates
chr17:5692517-5693110:+
Coord C1 exon
chr17:5692517-5692692
Coord A exon
chr17:5692693-5692982
Coord C2 exon
chr17:5692983-5693110
Length
290 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGG
5' ss Score
6.38
3' ss Seq
CTGAATCTCCTTCCTAACAGCAA
3' ss Score
7.91
Exon sequences
Seq C1 exon
GAGCAGCTGCAGAGTTGGATTCGGGGCAATGTCAGCGCCTGCCCAAGGTCCCTTTTTATCTTCTCTGAGATGGATCAAATGCCGCATGGACTGATAGACTCTATCCTGCCGTTCCTTGGCTACCGTGGCGAGATTGATGGAGTTCATTATGGCAAGGCGATCTTCATCTTCCTGAA
Seq A exon
GTAAGGAGAGCCAACGGCTTAGAGCGGGTTACAGCCCCACAGACACAGCAGGGACAAAGGGAGTGCCAATTGCTGACAAGTCTGTGGCTGAATCAGCACAGCTGAGCAGCTCAGGGCCCCCCCCTTGCTGTGGTCTCTGTCACTTCCCACCTCCGGGCAGCCCCCACACAAAGGAACATCACCTTCATCGCAGTGCAGAACCACACAGTCACTCAAATCCCTGCCAAGACACGGGCGGTAAAGACGGCAAAGACACAATTTAATGAACCCCTGAATCTCCTTCCTAACAG
Seq C2 exon
CAATGCAGGTGGGGATAAGATAACGGAGGTTGCTCTTGATTACTGGAGAAGGCTGAAGAGGAGAGAAGACATTCCCGCGGAGGAACTCCAAGATCTGCTCTCTGAGGAGATTTTCAGGAATCCAAACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023709:ENSGALT00000006704:3
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:
AGCAGCTGCAGAGTTGGATTC
R:
TGGATTCCTGAAAATCTCCTCAGA
Band lengths:
299-589
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]