GgaINT0123905 @ galGal4
Intron Retention
Description
torsin family 1, member B-like precursor [Source:RefSeq peptide;Acc:NP_001264587]
Coordinates
chr17:5691093-5692434:+
Coord C1 exon
chr17:5691093-5691281
Coord A exon
chr17:5691282-5692165
Coord C2 exon
chr17:5692166-5692434
Length
884 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CTCTACCCTCATTCTTCCAGTTG
3' ss Score
7.96
Exon sequences
Seq C1 exon
CCATGAAACTTCTCCATGCTGCTGTGCTCTCCATCCTTGCGCCCGCACTGACGCCTGCCATGGACCCGCTCAGCGCTTACCTCATTGTGGGAGGTGCAGCCATCACTTGGCAGCTCTTCTCCCCTCACTCCTGGCTCAGGTGCAGTCTCCTGGAGTGCTGCAATGCAAAGGAGACACTGAATTTCTCAG
Seq A exon
GTAAGGCAGTGGGAAGGGCAGTGATGGCCCTTCCTGGGGTAGGGAGGGTTTCCCAGCACATCCTTTGGGTGCTCATGGAAAGAGAAGCTCTGAAATGCAAAGGCTCCTAACACAGCTTGTCCCACAGCCCAGCCACTCACTGCCTATAAGCTGTGTTGGATGAGCAGTGATTAGTGCTACATCTAAGGTTCGAGAAGCTGTTTCATTTCTCCCAGACAAGCAGTCTAGCAGTTATTTCACCCTGAAACTGCAGGGCTGAAAAAACCTTGAACTACTTTCTTAACCACAAATTCCAGTGCCTGCCACTTGGAAATCCCCCACTCCCGTGTCATAGGACTGCAAGTATTGTTTCATTTCAGAGCTGGGATGCAGATTTCAGGGGAAACTCTCGAGTGCTGGAGGTCCCTCTGCCTCCTGATGCTTCAGCACGTTGCTTCATGCCAGCTCTGCATTTGATGGTGACAAACAAACTGTTTTCTGGCACTTCAGCCACTGAAATACTGGTTGGGATTCTCTTTTAAAAGGACATTATTTAGCAACAGAAGCATGAATTGCTATAAAAACAAAGCGTGCTAGAGGACACAAAAACGGTAAGTGAGAATTGAGCACACGCATAGTATCTCTGCTTATATACATAAGACCCCATCCCAGGGCTTTACAGAAGGCAGTGGTACAGTGCCATGAAAACTCATGGCAAATTCTCCTGCAAGCAGCTTGGTTCCCATAAATACCATAGACTTTCATGAGTCCACCCCTGAGTTTGGTTCTCTGCTGATTCACAACCTCAGGCAGTGTCTGTTCGCTCCCTCTGATGGCCATCCAGCTGCAGCCAGAGAAAGGGGAGGAACAAATGGCACCTTCTGACTCTACCCTCATTCTTCCAG
Seq C2 exon
TTGTGAAGATGGATTTGGAGCGAAAAGTCTTTGGCCAGCATCTGGCTGTCCAAATAGTTCTGAGAGCTCTGAGCATGAACCTTCAATCCAAGCGGCCCAAGAAGCCCCTGGTGATGTCCTTCCATGGCTGGACTGGCACAGGCAAATCGTTTGTCAGCAGTATCATTGCAGAGAACCTCTACCGACTCAATGCATGGAGGAGGAGTTTTGTGCACCACTTCAGCACGGTGCTGCATTTCTCACATGGTTCCCATGTCCACCTGTATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000023709:ENSGALT00000006704:1
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(12.6=25.4)
A:
NA
C2:
PF063096=Torsin=FE(70.1=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:
CTGCTGTGCTCTCCATCCTTG
R:
AGTCGGTAGAGGTTCTCTGCA
Band lengths:
358-1242
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]