DreINT0166571 @ danRer10
Intron Retention
Gene
ENSDARG00000100559 | tor2a
Description
torsin family 2, member A [Source:ZFIN;Acc:ZDB-GENE-050913-60]
Coordinates
chr5:64427338-64429362:-
Coord C1 exon
chr5:64429097-64429362
Coord A exon
chr5:64427514-64429096
Coord C2 exon
chr5:64427338-64427513
Length
1583 bp
Sequences
Splice sites
5' ss Seq
AGGGTGTGT
5' ss Score
4.51
3' ss Seq
TTGTCTTGTTTTGTGCACAGTCA
3' ss Score
7.72
Exon sequences
Seq C1 exon
GTTTAGAGTGGGATCTTTATAAAAATCTTTATGGACAGCATATGGCTCAGGACATTGTCTCAGAAGCGGTGGTGAACTTTTTACAAAATGAAAACCCAGACAGACCACTAGTGCTGTCTTTCCATGGATCATCCGGGACTGGCAAAAGTCTAGTCAGCTCAATGATTGGACGACACATCTATGGAACGGCTATGGGGAGTCCATACATCCATCAGTTTATTCCCACATTACACTTTCCTTCAGCCGACAGGGTGCTACAGTACAGG
Seq A exon
GTGTGTGTGGATTTACTGACGTAAAACAGGGTTGCCAGGTTTGTGCAACAAATATAGCTCAGTCACCCTATTTTAAAGCAGAACTTATCAAACTCTAAATATGCCATAATAAAAATACGTTCATTCATTCATTTTTATTCAGCTTAGTCCCTTATTTATCAGGGGTCGCCACAGCTGAATGAACCGCAAACTTTTCCAGCAAAGGTTTTACACAGCGGATACCCTTCTAGCCCCAATCTAGTACTGGAAAATAAAATACATATTTTACAGTCAATTTTTTGACTGGAAAACAATAATAAATTTATAGGAAACATTTGAGGAAAACATTTTAACATGTTATCCCAAGTGCTGTTTAACAGAGAGACTTTTTAAAACACATTTTAATACATTTTAGCTTTAATAGATTTCTTATATACAATTGAAGTCAGAATTATTAGCTCCCCAAATTTCTGTTTAACAGAGATTATTTAAGATTATTTTTTCAACACATTTCCTAACATAATAGTTTTAATAACTCATTTCTAATAACTGATTTATTTTATCTTTGCAATGATGATAGTACATAATATTTTGCTAGATATTTTTTAAGACACTAGTAGTCAGCTTAAAGGGTCATTTAAAGTCTTAACTAGGTTAATTAGGTTAACTAGGCAGATTAGGGTAATCAGGCAAGCTATTGTACATCGATGGTTTGTTCTGTAGACTATCAAAAGAAAATATAGCTTAAAGGGGTTAATAATTTTGACCTTAAAGTAGATTTTTAAAATAAAAAAAAAGCTTTTATCTTAGTAGAAATAAAATAAATAAGACTTTCTCCAGAAGAAAAAATATTATCAGACATACTGTGAAAATTTCCTTGCTCTGTTAAACATCATTTGGGAAATTCTGACTTCAACTGTATATGATTTTCCATGTCTTTGGCATGATGGCAGTTAATATTATTTTACTTTTTTGATATAATGTATTCATTTATTTGGTGTGTGTAGTTATATATTAATTATTCATTTACAACAAATTTTCTTTTTCCTGGTATGTTGAAAATATTGTATCGATGTTGTAAATAATAGACTACCATATATATATATATATTATTATTATTATTATTTTATTTTTTATTTTTTAAACAAACCTCATAAACCTGTATTTTAGTTCCCCTCCACCAGAAATACTTCTAAATAAACAAAAGATTCAGATTAGAAAAAAGAAAGAATATTACAAGTATTACATGGTGGGATTCATTATAAGTAGCATTTATTTTAGGCATCAAGCTTAAAGAAATGATCCTGAAACTAGCAGTGGGTGTGTGGGAAATGCTTTATGCAAATTCCTACCATTGCCTCTTTCCTGCATAACTCACCGTCTAGCACGGTTTTATCATTGCTAGATTGCAAAATGGGAATAATATTTTAACACAAGCAAACTAACTTTTTACCTGTGTGAAAAAAAACGTAATCTGCAAAAACAGATTAAACTCGCCCAACTTGGCAACCATTTATAGGAACGCAATAATATTTGTATACTCTCAGTAGAACCTGTTTGATCTATGTAATGTTGATGTATTTGTTGTCTTGTTTTGTGCACAG
Seq C2 exon
TCAGATCTAAAGCGACGGGTTGAGAAAAGCCTCACCGCTTGCGCTCGTTCAATCTTCATCTTTGATGAGATGGAGAAAATGCCTCCAGGTGTGATCGACGTTTTAGAACCGCATTTAGGCCCCTATCACATTCTCTTCCAGACCAACTACCGCAAGGCCATTTATATATTCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000100559:ENSDART00000165556:2
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(69.8=100)
A:
NA
C2:
PF063096=Torsin=PD(15.9=33.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTGTCTCAGAAGCGGTGGTG
R:
GTGATAGGGGCCTAAATGCGG
Band lengths:
342-1925
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]