DreINT0166561 @ danRer10
Intron Retention
Gene
ENSDARG00000077950 | tor1
Description
torsin family 1 [Source:ZFIN;Acc:ZDB-GENE-080917-50]
Coordinates
chr21:3633959-3635904:+
Coord C1 exon
chr21:3633959-3634086
Coord A exon
chr21:3634087-3634906
Coord C2 exon
chr21:3634907-3635904
Length
820 bp
Sequences
Splice sites
5' ss Seq
ACAGTACGT
5' ss Score
7.54
3' ss Seq
GTATTTATCTGTTCCCGCAGGCG
3' ss Score
11.1
Exon sequences
Seq C1 exon
TAACGCCGGTGGTGAGAACATCGTTCAGGTGGCTCTGGATTTCTGGAAGGACGGCAAAGAACGAGAAGAGATCCAGCTGAAGCATCTGGAGACGGCGCTTTCACTGTCTGTCTTCAACAACAAAAACA
Seq A exon
GTACGTCACACTGCCCATTATAAGGAGCAGAAAATACTGCATCATATAAAATAAAGAATAAAAAATAGCAGCATCATGTTGTGGGGCTGTTTTGCTCCAGGAGGGACTGGTCCACTTCACAACATAGATGGCATCATGACGAAAGAACATTATCTAGACATACTGAAGCAACATCTCAAGACATCAGCCAGGAAATTACAACTTGGCCACAAATGGGTCTTCCAAACAGACCATGACCCTAAGCACAGTGCCAAATTAGTTAAAATGTGCTTTAAGGATAATGGAGTGAATGTTTTGGAGTGGCCATCACAAAGCCCTGATCTCAATCCTATAGAAAATTTGTGGGCAGAGTTAAAAAAGCTTGTGCGAGCAAGACGGCCTACAAATCTGACTCTGTTACACCAGTTCTGTCAGGAGAAATGGGCCAAAATTCCTGCAAACTATTGTGAGAAGCTTGTGAAAGGATACCCAAAACATTTTACCAAAGTTATACAGTTTAAAAGCAAAGCTAAAAAATACCAAGTAAATGTGTGTAAACTTTTGACTGTCTAGAAATTAATAATAAATTGTCAAAAAAAAAATTCTCTCATTATTCTGGCGTTTAGCAAGTGTAAATCATTTAGGTAATCCTAATAGACCCAAAATATTAAACGTTTAGTATGATTTACCGTCAGACATTTAAAAAAAAAAAAATTATGTTAATTAAAGTTATGTTAATTTTTTTAGAGTGTATGTAAACTTCTGGTTTCATGGTTTCAACTGTAGGTGCAGCCCTACACTATATATTATCAAACTCATCTGTATTTATCTGTTCCCGCAG
Seq C2 exon
GCGGTTTCTGGCACACCAGTCTGATCGATAAGAACCTGGTGGATTTCTTCGTGCCGTTTCTCCCTCTGGAGTACAAGCACATCATTCAGTGCGGTCTGGCGGAGATGATCGCCAAGGGGCATTCGCCTGACAAAGAAGTGGTGGAAAAAATGGCCCACGACCTCAACTATTTCCCTAAAGAGGAGCGCGTTTTCTCCATGCAGGGCTGCAAAGTCATTCCCAGCAGACTGGACTTCTATATCTGAACGAGAAGAGACAGATGAGACTCTTTATAATTGACAGAAATGGAGGAATTGAGAGTAAACCATGCTCATTAAAGACTCTCAAGAGTGTTTTTATCCAATCACACGTCTTTTATACAACAATGGACTGTTTTATTAATGTCGAATCAGCTGCTCGTGTCCCTGTTTTAAAGGGTGTTTGTTTAAAGATGATGAATTTGCAGCGTACACTTTTTTAAAAAACGACTTTGCACATTATGGAGCTCCTGTAAAAAAAAAAACACTGGTGATTCTATGAAGCATTATTTGCTATCATGATTTATATATAAATTGTACTTTGTATGTCAAAAGCACTAATTTGCCTTCATCTTCAATTATCACAGATGTTTATTACAGCCTTTTTTGGGGGGTTTTCGGCTAAGCAATGTTTAGAATGAAAGTGATCGTTAGATAAGTCACATGACCTTAAAAGCTTTAATTTTCCTAATTTGTCAGGATTTACCATTTTTGTTAAGTTTCTGGATCACAGATTGTAGTGTTGGTGGTTTATAATTGAAGATTTTGAGTAAATGTGTGCCTTTATCTCAATAGAGAGATTTAAGTTCAGCAAAAAACATGATTTTTTATTTCTTAAAGGCACTGATTATTAATTGATCTTGTTTTGAACGTAATGTAACATTTGAGACGTTTATGAAGACTTCTGAGATGCTCCAGGAAAAAAATGTGAAATACTTGAACTACAAGTTGATTTTTGATAAACGTTACGAGCTAAACTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000077950:ENSDART00000111699:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGGTGGTGAGAACATCGTTC
R:
TGCTGGGAATGACTTTGCAGC
Band lengths:
348-1168
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]