BtaINT0151639 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002837 | TOR1B
Description
torsin family 1, member B (torsin B) [Source:HGNC Symbol;Acc:HGNC:11995]
Coordinates
chr11:100210927-100213226:+
Coord C1 exon
chr11:100210927-100211195
Coord A exon
chr11:100211196-100213050
Coord C2 exon
chr11:100213051-100213226
Length
1855 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGG
5' ss Score
3.33
3' ss Seq
TTCTTTTATGGTTGGTCCAGGAC
3' ss Score
5.93
Exon sequences
Seq C1 exon
CAGCCCTCAAGCAGGACTTGGAGGAGAAGCTGTTTGGGCAGCATCTGGCCACAGAGGTGATTCTCAAGGCGCTGACCGGCTTCAAGAACAACAAAAATCCCAAGAAACCACTGACTCTCTCCTTACACGGCTGGGCTGGCACAGGCAAGAATTTTGTCAGCCAAATTGTGGCTGAAAATCTTCACCCCAAAGGCCTGAAGAGCAACTTTGTCCACCTGTTTGTGTCGACCCTGCACTTCCCTCATGAGCAGCACATAAAACTGTATCAG
Seq A exon
GCAAGGAATTGTTATCCCGTCCTCTGGCTTCTCCGACTGGTCTGGGTGACCCACTCCCTGACTCCATCCTCTGTTTCTTTGCGCTGCAGTAGCCCCAGACCCCACGGGTTTAAGGCACAAGCCCCCCACCCTGGTGACCCTTTGCCATTTGCAGTTCTGCAGCTTCTGCCTCACCGATTCCAAAATAATACAGCGGGGTGTGGGTGTGCTCAGTCGCTAAGTCGTGTCCGACTCTTTGCCACCCCATGGACTTGTGGCCCACCAGGCTCCTCTGTCTGTGACATTTCCCAGACAAGATACTGGAATGGGTTGCCATTTCCTTCTCCAGGGGATCTTCCCGATCCAGGGATCGAACCCGCGTTTCCTGCGTTGACAGGTGGGTTCTTTACCACTGAGCCACCAGGGAAGCCCAGTACAGCGGGGTGATGTTCCATTAAAAGATGGAGCCAAGAGCGGGAAGGTGACTTGCTCCCTACAGTCTTTGTGACCTTACGACAAATGAGAAACTGGAACCCAAATCTCCTGTCTCCCAGTCTGCAGGGTAGCCATGCTGTGCAGTGAGTATGCGCAGCATCCCCGTCCCAGCCCTTGGTTAAGTGAAACAGACTCAAATGGCTTTATTTAAGGCTCCCTTGGGAATTCCTTGGTGGTCTCATGGTTAGGACTCCATGTTTTCACTGCTGAAGGCACAGGTTTAATCCCTGATCAGGGAACTAAGATCCCTCAAGCACAGCCAAAAATGAAAAAATAAATTCCTGCCTATGATGTAGCTTCAGCTTGCCCTCTGCATTTAAGCAGTGAGGACCAGAGGATTTTTTTTCCTCCTCAGTAGCGGTTTTTCCCTTTGCTCCTCCCGTCCTTCGCATTCTTGGCATTGTATTGTTAAGTTGTCCAGTAGGGTTCTTGTTTAAGTGGACATCCTTGTATTCCTACATCCTTAGTGTTCCTATTTAGTGTTAGGTGGGGACTGAGATAAGGAATAGAAACTGAACAAGGAAGTAAAAGTGTATATCTGCCACATAAACAATAAGACAGGGAAGACAGCCAAAAAGAGAATGATTTTCTTATTTTCCAAATTCTTTCATAATTCCCTGGAAATACAGGCACAAACGCTTGTCATGACATGTTATCTAGCTCAGCGTCTTTGTTCACTGCACTTGTAACGCCGTACAAGGCACTGGCCTTGGATACAGCGCTGGTCTTAGTCTAGTTTCTTATTCCTCAGTATGTCTAGTAGAATTGAGATTTCCATCCACAGTGAGATGAAAATTACTGGTTGGTTACCAGTGAAATGATAAATATTCACATATCTTATACTTCTTAAACCTTTAAAAAGTTGCACTGGGTACTTCATTTGAGTTAGGAAAACACTTATTTGCCTTTTAGCACCCATCTCTCTGCTGGTTTCCGTCCCCCCCTCACCCCTTTTTTTCTTTCTTTTTTTAAAATTTAATTTTTAAAAAAAATTTATTTAATTGGAGGCTAATTACAATATTGTAGTGGTTTTTGCCATACATTGACATGAATCAGCCACGTTCCTCCCACTTTTTATAGATGAAGTTTTGGAAAACTAGGTACCCAGTGAGTGCAGATTAGGATGTGGTTTTTGTTAAACCGCAGAGAGCTCTGATTTTTCACTTCCTGAGTGTGAAGAACAGCATGGCATTTCTCCCCGGGCACACCCTTTTGAGTCCCCATGCCCCACTGAGTGTGAAGAACAGCATGGCATTTCTCCCCCGGGCACACCCTTTTGAGTCCCCATGCCCCACTGAGTGTGAAGAACAGCATGGCATTTCTCCCCGGGCACACCCTTTTGAGTCCCCATGCCCCATTTCTTCTTTTATGGTTGGTCCAG
Seq C2 exon
GACCAGTTACAGAGGTGGATCCGGGGTAACGTGAGTGCATGTGCGGGCTCTGTGTTCATATTTGATGAGATGGATAAGTTGCACCCGGGAGTCATTGACGCAATCAAGCCGTTCCTGGATTACTACGAGCAGATTGATGGCGTGTCTTACCGGAAGGCCATCTTCATCTTTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002837:ENSBTAT00000003678:1
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(80.0=98.9)
A:
NA
C2:
PF063096=Torsin=PD(18.2=33.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGAGAAGCTGTTTGGGCAG
R:
TGATTGCGTCAATGACTCCCG
Band lengths:
355-2210
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development