BtaINT0151629 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020305 | TOR1A
Description
Bos taurus torsin family 1, member A (torsin A) (TOR1A), mRNA. [Source:RefSeq mRNA;Acc:NM_001099058]
Coordinates
chr11:100226040-100227150:-
Coord C1 exon
chr11:100226910-100227150
Coord A exon
chr11:100226306-100226909
Coord C2 exon
chr11:100226040-100226305
Length
604 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
GGCTTTGGATTTTTTCGCAGCGC
3' ss Score
7.15
Exon sequences
Seq C1 exon
CTGGTGGCGGCGCCGGTCGGCGGTAGGCGCGAGAACGCGCGGGGCGGCGCGGGTCCCGGCATGAAGCTGGGGCGGGCCGCGCTGGGCCTGCTGCTGCTGGCGCCGTTGGCGGTGCGGGCGGTGGAGCCCATCAGCCTGGGATTGGCCCTGGCCGGCGTACTCACCGGCTACATCTCCTACCCGCGCCTCTATTGCCTGTTCGCCGAGTGCTGCAGCCCGAAGCGGAGCCTCAGCCGGGAAG
Seq A exon
GTAGGATGGGCCGGGGTCTGGTGTGAGAGCTGGGAAGGGGGTCAGAGGCGGGGGGCAGCCAGGAGGCCCGGAAGCCCGGGCAGTGCCCAGCCGGGGGATGGCGGGCGGGGGGAGCCGGACCCGGAACTGGCGTGCGGCACGGGGCCTGGCTCCTGGGCCACGACCGCAGGCCGACGGGACTTTGGTCTGAGACCTGCGGATGCCAGCTGCACCTTCGCCCAGAAAGCGGACGGGTGGACGATCCGAAACTTCCTCCAGAGAATTTCTTGCTCGTTCCTCACCGGAGACGGGAAGGCTGGTGGGGGCTCTCCCGACTCGGAGCAGCGGATCTGAATTAAGCTGCCCTTTTTTTCCTGCCGGCCTTCGGGTGGGGAGGGACAGGGCCGGGGTGGGTCTCATCCGAAAGTGTGGGCAGGACTTGCAGAGGGAGGGCCTCCTGGACTCACGGGTCATCTGGGCCGAGTGCCTACGTACATCTGCGTCCCAGTAAACGGTTGGAAGAGCTTAGCGGGCTTTGCCGGCTTTACGTGAGCCTGTAAACGGCTACGTTTTGCCAGGTGTGTCCCCCTACTCCCTGCCTGACTGGCTTTGGATTTTTTCGCAG
Seq C2 exon
CGCTGCAGAAGGATCTCGACAGCAAGCTCTTTGGACAGCATCTTGCAAAGAAAGTCATCTTAAATGCTTTGTCCGGCTTCATCAGCAACCCGAAGCCCAAGAAACCTCTCACCCTCTCCCTGCACGGGTGGACAGGCACTGGCAAAAATTTTGTCAGCAAAATCATCGCGGAGAATATCTACGAGGGTGGTCTGAACAGTGACTATGTCCACCTGTTTGTGGCCACGCTGCACTTCCCACACATCTCGAACATCACCCTGTATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020305:ENSBTAT00000027059:1
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(12.7=26.2)
A:
NA
C2:
PF063096=Torsin=FE(69.8=100)
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:
TCACCGGCTACATCTCCTACC
R:
ACAGGGTGATGTTCGAGATGTG
Band lengths:
342-946
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development