BtaINT0160224 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010355 | VPS37A
Description
Bos taurus vacuolar protein sorting 37 homolog A (S. cerevisiae) (VPS37A), mRNA. [Source:RefSeq mRNA;Acc:NM_001046161]
Coordinates
chr27:19036849-19038895:-
Coord C1 exon
chr27:19038821-19038895
Coord A exon
chr27:19036964-19038820
Coord C2 exon
chr27:19036849-19036963
Length
1857 bp
Sequences
Splice sites
5' ss Seq
TATGTGAGT
5' ss Score
5.56
3' ss Seq
CTCTGTTCTACTTTTGCCAGATT
3' ss Score
7.06
Exon sequences
Seq C1 exon
CATAGCTGAAATACAGAAAGATGTGGAATACAGGTTGCCTTTCACTGTAAATAACCTGACAATTAACATTAATAT
Seq A exon
GTGAGTAGAATTGTATCCTGTTTTTTCATGGAATAGGACTTGGAAAAATCTTTTTATCATTTTGTTTCTTAGCTACTGTCAGAAGTAAGCTGTTTAAAGTAAGCTGAATTTATTTCCTTTTCTAGTATCTAAAGTTTCTTAAACTTACACAATTCTGTGAAATAAAAAAGTTTAAATATGTCATTGTAATAGAGATTGCGGTAAGAAACCATGAAAGAGGAAATGGAATACAAAGATGTAATAGATCTTTCATTGATTTGCACTAAACTCTTCGCTGGAGGCAGGCTGAAAGAGTGAGCATGACAACAACAAACAGTGGAAGGGATCGTGTGCAGACACTGTTAGAGGAACAACCACCTTTACATCAGAAACAAGTTAAAATATTCTAGTTTTCAGCAACCAATATAATACATCAGCCAGCAAGTTCACAGTTGAATTTGATCTGCCGATTATTTTTAAAGAAAAAAAATTAAAAGTAAAAAATAATAATCATTATTAAGGTTATTAAGTAATAAAGAGGAAAGTTTGGGCAAAGTGATTGCTAGTACTCATTTAGCCCTAAGTGCATTTATTAGACTTCAACGTGAAAGAATTATTATTACCTCAGATTGCATTAGGTGGCTGGCTGCTCAAGCAAGTGTTTGAGTGAGGTACAGTAAAAATGCACTTAACTTGAAGATAGAAACTATGTTTGTTCATCGTCAGATCTTCATTGCCTAGTGAGGTACCTTCACGTGGGATCCCATATTAAATCCTAGTTGAATGAGTGGAAATTAAACGGTGAATATATAGCAGTGCCAACCATTATGCTGTGTTATGTCAATATATGGGAGCTTTATTAATCGTCACAGCCGCCCTGAAAACTAAAACAAATTATATTCAAGTAGGTAGTGAATACAGTAGTCAGGAGAGAAACCCAGACTGTTTGGGCTCCAAAGGCCATTCATTGCCTCTTTGCCAAAGTAGTTTAACAGCCTAAACTATATACCTAAGGTAGTTTTCTCTCTCATCACACACCCTGGTACAGCTAAGTAGGAGAAGCCAACAAAGACCTAGTTTCCCTCTTGACAACAATAGTTCCCTGAGCCAGGAGGGGAACGGAGTGGCAATTTAAAAGGATGTATTCATCTAGATTTTAGAGATTTGCAAGGTTCCATGTCCCGTAAAAGTGCATTGTTGGAGACTTCACTCCCTAATTTCAAATTTGCAGTAGTTCTTAAAGGGTTAAGATTTTTACTCTTTTTCCTTTTGGTACTGAGAATTTACTGTTAATTAGCTGAAACCATAGGACTGACCTCAAAGTTGGGAGAGATGTGTTAATTGAGACATTTCAAAGAGAGCCGCATAGCACCAAGGCATGGTGTCAGCTCCAGTATTCCAACCCTAGTACTTCTTATTTTATCTACTTGCTCATTAAGAATTCAGTGTATAGTGAAACACTTCTTGGCAGCATTTCAAAAGAAGGAAAGCCACAAGAAAGTTAGATGCCAAGACCTGTGGTTCAGTAAAAAGCCAGACTGGCATAACATGGTTCACCTGATAAAAATGTATAATTTCTGGCTGAAATTTTGGATAGTTTGGTATAATGTGATGTATTTGAAAGCAATTATTGGCCCAGTTTGAAGAATAGTCTATAATTCACATTATCCTTACTCCACATTAAGAAGGTTTTACTATATTGAATTAATTATAGTCTCGTTGCCAAAGTGTGTCTTTCTGTATAGGTTCAGTTAAGTCAACAACCATAATAGAGCACTAATTACTGAATAATCTGAATGAAAGTGTGAAAATTTAATTTGCTTTTAAGTAACTTTGTTTTAGAATTATGATTATATAACTCTGTTCTACTTTTGCCAG
Seq C2 exon
ATTGCTTCCTCCACAATTTCCTCAGGAAAAACCAGTGATCAGTGTTTATCCACCAATACGGCATCACTTAGTGGATAAACAAGGAGTGTATGTTACCTCCCCATTAGTAAGCAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010355:ENSBTAT00000013675:2
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:
PF057438=UEV=PU(23.2=73.1)
A:
NA
C2:
PF057438=UEV=FE(46.3=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:
AAATACAGAAAGATGTGGAATACAGG
R:
ATTGCTTACTAATGGGGAGGTAACA
Band lengths:
182-2039
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]