BtaINT0023682 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004263 | ATP6V0A4
Description
ATPase, H+ transporting, lysosomal V0 subunit a4 [Source:HGNC Symbol;Acc:HGNC:866]
Coordinates
chr4:103201616-103203699:-
Coord C1 exon
chr4:103203582-103203699
Coord A exon
chr4:103201788-103203581
Coord C2 exon
chr4:103201616-103201787
Length
1794 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
GTTTCTCTTGTGTCTGGCAGAAC
3' ss Score
8.98
Exon sequences
Seq C1 exon
TTCAACTTTGGAGACATCTTTGTGCATCAGGCCATTCACACGATCGAGTATTGCCTGGGCTGCATTTCCAACACAGCCTCCTACCTCCGGCTTTGGGCCCTCAGTCTGGCACATGCAC
Seq A exon
GTGAGTGAGTGGGCCGCCTGGCAGGGTGACCATCACACGTCCCTTTGGAAACAGATGTAATGTACTTGGAGGAGAAAGTGCCTTCTGGGTTGTTTCTGGTGTGTTTGCCAGAAGAGTGGCTCTTTCAAAGTGTTAATAGAAGTGACTTTTTTTCAGGAGGTCTGGCTTTGTATTGCTGAAATGATTACCCTCTGTATCAGGTTCCTGTTGCTGCTGTAACAAATTATCACAAATGTAGCAGAGGTGACTGAGTGCAGCACACAGCAGCTTAGAACACTGTGAAATTGACTATCTTACAGTTCTGGAGGGCAGAAGGCTTAAAAACAAGGTGTTGGCAACTCTCTTTTTTTCTGGAAGCTCTTGGGGAGAATCTATTTCTTTGCCTTTCCTCGTTTCTACAGGCCTCTTGTATTTATTGGTAAAGATTTAAGCCCCAAGAATGACTTAAATCTGGAATCTTGACTCATGGACTTACTTTGTAAAATTTCTCTTGATTTCTGCCTGCTTCTCCAGTCTCGACTCTTGGTGTTTCCCTCCGTGCCCCACTGGCTCTCTGTTACCCCCACCCCCTCCCCATTTCTTGTGCAGTGGCCACGAGGAACGGCCCTGAGGCTCCTGAAGATGCCACGCCATCTCGGCCCTCCGTGCGTCTGCCCTCACCTGTAATATTCTTCCCTTCTTGAACCCTCTCTGCAGCCTGATGTCTCATTCCTCCTTCAGAACTCAGCGTGGTTGGCTCCTTTGCTGCTGGTCTTCCTCCCTGGCTCCCAGTCTGGAAGGTGCCCTTCCCTAGGTTCTGGAGGTGCTCTGACCTAGTACAGATTGTAACCGTGTCTTGTTAGCCTGTCTCCCTACTAGATTCTGAGCTCCTGAAAGGTAAGGACCCTGGCTTTTAACTCTGCATTCCCAGCCCTGGGCATCATGCCAAGAACAGAGAACCCAGGCCAGAATGTGTGCTAAATAAATAGAAACCAAAGCAGTGAAAATGAGCCTGGTTATTGATTTACAGCAGAAAAGCAGGTGCTCAGAGTTAGTGTGGTCTTGACTGCTTTGGCTGCTTGTTTTCTTGTACAAACTCCTGTAATTATAGTATCTCCCTGGAAGGGGGAGTGAGAGGACTCTTTGGTGTCTCTTCTTATAAGGGGCACTAATGCCATCATGAGGACTCTACCGTTATGACCCCATCTAACTCTAATAATTTCTTTTTTTTTTTTTAAAGGTTTTTTTGATGTTAACCATTTTTAAAGTCTTTATTGAATTTGTTACAATATTGCTTGTTTTATGTTTTGGTATTTTGGCTGCAAGGCATGTGGGATCTTGGTTCCTCAATCAGGGATCGAACCTTTGGCCCTGGTTTTGGAAGGCAAAGTCTAACCACTGGACAACCAGAGAAGTCCCCCAATTCACTTCTTAAAGGCCCCATCTCCCAAGTACCATCCCTTGGGGGTTAGGGCTTTAATATATGAATTTGAATTCAGTACATATTAAATCGTATTACACGTATTCTTTTGTGTTTCATAAGATGTTCCTTCATGTTGCTGCCAGTAGCTATGGTTTGCTCACCTTCACTGGTGAATAATGTGCCATCATACACTTGTCCTCTTGATGGAAACTCCTCCAAAACTGCTGTAGATGACCGTAGGCAGGTAACCCAGGGTGTAGATGCCCACGTTCTCCACTTGGGAGCGGAGTTGCCGAATTGTAGGGTGTACAGATCCAGGATTACTGTATGAGAGTAATCTGCATTTGCCCAGTAAACCACGTGGTTGAGAGTGTTTCTCTTGTGTCTGGCAG
Seq C2 exon
AACTGTCTGAAGTGCTCTGGACAATGGTGATGCACATTGGCCTTCGCACGCGAGGCTGGGGAGGACTCGTTGGGGTCTTCATCATTTTTGCCGTGTTCGCTGTTCTGACGGTAGCCATCCTTCTGATCATGGAGGGCCTCTCTGCTTTCCTGCATGCCCTGAGGCTGCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004263:ENSBTAT00000005588:18
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:
PF0149614=V_ATPase_I=FE(4.9=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(7.1=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:
ACTTTGGAGACATCTTTGTGCA
R:
CCTCAGGGCATGCAGGAAAG
Band lengths:
278-2072
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]