BtaINT0023636 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019218 | ATP6V0A1
Description
Bos taurus ATPase, H+ transporting, lysosomal V0 subunit a1 (ATP6V0A1), mRNA. [Source:RefSeq mRNA;Acc:NM_174754]
Coordinates
chr19:43228674-43229787:+
Coord C1 exon
chr19:43228674-43228813
Coord A exon
chr19:43228814-43229629
Coord C2 exon
chr19:43229630-43229787
Length
816 bp
Sequences
Splice sites
5' ss Seq
GAGGTGATG
5' ss Score
4.44
3' ss Seq
CTCTTTCTTCTGGCTCCCAGATG
3' ss Score
9.46
Exon sequences
Seq C1 exon
CTCCATACACCATCATCACTTTCCCTTTCCTGTTTGCTGTGATGTTTGGTGACCTTGGCCATGGCATTTTGATGACTCTTTTTGCTGTATGGATGGTGTTAAGAGAGAGCCGGATCCTCTCCCAGAAGAATGAGAATGAG
Seq A exon
GTGATGTTTTGTCTGTTTGTTTTTGCTAGAAACTCAGAAACATAAGATAGTAGTATTATTTTCTTGACATATTTCTAATATTTTTCTCCTGTAATCTTTGGCTGCATACTGTTTTTGTCTCTCCATAGGGCAACAGGTTTATAAAAATTTTGTACATACAGAAGGATAATTCAGTCTTTTCTCCATGATTGATGGAAATATATTTTCTTTTTACTTATTTGTTGAGGTATTATTGATTTATAATATTACATTAGTTTCAGGCGTACAGCATAGTGATTGCAAAATTTTATAGATTACACTCCACTTATAATTATTATAAAATGTTGGCTACATTCTGTGTGCTGTACAATATATCCTCATAGCTTATTTATTTTATGCATAGTGGTTTGTACCTCTTGAGTCACTTACCCCTATCTGACCCTCTCCCCTTGGCTCGCCCCACTGGTAACCACACAGTTAACACTAGCTAATTCAAGAATGAACTAATGTCTAGGTTACATCTGCGTTGGTCTGAAACTTTATAATTTCTCAAGCACCATTATGAAAATTATGATCTGGAAGTCTCTGACCCATAGAGAAATTTTAGAGACTATTTAGAGAATAGAGGCGCTATGTTCATTTTAACACTAAAGAGGCCATGTGCTGTGAAAGTACATTTCTTGTTAGCGTTTGTATTTTGGTCTTTACTTCAAGCTCTCTGACCCAGAATGGGGTAAAAGTGGCAAGAGAGGAAGGGGCTAGTATATTCTGAATGATATTGTCACAACTTGAGCTGCAGGGATTATGTTTCATTGGCCTCTTTCTTCTGGCTCCCAG
Seq C2 exon
ATGTTCAGCACTATATTCAGCGGCAGGTACATCATTCTGTTGATGGGCGTGTTCTCCATCTACACTGGCCTCATCTATAACGACTGCTTTTCCAAGTCTCTTAATATCTTTGGGTCATCCTGGAGCGTACGGCCGATGTTCGATATATACAACTGGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019218:ENSBTAT00000025588:12
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(5.7=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(6.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCCATACACCATCATCACTTTCCC
R:
AGTTGTATATATCGAACATCGGCCG
Band lengths:
294-1110
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]