BtaINT0023650 @ 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
chr19:43219862-43220390:+
Coord C1 exon
chr19:43219862-43219944
Coord A exon
chr19:43219945-43220263
Coord C2 exon
chr19:43220264-43220390
Length
319 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
TCTGGCTCTTCTCCCCACAGCTT
3' ss Score
11.58
Exon sequences
Seq C1 exon
ATGGCGGATCCAGACCTGTTGGAAGAGTCCTCGTCCCTCTTGGAGCCAAGCGAGATGGGAAGAGGCACGCCCTTGAGACTTGG
Seq A exon
GTAAGTACCACTTCGACCCTCTGTACTCAGCGGAGTCATGTCCATTTTTGCTGTTCAGAAGAGCAGTCAGGCTGGGCATTCACTGCCTTCCAGGATGCCCTTTCTTCTGAGCCTGTTGCAAGTTGTTGCTGACTTACTTTGGGTTCAGTTCCTAAGTCGTTCTGTCAACCCTCTGCTGAGTCCAGGAATCAGATTTTGGCAGTTATTTTGGCATAGCAACGCCCAGCCTCCTGTCTGACATCTTTCCCCTCCCCTGCTCTTCACTTTCCTCGTATCCTGTGGCATGGAACCATTCCCAATCTGGCTCTTCTCCCCACAG
Seq C2 exon
CTTCGTGGCTGGTGTGATTAACCGGGAGCGCATCCCTACTTTTGAGCGCATGCTTTGGCGGGTGTGCCGGGGGAATGTGTTCCTGCGGCAGGCTGAAATCGAGAACCCCCTGGAGGATCCTGTGACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019218:ENSBTAT00000025588:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.238 A=NA C2=0.039
Domain overlap (PFAM):
C1:
PF0149614=V_ATPase_I=FE(14.4=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(22.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGGATCCAGACCTGTTGGAAG
R:
AGTCACAGGATCCTCCAGGG
Band lengths:
206-525
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]