BtaINT0023639 @ 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
chr19:43232720-43233855:+
Coord C1 exon
chr19:43232720-43232838
Coord A exon
chr19:43232839-43233638
Coord C2 exon
chr19:43233639-43233855
Length
800 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
TTTTCTGTCTTAATTTTTAGCTA
3' ss Score
10.77
Exon sequences
Seq C1 exon
ATTTGGAACATTGCTACCAATAAACTGACCTTCCTCAACTCCTTTAAGATGAAGATGTCTGTTATCCTTGGTATCATCCACATGTTGTTTGGAGTCAGCCTGAGCCTTTTCAACCACAC
Seq A exon
GTGAGTTGCTCTGTTTTGTCCTAAGAATTCACACAGTTCAGACAGTGCTTTTGCCTGAAGAAGTCATAACACCTTTAGGAGGAAATAATAACTCAGAGCACTGTTCTCTATTGAAGTGCCTTTAAAAAAAATCTTAACTTCTTCAAATGAAGCTTGCTTATTAATATCAGTCCCTTAACAATGTATGAGTTTGCCAGGTGGTGCTAGTGGTAAAGAATCTGCCTGCCAGTGCAGAAGACACTAGAGACATAGGCTTGATCCTTGGGTCGGGAAGATCCTCTAAAGTATTAAATGGCACCCCACTCCAGTATTCTTGCCTGGAAAATCCTATGGGCAGAGGAGCCTGGCAGGCTACAGTCCATGTGACTGTAAAAAGTCGGACATGACTGAGCCACTGAGCAGACAACATACAATCGTTCTCAAGATCTTTGTTAAAAAAAAAACACCACCTTGTGTAATTTTCATCAAAATGGAAGTTATGTTTTTTCCCATGATGTGTAACTCACATAAACTTGTGAATTGTAGTCTCAGAAGGTACTTGATTTTCCCTTCTCTTTCTCACGAGGGATTGACGGGGATGGTATTAGAACTGTTCAAGGTTCAAAAGTTTGAAAGTAGTCGTTAATCCTGCCTGTCTCTATTGCCTCTAGTGCTTCTGGCTGTCACTTCTTAAAGTGTTCAATTCTTAAACACAGAATTGATGGAAAGTTAGGTAGAAAGTCTAGGGAGAGCAGTCCACTTGGTATGAGGTGATCCTCGGTCTGTTCACTGTTAACATTTTTTTCTGTCTTAATTTTTAG
Seq C2 exon
CTACTTCAAGAAGCCCCTGAATATCTACTTTGGATTTATTCCAGAAATAATCTTCATGACCTCTTTGTTTGGTTACTTGGTTATCCTTATTTTTTACAAGTGGACGGCCTATAATGCTAAGACATCGGAGAAAGCACCAAGCCTTCTGATCCATTTCATAAATATGTTCCTCTTTTCCTATGGGGACTCTGGTAATTCAATGCTGTATTCTGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019218:ENSBTAT00000025588:15
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(9.0=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:
TTGGAACATTGCTACCAATAAACTGA
R:
CTGTCCAGAATACAGCATTGAATT
Band lengths:
334-1134
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]