BtaINT0023660 @ bosTau6
Intron Retention
Gene
ENSBTAG00000007272 | ATP6V0A2
Description
Bos taurus ATPase, H+ transporting, lysosomal V0 subunit a2 (ATP6V0A2), mRNA. [Source:RefSeq mRNA;Acc:NM_176637]
Coordinates
chr17:54210716-54211755:-
Coord C1 exon
chr17:54211545-54211755
Coord A exon
chr17:54210836-54211544
Coord C2 exon
chr17:54210716-54210835
Length
709 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAC
5' ss Score
7.82
3' ss Seq
CTCCCCGTCTGCACCAACAGGAG
3' ss Score
8.19
Exon sequences
Seq C1 exon
ACATTTCAGGAAGAAGTTCAATATTTGTCTGGTTTCCATACCAGAACTGCTCTTCATGCTCTGCATCTTTGGATACCTTATATTTATGATCATCTATAAGTGGCTGGTTTATTCAGCTGAAACCTCCAGAACTGCTCCTAGCATTCTGATTGAATTTATTAGCATGTTTTTGTTCCTGGCTAGTGACACAGGTGGTCTTTACCCAGGGCAG
Seq A exon
GTAAACAATATTTTTTTTTTTCTTCCCCCATTCTTAGGAACTCAAGGGAAGTCCTTATGAGAACCTTTTTGTTTCGATCAGTAGAATGATTAAAGGTGATTCCCATGGCCTCCCAGGCACTGAGCGGCTTTCTGTTTCTCTCTGTTATCACAGGGGCGTGTCATTCTGCCAGGAGTGCTGTCTCCGGGGCTCTGGTCAGACTGTAATCCAAACTTGCTGCCACTCCTTAGCTGTCAAAAGTGGTGGGGAAAGAATGTGTTAGGGAGGGTTCCCGAGTACTGCTCATCCATCTGTCTTTCCAGTTTTTTCTTTTCTTTTCTTTTTCCAGTTTTTTTCTTTTTGAATACTTTGATTGATTTATTTATATTTAAATAATACCACTGAGCCACCAGGGGAAGCCCCTCCAGTTTCTTTAAAATCAGTTTCTGATTCAGCCAGGCTTTCAGAGCACTGGCAGTTGGACTATGGCACATGGTTCTCTCCAGAAATGACTTTTCTATATAGATGCACATTTGTGTGATGCCACCCATATCAGCTATGAGTTTAAGAAACAAAAGGTAGAGACCCTCTGACAAATATAATGTAGCTTGCATTTACTTTACGTTCTTGCTGATAGACATTCTACTTGGTTGTCACTGGTTTTAGCGTCCCAGTGACACTTGGTAGGTCTTTGCGTGTTAACCGGCTTCCTCCCCGTCTGCACCAACAG
Seq C2 exon
GAGCATGTCCAGAGGCTGCTGCTGCTCATCACCGTGTTGTCAGTCCCCGTGCTTTTCTTGGGAAAACCACTCTTTCTGCTGTGGCTGCACAGGGGGCGCAGTTGTTTTGGGGTTGGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007272:ENSBTAT00000009563:15
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(8.6=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(4.8=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:
TCAGGAAGAAGTTCAATATTTGTCTG
R:
CCTGCCAACCCCAAAACAACT
Band lengths:
326-1035
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development