BtaINT0023667 @ 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
chr17:54230017-54231317:-
Coord C1 exon
chr17:54231180-54231317
Coord A exon
chr17:54230106-54231179
Coord C2 exon
chr17:54230017-54230105
Length
1074 bp
Sequences
Splice sites
5' ss Seq
GAGGTACTT
5' ss Score
7.82
3' ss Seq
GGTTTCATGTCTCTTTGTAGTTC
3' ss Score
7.36
Exon sequences
Seq C1 exon
GAGCAGTTGCAGAAGCTGGAGGTTGAGCTGAGAGAGGTCACTAAGAATAAGGAGAAGCTGAGGAAGAACCTGCTGGAGCTAATTGAGTACACCCACATGCTGCGAGTGACCAAGACTTTCGTCAAGCGCAATGTGGAG
Seq A exon
GTACTTGGAGGAAGTGCCTTTCTTTCTCTTTCTTTTGGCCGCATGGCATGCAGGATTTTAGTTCCCTGACTAGGGATTGAACCCAGGCCCCCTGCATTGGGAGAGTGGAGTCTTAACCACTGGACCACTGAGGAAGTCCCAGGAGTGCGTTTCTTTTATAAAAATCTCATTCCCATAAGGTTTTCAGGTTTTGTTATCAACTCCTATAGAGATACTGCTTTTTAAAAGAGATACATCTTTAAAAAATGAAAGAGATACATTTTGATCTTCACTTTATTTTTCAGCTGGATTCCATGTTGGTTTTAACCATTTGCTGTTGTTTAGTTTGCTAAGTCCTGTCCAACTCTTTGTGACCCCATGAACTGCAGCCCTCCAGGCTTCTCTGCCCATGGGATTTTTCCAGGCAAAAATACTGGAGTGAATTACCGTTTCCTTCTGCAGGGGATCTTCCCGATCCAACGATCGAACCAGAGTCTCCTTCTTGGCAGGTGGATTCTTTACTACTGAGCCAACTTGGGAAGCCCCAGCTTTAACAATAACTACTTCCTATTTGTAAAATGCTTTAGTTTGCAATTGAAAAAAAGACTTTTTATGATCATGAAAAAAAATTGAACAGTGGAAATCAAACTCCAAAATTTCAGTTTTATTCTTTCCTTCTTCTCAAATTCCTAAAAGTAATGGAAGTTAAAAAAAAGAGAAAATCTATATAGGAATAAAGAACAGCCTATGCAGCAGTACTGTACCCAGCTGAGCATCAGAGAGGGCAGAGTGTATTCCTTCTGAACTTTGTTTCACTTCCTGTGGCAGGTGTGACCTCTGATACAGTTACTCTGTGTTAGGTTAAGGCGAGGACATAACCAGACTTTTTATTATATGTAAATGTCATCAAGTAGTTTACAAATAAGGAATGGGGAGGTTATCCTCTTTGTTTATCAGAGCCGACTCACATGTCTGAGTTAACTTGGCACCCAGATCTGAGTAGTTCTGATGCTGTGCAGACTTGTTTGGAAACAGGACTTGGGAATTAAAGTATCACTTTTGGCGAGACACGCTTGGTTTCATGTCTCTTTGTAG
Seq C2 exon
TTCGAACCCACTTACGAAGAGTTCCCTCCCTTGGAGAACGAGTCTTTGTTGGACTACAGCTGTATGCAGAGGCTGGGAGCAAAACTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000007272:ENSBTAT00000009563:4
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(5.5=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(3.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGTTGCAGAAGCTGGAGGTT
R:
CAGTTTTGCTCCCAGCCTCTG
Band lengths:
222-1296
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development