RnoINT0023476 @ rn6
Intron Retention
Gene
ENSRNOG00000052704 | Atp6v0a2
Description
ATPase H+ transporting V0 subunit a2 [Source:RGD Symbol;Acc:621006]
Coordinates
chr12:37388668-37390235:-
Coord C1 exon
chr12:37390098-37390235
Coord A exon
chr12:37388757-37390097
Coord C2 exon
chr12:37388668-37388756
Length
1341 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGT
5' ss Score
10.2
3' ss Seq
CTGCTTCTGTGTCTTTCCAGTTT
3' ss Score
10.96
Exon sequences
Seq C1 exon
GAGCAGCTGCAGAAGCTCGAGGTGGAGCTCAGAGAAGTCACCAAGAACAAGGAGAAGCTGAGGAAGAACCTGCTGGAGCTGGTGGAGTATACCCACATGCTGAGGGTCACCAAGACCTTCCTTAAACGGAACGTGGAG
Seq A exon
GTACGTGTCCGCAGGAGAAGCATACCTGCAGGGCCCGCCACTGCTGCCTGTGTGGTTTGTCAGTTCATTTACATGGGTTGCCTTTCTGTTTAGTCTCGGCTCAGCCTTGTGTAGCCTGGCTGGCCCTGCAATCTCTGTGCAACCTGTGCCTCTGCTTCCCCAGTCCTGGAGTTAAAGCCGCCTCTGCCACACTTGGCCAGCACCCTGCTGACTGAGCTGAGCTCTCACTGGTAGCCCAGGCTGTCCTTGGAACTGGAGTGAGTGCTGGGATTATAGGCGGGAGCCTCCGTGCTTGGCATAGATGTGTATTTGCTTCGTGTGTTTTAAGTGGTCTGCCTCAGCCTCTGCTTCGCTTCCTGTGCTGCTGCTTTTAGCAGGGACACTATTTCCCACCGTGAAGTTTACAGTTGAGAAAAAGATGGTTTGGTTTGTCTTTAATTTTTTGAAAACTGTGTTTTCATGTTTTTATTACATGTGTAGTGGTGTTTTCCCTGCATATATACCCATACACTACACATGTGCGTTATAGAGGATTGTGAGCTGCCGTGTGACTGCTGGGAGTCGAACCAGGTCCTCTGGAAGAGCAGTCAGCATTCCTAACCCCTCTTTCCATCCTCTGGTGTATTTCATTATTTTGTGTGTATGGGTGTTTTGCCTACATCCATGTCTGTGGACCAAGTATGTGCAGTGCCCACAGGGCCACAAGAGGGCATCTGGTACCATGAAACCGGAGTTAACAGTTAATGAACAGCGAGCCATGTGGGCTGGGAATTGAATCCGGAAACTCTGAGAGAGCAGCAGGTGCTCTTAACCACTAGGCTATCTCTCCAGCCCCAAGCCCAATATTTTGTGGTTATGGGGAAAAAAAATCTTTGTTTTTCTAAAAGGCCGTGAATAGGGAGCATGAAGAACCCCCTCATGAGAGAAGACTGGTTCATGCTGGTGCCATGCAGGCTCGGTGGGCTGAGGGTGTTTGTGTGGATCCAGCATCACCGTGTGCTCCAAGCGCTGCATCCCAGTCAGGGCCTGCAGCACACTGAGCTGCGCATAGGATAGAGCCCGCCCGTCCCTTCCGAGGTTCCTCTCACTTGCTGTAGTAGTGACCCTAGACACGGTCTTTGTCTCCTGAGCTGAGGTGCAGCCTCACTTAGAACCGCTCTCCTCTGAGTGTCTCCAGCCGTTCGTCCACCTGTCAGGTTTGGCAGTGTGGCTTTCCTTGTGGCAGTTTACCTGTCATGGTTGTCGTCTGTTCCTGGGTGTGCAGTACCTCTGTGCGCTTGTCTGGAAGCTGGTTGTGAGGGAGGAGCCTGTTAACACGTGCCTGCTTCTGTGTCTTTCCAG
Seq C2 exon
TTTGAGCCAACTTACGAAGAGTTCCCCGCCTTAGAGAGCGACTCTCTGTTGGACTACAGCTGCATGCAGCGGCTGGGCGCCAAGCTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000052704:ENSRNOT00000083401:4
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(13.4=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(3.5=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:
CTGCAGAAGCTCGAGGTGGAG
R:
CTGCATGCAGCTGTAGTCCAA
Band lengths:
201-1542
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]