RnoINT0023491 @ rn6
Intron Retention
Gene
ENSRNOG00000013428 | Atp6v0a4
Description
ATPase H+ transporting V0 subunit a4 [Source:RGD Symbol;Acc:1305055]
Coordinates
chr4:65738630-65739936:-
Coord C1 exon
chr4:65739819-65739936
Coord A exon
chr4:65738802-65739818
Coord C2 exon
chr4:65738630-65738801
Length
1017 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TGTCCCCCTCACTCTCCCAGAGC
3' ss Score
9.51
Exon sequences
Seq C1 exon
TTCAACTTTGGAGACATCTTTGTCCACCAAGCCATCCACACCATTGAGTACTGCCTGGGCTGCATCTCCAATACAGCCTCATATCTTCGGCTGTGGGCTCTCAGCTTGGCTCACGCAG
Seq A exon
GTGAGTGTATTACCGGGAACGTGTGGGGCAGGGGGTGGGGTCGGGGGTGGGGGTTGGAGGGGAGTTGGCAACCTTACTACCCGGAGAACAGCCTTACTCTATCCATAGCAGACGTGCCGTCCCTGCATCATTTAACGTTTTTCCTTAGTGTCTTTCCGGACCTTAAGCAACCTACCACAGTTTCCCATGCTTCTGAATTCGTGTGAACAGACTCTTCGAGAGGCCCCCGTGTGACAAAATGCCACATCAGACTCCGTGGCTTCAGCCAGAAACTGATTTTCTTACAGCTCTGGAGGCTGGAAGTTTGAGATGAGAGTGCAGTGTGGGTGGGCTGCTGGGGTGGGAGCTCGCTTTCTAACGTCCTCACACAGAGGTGTGGGAGAGTGAGAGCTGAGATACCAGAGTGAACAGGTTCTTAATTTCCCTAACCCCATGGCAATGGGACCCCTCTCAAGTTTCTGATCACCTCCCCTCCAAGACCCTGCCTCCAAATACTGTGACAGTGAAAGCTCAGATCTCAACACCTGAGCCCAGGGAGGGCTACAGACAAACCATGCCTCATGCATTCTTTTAGATTTAGCACTTTTTAAAATATCATTTATTTCATGGATATGAGTACAGTGTAGCTGTCTTCAGACACACCAGAAGAGGGCATCAGATCTCATTACAGATGGTTGTGAGCCACCATGTGGTTGCTGGGAATTGAACTCAGGACCTCTGGAAGAGCAGTCAGTGCTCAACCACTGAGCCATCTCTCCAGCCCATAGGTTTAGCATTTTGTGCATATTTCGTGTTGTTCAAATTTGTTCCTTTTGCTGCCGATAGCTCTAGTTGGTGATCAATGCCTGGTTCTTCTTGCTGGAAGCCCCACCACAGTGATCAAAGCTGTGGTGGGCAAGCTCCTGTATGACCCTCAGAGCACCTTTGCATCTGAGGTGACAGGCTGAGAGTGGTGTGCATTGAGCAGATGTGTATGTGACACAGCAAAGGCTGAGGATGTCCCCCTCACTCTCCCAG
Seq C2 exon
AGCTGTCCGAGGTACTGTGGACCATGGTGATGAGCATCGGCCTTCGCCTCCGAGGCTGGGGAGGGCTCGTTGGTGTCTTCATCATTTTTGCCGTCTTCGCCGTCCTCACAGTTGCCATCCTCCTCGTTATGGAGGGCCTCTCAGCCTTTCTGCACGCCCTCCGGCTGCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013428:ENSRNOT00000064201:18
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(5.1=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(7.4=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:
TTTGTCCACCAAGCCATCCAC
R:
CGGAGGGCGTGCAGAAAG
Band lengths:
263-1280
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]