GgaINT0007393 @ galGal4
Intron Retention
Gene
ENSGALG00000003194 | ATP6V0A2
Description
V-type proton ATPase 116 kDa subunit a isoform 2 [Source:RefSeq peptide;Acc:NP_990054]
Coordinates
chr15:4910700-4912097:-
Coord C1 exon
chr15:4911978-4912097
Coord A exon
chr15:4910818-4911977
Coord C2 exon
chr15:4910700-4910817
Length
1160 bp
Sequences
Splice sites
5' ss Seq
GAGGTAATT
5' ss Score
8.88
3' ss Seq
AATGTGTTTTCGTGTTGTAGTTT
3' ss Score
7.6
Exon sequences
Seq C1 exon
CGTGGCTACAAGCTCATTCGGAAAGAGAGTGAAGAAGAACTTTCTCTGCTGCAGCCTCATGATGTGGAGGAAGGAAGCAGTCACTCAGATAGTGGGCACAGAGAAGAGGATGGAGAGGAG
Seq A exon
GTAATTAATTTATGTCTGATTAGTTTGTCCGTGAAAGGAAGTTAAAAGTAGAAAATCAAGGAGATAATCATGGAAGCTTCCAAGAAAATCAGCTGAACCTTTACGAAGACCTTAATATGCCAGAATGCAATTCATATATTTTTATTTGTTGCCATTTTATCATTATTTCTTGGTTCATTCAGATTGCTACAGCAATCTACAATCTTTCTGTAGTGGAGAACATGAAGAGTTAAGTGCTTTATTTGAATCAGACTGTAGTCTTTTCTTTAAATTGAAGAAGCAGGAAAAAATTCTTCCATCTTATTTTTTTAAATGGATTTATAGGTTCTTAAGGCAAAAAAGAAGGCTGTGCAGCTTCCTGTTAATTAATTCTGGCTTTTCCCATAGGTCAAAGTTTTTCATAGTTGAAAAGTAGATCTTGTGACAAAGCTTCTTTCTAATGGGGCCTGAGGGAAACAAATTGCATTCCTAGTCCTGGCTATCGCTGCTGCCTACTTAGGCCAGATCATTAAACATTTTTACCACTTCCACTGATTTCATGTGAATTTAAATCCAAACTGATTCAGATTCCCTGTGTGTATCCTATGTAGCTTCACTGGGGATGGAGAATTGTGCTTGCTATATCTAAAAAATACAAGAATTGTTTGCTTAAATACTTCCTTGTAAAGTAAATGTTGAAACTTGTGGTGAATTTAGTCTTGGTAGTCCTTGTTAGCAACAAACATTCATATTTAGAGTTAATGCTATTAATAGTTATCTCTCTGTGACTAGCATTACTGATAATTAACCTTAGTTGTAAAGATTCAAAATTGACATTGTAAATTTGTGACATTGGTAGAATAGGAGTTTGAATGGTATTTGGTTTTTACTGTCTTTATTTTTCAAGAATCAGATCATATTCGTTTGGAAAACAAATTTGCATACATTTTTATCTATTCACAAAGTAACTGAGGAAACTAACTGGAAAAATAGAACATCTGGTTGTTCCTGTTGTTCTCTGTAATGGATCTTAAACATAAGCTTTTTTTTTTCCTTGACATGAAATCAATGTATTACCCAGTGATGGATTTTTCTGTATACCAAGACTTGAAGATGAATGCTTTAAGTTTCACTTTGTACTCTGTTGTTTAAATGGATACAAATGTGTTTTCGTGTTGTAG
Seq C2 exon
TTTAATTTTGCAGATGCTTTTATGAATCAAGCCATTCATACCATTGAGTACTGTCTAGGATGTATTTCTAATACAGCATCGTATCTGAGACTCTGGGCATTAAGTCTTGCGCATGCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003194:ENSGALT00000005063:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.275 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(4.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGCTACAAGCTCATTCGGA
R:
ATGCGCAAGACTTAATGCCCA
Band lengths:
233-1393
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]