GgaINT0143143 @ galGal3
Intron Retention
Gene
ENSGALG00000003256 | ATP6V0A1
Description
NA
Coordinates
chr27:4606905-4608024:+
Coord C1 exon
chr27:4606905-4607022
Coord A exon
chr27:4607023-4607480
Coord C2 exon
chr27:4607481-4608024
Length
458 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
CCTCCCTTTTCTCCTGGCAGAGC
3' ss Score
11.24
Exon sequences
Seq C1 exon
TTTGACTTTGCTGACACTGTGGTGTACCAGGCCATCCACACTATTGAGTACTGCCTGGGGTGCATCTCCAACACTGCGTCCTACTTGAGGCTCTGGGCTCTCAGCTTAGCCCATGCAC
Seq A exon
GTGAGTATTCCTGGAGTGGAAATTGAGCTCATTGTCACCAATGGACCTGGAATGGTGATATGCAAAGGGCAGCAGTGCAGGTAGCTTCCCTAGAGCTCAGCTCTGCAGTGTCGGGTACTGCTGGAGAAGGGCAGAGCTGGCAGTAATCAGGTGTAAACACCACTGTCTACATGCACAGCACCCTGCTATAACAGGTGCTTCGCTCTGGAAGGAGGGATGGGATTGGAAGTGCTGAATGAAGCAAAGAGCTGCTGACCAGTGGGTCTGCACTGCATGCAGCAGTGGGCAGCCATGTCCTGACATACTTGCCTGCAAAAACTCGTCTCCTCTAAGTTTCCCACTTCATTATGGTGGAAGGTTTTTTCTCGACTTCAGTTTGTGCTGCATAAGAAAACTGCAGCTCTCTCTTCTTGTTGGATGCTCTGAAATGAGTCCTCTCCTCCCTTTTCTCCTGGCAG
Seq C2 exon
AGCTCTCGGAGGTGCTCTGGACCATGGTGATCCACACTGGGCTCAGCGTGAGGAGTCTGGCTGGAGGCTTTGGCCTTGTCTTCATTTTTGCTGCTTTTGCTACCCTGACGGTAGCGATTCTCCTGGTCATGGAGGGCCTGTCTGCTTTCCTCCATGCTCTTCGCTTGCACTGGTGAGTTACAGCAATGCTCAGAAACCATGAGCTCACCATGGAAAGGAGGTTGGTGTCACGTGGGCTATCTGGAGAAATGCACATCTTCCAGGAGATTGTGCTGGGTGTTACACAGTGAAAGCGAGGCTATAAAATTGGGGTGGTGGGTAATACTGTGGTGAGATGGGTCATGTTCAGAAGTGCTGGAGGACCACAGCTCTTTCCTAAACGTCCTACAGAAGATGTGTTCTGGCAGCACAAAGTCTTTAATATGGTCAGAGTTTTCACTCTTCTTTCTGATAGTATTCTCTTCTCCTGACCATAGGCATAAACTTTGCTTAGAAATTGTTGGGAGTAGCTGAACTCTAATTAAAAAAATTAAAATAAATTAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003256:ENSGALT00000005153:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0149614=V_ATPase_I=FE(5.0=100)
A:
NA
C2:
PF0149614=V_ATPase_I=PD(7.3=96.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCCAACACTGCGTCCTACT
R:
CACTGTGTAACACCCAGCACA
Band lengths:
343-801
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]