GgaINT0143140 @ galGal3
Intron Retention
Gene
ENSGALG00000003256 | ATP6V0A1
Description
NA
Coordinates
chr27:4600281-4601154:+
Coord C1 exon
chr27:4600281-4600497
Coord A exon
chr27:4600498-4601046
Coord C2 exon
chr27:4601047-4601154
Length
549 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
GAGGCTTGTTTCTTTTACAGAAA
3' ss Score
8.22
Exon sequences
Seq C1 exon
ATATTTTAAGAAGCCACTGAACATATACCTTGGGTTTATTCCAGAGATGATTTTCATGTCCTCACTGTTTGGATACCTTGTTATTCTCATTTTCTACAAATGGACAGCCTATGATGCTCACACATCAAAGGAAGCCCCAAGCCTTTTAATACATTTTATCAATATGTTTTTATTTTCCTATGGTGATACCAGTAACAAGATGCTTTATAGAGGGCAG
Seq A exon
GTATGTACTGTTGCTTGAATTGTAAGATCAGAGGTGCTTTGTAATATTCGTCTTTGATTGACCTTATAATAGTTGTAAAATCAAGCATTAAGCACTTTGTGAGAGAAGAAATGTGGCATTGTTTCCAAAGCCTGACACTGTGGAATGTGGAAGAAAGACAGAATTTCTGTGTGGAGAATTTATATCAGTCTGAACACGTCAGCTATGGCTCCAGAATACGTGGATCCAAATCAACAGTGAGAAGTCAGTAGGAATATTGCTCTGCACCTGCAATACAGTGCTTCTGAGCTTAGCAGTATGTGCTAATGCTGTTCACAGGATCTTTTGTCATTTTCCCTCATCTGCCTAGTGTCACTGTTACCTGCTGTGTGCAGGCAGTTGTGGCAGCTGCAATCAGGTACCAGGTACAGCACATCTTCCTGGAACAGTGTGTGTGAAGCATCCACATACTCTGGGAATTCAGTCATTCAGTGTTGCTTGAGACTGCCTGAAAGGGTTTGTGTCAACATGGACTGCCACTAAATCATCTGAGGCTTGTTTCTTTTACAG
Seq C2 exon
AAAGGACTCCAGTGTTTCCTTGTGGTGGTGGCATTACTGTGCGTGCCGTGGATGCTGGTAGCTAAACCTCTGGTCCTTCGCCACCAGTATTTAAGGAGAAAGCACTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003256:ENSGALT00000005153:15
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(10.4=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(4.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGAAGCCACTGAACATATACCTTGG
R:
CAAGTGCTTTCTCCTTAAATACTGGT
Band lengths:
318-867
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]