GgaINT0143130 @ galGal3
Intron Retention
Gene
ENSGALG00000003256 | ATP6V0A1
Description
NA
Coordinates
chr27:4591766-4592820:+
Coord C1 exon
chr27:4591766-4591848
Coord A exon
chr27:4591849-4592693
Coord C2 exon
chr27:4592694-4592820
Length
845 bp
Sequences
Splice sites
5' ss Seq
TGGGTAATG
5' ss Score
5.68
3' ss Seq
TCACGCTGTCCCCTCTCCAGGTT
3' ss Score
10.64
Exon sequences
Seq C1 exon
ATGGCGGATCCAGACCTGTTGGAGGAATCCTCTTCGCTCCTGGAGCCAAGTGAGATGGGAAGAGGTGCCCCGCTACGGCTTGG
Seq A exon
GTAATGGCAATTTGTGCTTTCTTCTGTCTTGTGTTAACACAGCTGCCTTTTGGTCGCTCTGCAGAATCTGCAGTGATTTGAGCACTGTTGTTGCAGGATTTAGACTGGTGCTTGAAGCAGATGAAGGCTGACCTAAAACTGACTGTTGGTGTGTGTTCTTGTCCTGTATATGTGAACTTCACACTGCGTGAAGTTTCTCTCTACATGAGGAGTTGTACCAGTCTATTCCTTGTAAATCTGTTCTGTTTGCTTTTACAGACACTGGGCTCTCACAGCTTTGTTGAAACCAGTAACTGAGCACATACTACTGTGACAAAACTGTGGCTCTGTATCTTTGTCGCAGTTAGACCTAGTTCCCATGACAAGGGGGTGAAGGGACCCATGGATCCATGCCCTGGGGAGAAGCTGCTTCCAGGCTGTTTCCATACGTGTGTAACTCTTTGTGTGGACACAGGGATTTGAATCAGTGAGGTCTTCTGAAGCACATGCCTAGAACACAGTCAGTGGTAACCTTGACCGCTATAATCCTTCATGTGTGGCGTGCCAGGAACCTGGCAGAATGAGCGGTCATGGGCTTAGAAACTGTAGGCCTAAATGCATTTGTTTCCTCTTCTAATCAATAACATTTTTAGTAGACAATTTCATTCTGTTACGTCTCAGTGTTTGGTGTAGTGCAGTTGTTTTATCTCTGGGTATGGAGAGAAGAACTTCTCATAACATGTGTAAAGAATGACTTTCAAAATGAGGTTTCTGTAGCTTTCAGTGCGATGCTGAGCTCCAGCTGGTGTTATGGGTACGAGGCTGTGTGTGCTGTAAGTGTAGGGCTCACGCTGTCCCCTCTCCAG
Seq C2 exon
GTTTGTGGCTGGAGTGATCAACCGCGAGCGAATCCCCACGTTTGAGCGCATGCTGTGGCGTGTGTGCCGGGGGAACGTCTTCCTGCGCCAGGCTGAAATTGAGAACCCCCTGGAGGATCCCGTAACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003256:ENSGALT00000005153:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.079 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0149614=V_ATPase_I=FE(3.5=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(5.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGGATCCAGACCTGTTGGAG
R:
GTTACGGGATCCTCCAGGGG
Band lengths:
206-1051
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]