GgaINT0143131 @ galGal3
Intron Retention
Gene
ENSGALG00000003256 | ATP6V0A1
Description
NA
Coordinates
chr27:4592694-4594138:+
Coord C1 exon
chr27:4592694-4592820
Coord A exon
chr27:4592821-4594055
Coord C2 exon
chr27:4594056-4594138
Length
1235 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGG
5' ss Score
10.38
3' ss Seq
CACCCTTTCTTCTGTTCTAGGGG
3' ss Score
12.8
Exon sequences
Seq C1 exon
GTTTGTGGCTGGAGTGATCAACCGCGAGCGAATCCCCACGTTTGAGCGCATGCTGTGGCGTGTGTGCCGGGGGAACGTCTTCCTGCGCCAGGCTGAAATTGAGAACCCCCTGGAGGATCCCGTAACG
Seq A exon
GTAAGGTTATCCATCGCTCACAGTGGCAAAAGGCTCAGATGTGTAAAAGGATCCGCTCACAGTTTTATGCCTCTTGCCCTCTGTGAGCTCCGTGCAGGCAAACGTTTGTGTCGCATCTCTTCGCAGTTCCTACTTACAGCATTTTAGGCTTTAATGACAATAAAAAAAAAAAAAAAAGAGATCGATGATAAGCTCTGTTAAAAGGGGGTGAATTTGGGCTGCAGCGAGGCATAGCTACCTCTCTGGCACAAGCATGCAAGTGCAACTCGTGTGTGCACTTAATTTCCTGAAAGAGAGGCTCTGCATGGCAGCAGTAGCTCATTTATTTTTGAACTTGGTACTTAATACCTTACCCAGAAATCTAAACGTACACCTGAGAATCGTTGGCTGTATTGTAAATACAATTAGCACATCTTGTAATTGGGGCTGGTTTCACATAGTGTCCTCTCTGCTCAAATATGTGGACAATACGTGAATTTTTGGATCTTAAAGTGAAAAAAGAAGGGCTGTATGAAGGCTGCACTGGAACAAAGACAGGCGTATTGAACTCAGTAATTGCCTCTGTTTCTCATGCAAGGCTCCCTTGTTCTCTTGTCCTAACTGCTGGTAGTTGACCTGCTGAATTATCTGTCAGCTAGGAGAGGCTTTGTTCTTAATGTGCAGTACTTCCTTAAATAGAGGTTACACCTAATGTAATTAATTTCTAAACATTATGGAAAGATTTCCTAAGTAAAGTAGAACAATAACTTGTCAACAAATGCAGGAAAGGGGAACTGGCTACCAACATGAAAACAGCTGTGCAAAGAATGTGCTCTTGGCCTCCCTGGAGAAAAAAGGCCACTGAACTCCATCTTTTTTTAGTTCACTCTTTTTGCTTGTTTCTGTAGTCAGCTGCCTGCAGTAAGTGAAGATGCATCTATTTCATTGCATTCCTGTTCTTTTGGCAATTTTCCCCGGATTTTCATGTCTGTTCTATGAGATAGGATAGGTAATCTAGAACGTTTTGCTTCAATAAACACAAATGCAGAAGTAGTATTCTATATTGAGGCCAAGAAACCCTAACTCTAATCCTTGTGACTTTCTGTGTTAAGGTGCATTCTTGACTCGCTGTACAATTATGATCTCTATGTGTACAGTTTCCAATGAAGGGAAAGTAAGACACTGTTGTAATTCACTGTAACGCTAATATTTGGAACTAGCTGAGCTATTACAACACACCCTTTCTTCTGTTCTAG
Seq C2 exon
GGGGATTATGTGCACAAGTCTGTATTTATCATCTTTTTCCAAGGTGACCAATTGAAGAACAGAGTCAAGAAGATATGTGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003256:ENSGALT00000005153:6
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(5.4=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(3.5=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:
TTGTGGCTGGAGTGATCAACC
R:
CCTTCACATATCTTCTTGACTCTGT
Band lengths:
208-1443
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]