GgaINT0143136 @ galGal3
Intron Retention
Gene
ENSGALG00000003256 | ATP6V0A1
Description
NA
Coordinates
chr27:4597504-4598569:+
Coord C1 exon
chr27:4597504-4597643
Coord A exon
chr27:4597644-4598411
Coord C2 exon
chr27:4598412-4598569
Length
768 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
TCTCTCCTCTTTCATATTAGATG
3' ss Score
9.08
Exon sequences
Seq C1 exon
CCCCATATACGATCATTACCTTCCCGTTTCTGTTTGCTGTGATGTTTGGAGATTTTGGACATGGAATCCTGATGACTCTGATTGCTATTTGGATGGTGCTTAGGGAGAGTCGGATTCTGTCGCAGAAAAGTGACAATGAG
Seq A exon
GTAAGGAGACTCACGCTCAGCTTTGTGTTGAAGACAGAGTTGCGGCTGGATTTACTTGTATCTTCCCCTTTGTTACTCCTTGAAACTGAAGCACACAAGCAGAATGCCGGGTCTGTACGCCACAGACTGAGCAGCATCATTTCACAGTAACAGTCAGCTTCTTTGTTTTTCCTTTAAGAAATTTGTAGGAAATTATTTCTTTCAGATGCTTGAAGGAAATTGTTTATTGAGTGCAGTTGGACAGCTAAGCTGCTGTAAATGAATCACCCAAAACCAGACCGGATCATAAAGACCTGCAATCACTGCACAATTCCTACTGTTTGTGCACACAAATGTTGTGTATCTCCATGATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGCTGTTCTAGACAAGTCTGCTTTGCTCAGGGCTTAGATTGATAGGAGATGGATCAGTTAATGTACATGGACAGAGTATGGAGAAAGCTGGATCAGGGTCAGCACTGCTTAATTCCAAAGTGGTGCTGCCAGCTGGGGCTTGCATCACTGCGTGCAGTGCAATTTATCCTCCTCAGCTAATCAGCCTGCTTATCCTCTGCATTCAGGTTCTGTTTTTGCAGAGTTACCTCTTGCACCCTTAACCTCCCCCAAAGTGGATACTGTGCTGTCAGTCCGTGGGCCAGCATTGCTTGTTCTGCTACTGACTGATAGTGCTGTTTTGTTTGTATGAGAGATTTCCCCTGTTCTCATAGACTTTCTTCTCTCCTCTTTCATATTAG
Seq C2 exon
ATGTTCAACACTGTTTTTAGTGGTCGATACATCATCCTGCTGATGGGACTGTTCTCCACTTACACAGGCCTTATCTATAACGACTGCTTCTCCAAGTCTCTTAATATGTTTGGTTCATCATGGAGCGTCCGGCCGATGTTCTCAAAAGCCAATTGGTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003256:ENSGALT00000005153:11
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(5.9=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(6.7=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:
CCCCATATACGATCATTACCTTCCC
R:
AATTGGCTTTTGAGAACATCGGC
Band lengths:
294-1062
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]