GgaINT0112356 @ galGal3
Intron Retention
Gene
ENSGALG00000012810 | ATP6V0A4
Description
NA
Coordinates
chr1:58396545-58397193:+
Coord C1 exon
chr1:58396545-58396702
Coord A exon
chr1:58396703-58397099
Coord C2 exon
chr1:58397100-58397193
Length
397 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
ATTTCACTTTTCTCTTGTAGTAA
3' ss Score
8.22
Exon sequences
Seq C1 exon
ATCTGGAACACTTTTTTCAGTGGGCGCTATCTGATCCTGCTCATGGGCATATTTTCCATGTATACTGGCTTCATCTACAATGACTGCTTCTCCAAATCATTCAACATCTTCGGCTCTTCCTGGCACGTTATCCCCATGTTTAAAAACAACACTTGGAA
Seq A exon
GTAAGTGGCTAAATGTGGGAAAGAAGTGAAAAGACACCAAATGGAGCACATAAGCTTGAAAAGAAAGACAGTGACAGTGAATCAGAAGTTTTGTCTGGCGCATGCAGATAAACTCACCATTGAAATGGAAAGGCAGAGTCCCTGGGAACAAGCCTGCTTGTTCAGACACTGATGTCCAGGGCTTATGCATAGAGAATTATCAGAGTGGTGGAAGACTGTCACTGTGTAGGACCCAATTCCGCACACACATGCACAAAAACTCAGGGTAACGGTTTAGAGAAATATTGGAGTTGGTGGGAGGTGTAAAGTGGTAGTTCTCAGCACATCACATTTAAATATACTACAGGTTTGTATGGTGAAATTGAGCTGCAAAAGTTATTTCACTTTTCTCTTGTAG
Seq C2 exon
TAAGGAAGTGCTTCTCGACAACACGGTGCTGCAGTTGGATCCGGCAGTCCCAGGGGTCTACTCTGGAAATCCATACCCATTTGGAATAGATCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000012810:ENSGALT00000020900:13
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(6.5=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(3.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTTCAGTGGGCGCTATCTGA
R:
GGATCTATTCCAAATGGGTATGGA
Band lengths:
238-635
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]