RnoINT0023447 @ rn6
Intron Retention
Gene
ENSRNOG00000036814 | Atp6v0a1
Description
ATPase H+ transporting V0 subunit a1 [Source:RGD Symbol;Acc:68405]
Coordinates
chr10:88943401-88944510:+
Coord C1 exon
chr10:88943401-88943558
Coord A exon
chr10:88943559-88944419
Coord C2 exon
chr10:88944420-88944510
Length
861 bp
Sequences
Splice sites
5' ss Seq
GACGTAAGT
5' ss Score
10.93
3' ss Seq
AACTTCCTCTAACCCAATAGGGA
3' ss Score
5.81
Exon sequences
Seq C1 exon
ATGTTTAGCATGGTGTTCAGCGGCCGATACATTATCCTTCTGATGGGACTGTTCTCCATCTACACTGGACTCATCTACAATGACTGCTTTTCCAAGTCTCTGAATATCTTTGGGTCATCATGGAGCGTACGGCCAATGTTCACCATAGGGAACTGGAC
Seq A exon
GTAAGTTGCGGAAGCCAAAAGCCAAAGCTAATTCCTTGTATGGTTAGCTCTGTAGGGCCAGCAGTGAACCAACACCCATTTCCGTAGTTGAAAATGTTTGGTTCAGAAGGGCATATTATCTCCTCATATTTACACACCAGTTTATGAAGGGCTTTATGATTTGCTCAGCAAATATCAAGGATCTGAGCCTACCAATGAATGTAACCTATCTACTTAGCTTGTAAATTAAAAGCAAGTTACCTAAATGCCCTACTCAGTTATGTATTAGTGCTTACTTTTGTTATTTTGTCTTTTTTTTTTCCCCTGGAGCTGAGGACCGAACCCAGGGCCTTGTGCTTGCTAAGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCCTCTTACTTTTTCTTTACGTTTGATTCCCTCTTGTTCTTAACTACTAATTCCTCTTTTCTTCTTTTTGTACGCATGCACGCGGGCATGTAATTGCATAGAGATACATGGGTGTGTTGTGGAGGCCCAAGGCTGACGCTGGTTGTCCTCCTAACTGCCATTCTCCTTACACATGGAGCCTTCAGGGTCTCCTGAACCTGGGGCTTACCACACAGCGAAGCTGGTTAGCTAGCTTGTTGGTCTCCACCTCCCTTAAGGACTGTTACACCAGCCTGGCTTTTATGCAGGTTCTGGGGATGCAAACTCTGGTCTCCTTGCTTACCAGGCATGCACACTCCCCCATAGCCATCTCCCCCAACCTCTAGTTTCTTCATTTTCACTGAGGAATCGAGATAGCTGTGGTTGTTTCTTTTGTGCTTAGTTTTTAGACTGAGTAGCTCCCTTTTCTCAATCAAAATTAAATGTAACTTCCTCTAACCCAATAG
Seq C2 exon
GGAGGAGACGCTCCTGGGGAGTTCTGTCCTCCAGCTGAACCCAGCTATCCCTGGAGTCTTTGGTGGCCCTTACCCATTTGGCATTGATCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000036814:ENSRNOT00000055238:13
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(3.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTAGCATGGTGTTCAGCGGC
R:
CGGATCAATGCCAAATGGGTA
Band lengths:
246-1107
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]