RnoINT0023686 @ rn6
Intron Retention
Gene
ENSRNOG00000034200 | Atp8a1
Description
ATPase phospholipid transporting 8A1 [Source:RGD Symbol;Acc:1309619]
Coordinates
chr14:42168535-42168836:+
Coord C1 exon
chr14:42168535-42168609
Coord A exon
chr14:42168610-42168713
Coord C2 exon
chr14:42168714-42168836
Length
104 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
TGAAAAGTATGTCACTTTAGATG
3' ss Score
2.92
Exon sequences
Seq C1 exon
ATCTGGTTTGCCTTTGTCAATGGCTTTTCTGGACAGATCCTCTTTGAAAGGTGGTGTATAGGGCTCTATAATGTG
Seq A exon
GTGAGTTGCACACGTCCGATAATTCCTATTTTATTTAATACTAAAAGTAAATGCAGCGCCCATGTATCTGGCTGTATGATGTAATGAAAAGTATGTCACTTTAG
Seq C2 exon
ATGTTTACAGCAATGCCTCCCCTGACGCTCGGAATATTTGAGAGATCATGCCGAAAGGAGAACATGTTAAAGTATCCTGAGCTGTACAAAACGTCCCAGAATGCTCTGGACTTCAATACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000034200:ENSRNOT00000044017:22
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:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTGGTTTGCCTTTGTCAATGG
R:
CTTGGTATTGAAGTCCAGAGCA
Band lengths:
197-301
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]