RnoINT0010388 @ rn6
Intron Retention
Gene
ENSRNOG00000012939 | Abca7
Description
ATP binding cassette subfamily A member 7 [Source:RGD Symbol;Acc:1303134]
Coordinates
chr7:12743404-12743738:-
Coord C1 exon
chr7:12743635-12743738
Coord A exon
chr7:12743497-12743634
Coord C2 exon
chr7:12743404-12743496
Length
138 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
GCTCACACTGTCATCCGCAGCAT
3' ss Score
6.58
Exon sequences
Seq C1 exon
GACGAGCCCACCACAGGCATGGACCCAAGTGCGCGGCGATTTCTTTGGAACAACTTGCTGTCCGTGGTGCGTGAGGGCCGCTCCGTAGTGCTCACGTCGCACAG
Seq A exon
GTGAGCCCCAGGGCCACACTCTGGCCACCTCTCAGGATGAGGTGATCCTGAACCCGGTGAGGTCCCTAGAGTGGGACAAAAAGCATGGTTCCCGGGCAGACAGGCTGGGCCCAGCCGCGCTCACACTGTCATCCGCAG
Seq C2 exon
CATGGAAGAGTGTGAAGCGCTCTGCACGCGCCTGGCCATCATGGTGAACGGGCGGTTCCGCTGTCTGGGAAGCGCTCAGCATCTCAAAAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012939:ENSRNOT00000064886:44
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.029 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PD(2.8=11.4)
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:
CACAGGCATGGACCCAAGTG
R:
CTGCTTTTGAGATGCTGAGCG
Band lengths:
186-324
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]