RnoINT0010377 @ rn6
Intron Retention
Gene
ENSRNOG00000012939 | Abca7
Description
ATP binding cassette subfamily A member 7 [Source:RGD Symbol;Acc:1303134]
Coordinates
chr7:12747382-12747791:-
Coord C1 exon
chr7:12747614-12747791
Coord A exon
chr7:12747498-12747613
Coord C2 exon
chr7:12747382-12747497
Length
116 bp
Sequences
Splice sites
5' ss Seq
ATGGTACGT
5' ss Score
9.89
3' ss Seq
GACTTCTGTCTTGGACACAGTGT
3' ss Score
5.03
Exon sequences
Seq C1 exon
GATAGCCTCCTCTGTGGATGTTCTTGTCTCTATCTGTGTGGTCTTCGCCATGTCATTTGTCCCAGCCAGCTTTACCCTAGTCCTCATAGAAGAACGCATCACCAGAGCCAAGCATCTGCAGCTGGTCAGTGGCCTGCCCCAAACCCTCTACTGGCTTGGCAACTTCCTCTGGGACATG
Seq A exon
GTACGTGTGGCTAACTACGTGGTAGAGATGAATGGGCACCTGGCAACAAGAGAGGGAGGGGGAGGCACAGCCCCTGGCCCTATGAACTACTGAGGTGACTTCTGTCTTGGACACAG
Seq C2 exon
TGTAACTACTTGGTGGCAGTGTGCATAGTGGTGCTCATCTTCCTGGCCTTTCAGCAGAAAGCCTATGTAGCTCCAGAGAACCTGCCTGCTCTCTTACTCTTGTTACTGCTGTATGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012939:ENSRNOT00000064886:34
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:
PF126982=ABC2_membrane_3=FE(18.0=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(11.6=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:
GTGTGGTCTTCGCCATGTCAT
R:
AGAGTAAGAGAGCAGGCAGGT
Band lengths:
243-359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]