RnoINT0010178 @ rn6
Intron Retention
Gene
ENSRNOG00000014268 | Abca2
Description
ATP binding cassette subfamily A member 2 [Source:RGD Symbol;Acc:620238]
Coordinates
chr3:2657269-2657843:+
Coord C1 exon
chr3:2657269-2657365
Coord A exon
chr3:2657366-2657669
Coord C2 exon
chr3:2657670-2657843
Length
304 bp
Sequences
Splice sites
5' ss Seq
CCAGTGAGT
5' ss Score
8.28
3' ss Seq
CATCAGCCTCCCGTCCCCAGGCG
3' ss Score
8.59
Exon sequences
Seq C1 exon
GTGAGTGTGGACATCTTCAAGGGGTTTCCTGATGAGGAGAGCATCGTGAACTACACTCTCAATCAGGCCTACCAGGACAATGTTACAGTATTTGCCA
Seq A exon
GTGAGTGCCTCTCCCTCCTCCCACAAGGTCCTCCGTCTCCTACAGACCTATGCCCTCAGCAGCTTAGTCCCACCCTGTCCCTCCTGTTTCCCCAGCTCCATGTCCTATGTCTCTCCCTTCTCCATAGCCTGCTTCACTTTGCTACCATAACACTCCGAACACTGGCTCTGCCTCATGCCCTGTCCTTCAGTCCTGCTCCACCTTTCTGTCCCATTACCACCCCTGGGGTGCTCACAGCACGGTGTGTCACACCCCTTCTGTGCACACCCTCTGGCCGTACACTTCATCAGCCTCCCGTCCCCAG
Seq C2 exon
GCGTGATTTTCCAGACACGGAAGGATGGTTCCCTCCCCCCACATGTCCATTACAAGATTCGCCAGAACTCAAGCTTCACCGAGAAAACCAACGAGATCCGTCGTGCTTACTGGCGTCCAGGGCCCAACACTGGTGGCCGCTTCTACTTCCTCTACGGCTTCGTCTGGATCCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014268:ENSRNOT00000020339:12
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=0.017
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=FE(9.1=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(16.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAGTGTGGACATCTTCAAGGG
R:
CCTGGATCCAGACGAAGCCG
Band lengths:
270-574
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]