RnoINT0010187 @ rn6
Intron Retention
Gene
ENSRNOG00000014268 | Abca2
Description
ATP binding cassette subfamily A member 2 [Source:RGD Symbol;Acc:620238]
Coordinates
chr3:2659473-2659939:+
Coord C1 exon
chr3:2659473-2659653
Coord A exon
chr3:2659654-2659726
Coord C2 exon
chr3:2659727-2659939
Length
73 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
CTCCACTTTCCCCACTCCAGGTC
3' ss Score
9.03
Exon sequences
Seq C1 exon
AGGAGACTCGCGGTATGGAGGAGGAGCCCACCCACCTGCCTTTGGTCGTCTGCGTGGACAAGCTCACCAAGGTCTATAAAAATGACAAGAAGCTGGCCTTAAACAAACTGAGCCTCAATCTCTACGAGAACCAGGTGGTCTCTTTCCTAGGCCATAACGGGGCTGGCAAGACCACTACCAT
Seq A exon
GTGAGTGTTTAGGGACAGGAGGACAGGGTCCCTTAGGATATGGTAGATTGTGACTCCACTTTCCCCACTCCAG
Seq C2 exon
GTCTATCCTGACTGGACTGTTCCCACCCACGTCGGGCTCAGCCACTATCTATGGCCACGACATCCGCACAGAGATGGATGAGATCCGTAAGAACCTGGGCATGTGCCCACAGCACAACGTGCTCTTTGACCAGCTCACTGTGGAGGAACACCTCTGGTTCTACTCACGCCTCAAAAGCATGGCACAAGAGGAGATCCGCAAAGAGATGGACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014268:ENSRNOT00000020339:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.082 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PU(18.6=44.3)
A:
NA
C2:
PF0000522=ABC_tran=FE(49.0=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:
GGTGGTCTCTTTCCTAGGCCA
R:
AGCTGGTCAAAGAGCACGTTG
Band lengths:
183-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]