RnoINT0010400 @ rn6
Intron Retention
Gene
ENSRNOG00000004040 | Abca8
Description
ATP binding cassette subfamily A member 8 [Source:RGD Symbol;Acc:1307069]
Coordinates
chr10:98278025-98278494:-
Coord C1 exon
chr10:98278375-98278494
Coord A exon
chr10:98278164-98278374
Coord C2 exon
chr10:98278025-98278163
Length
211 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
CATGTGTCACTTCCCTCTAGATT
3' ss Score
9.82
Exon sequences
Seq C1 exon
GTGCAAAGGGTTTTGCTGGAATTGGAAATGAAAAATATTCAAGATATCCTTGCTCGAAACCTAAGTGGTGGACAGAAGAGAAAGCTAACTTTCGGAACTGCCATTTTAGGAGATTCTCAG
Seq A exon
GTAAGTCAGTCAGAGGTTTTATAGGTAGTTTTCAATAAGAATTCAAAACTTTGCTTTGCAAAGGACCTGTGTTGCAGAAATAGTTAGCATATGCAGCATAAGAGCAAGCCTGGCATAAGACTCTGTTAAACCTAGAGAGTAAGGAATCTATGCTGCTCCCTGGGATAGCTTTTCTCTTTAGAGGAAAACCCCATGTGTCACTTCCCTCTAG
Seq C2 exon
ATTTTCCTACTGGATGAGCCCACTGCTGGGCTGGATCCCTTTTCAAGGCACCGGGTGTGGAATCTCCTGAAGGAGCGCAAAGCAGACCGTGTGGTCCTCTTCAGCACGCAGTTCATGGATGAAGCTGACATTCTGGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004040:ENSRNOT00000005489:13
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:
PF0000522=ABC_tran=FE(26.5=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(5.4=17.0)
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:
AAGGGTTTTGCTGGAATTGGA
R:
GCCAGAATGTCAGCTTCATCCA
Band lengths:
252-463
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]