RnoINT0010399 @ rn6
Intron Retention
Gene
ENSRNOG00000004040 | Abca8
Description
ATP binding cassette subfamily A member 8 [Source:RGD Symbol;Acc:1307069]
Coordinates
chr10:98278375-98279131:-
Coord C1 exon
chr10:98278956-98279131
Coord A exon
chr10:98278495-98278955
Coord C2 exon
chr10:98278375-98278494
Length
461 bp
Sequences
Splice sites
5' ss Seq
GAGGTACGT
5' ss Score
10.2
3' ss Seq
AACACTTGTAATTTTTTCAGGTG
3' ss Score
8.9
Exon sequences
Seq C1 exon
GTTCCGTCACCATCTATAACAATAGATTATCAGAAATGGCTGACCTAGAAAGTGTGTTCAGGATCTCAGGAGTTTGTCCACAATCCAATGTTCAATTTGACTTCCTTACTGTGAGAGAAAACCTCAGACTTTTTGCTAAAATAAGAGGAGTTCCACCCCAAGAGGTGGAGAAAGAG
Seq A exon
GTACGTACACATGTGTAGGACCGCTTTTTTTTTTTTTTTTTTTTTTTGGTCCGAGTGTGAATGCTAAGGCCCATTTGTGTCAAGATGCATTTTTTTTTCAATTTCTTTGCATCGGTATGTGGTGTTAGGAAATCCAATTTAAGCAAGGATATGTATACATAATATATAAGGTGCCCTTGTTTAACATTGAATGCAAAAGATCATTTGCTCCTCGAAGTAACCCTCTGAGACAAATGCCATTGTCCTCGCTGTCTTACCTATAAGGAGACTCAGGCTCAGAAAAACAAGTGACTCAACCAGGCTTACGATGTAGGTGAGCACGGGGTGTCATTCGAACCCAGAACCCTTGACCCCAGAGTCTATGCTTTTACCCATAACAAAGAACAGCTTTGTACTGATGAGGAAAGGAACAAAAGAGAGATAATAGTGTGTGTATGTTTCAACACTTGTAATTTTTTCAG
Seq C2 exon
GTGCAAAGGGTTTTGCTGGAATTGGAAATGAAAAATATTCAAGATATCCTTGCTCGAAACCTAAGTGGTGGACAGAAGAGAAAGCTAACTTTCGGAACTGCCATTTTAGGAGATTCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004040:ENSRNOT00000005489:12
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=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(39.5=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(26.5=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:
GTTCCGTCACCATCTATAACAATAGA
R:
TGAGAATCTCCTAAAATGGCAGTTCC
Band lengths:
295-756
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]