RnoINT0010420 @ rn6
Intron Retention
Gene
ENSRNOG00000004040 | Abca8
Description
ATP binding cassette subfamily A member 8 [Source:RGD Symbol;Acc:1307069]
Coordinates
chr10:98246868-98247723:-
Coord C1 exon
chr10:98247606-98247723
Coord A exon
chr10:98246960-98247605
Coord C2 exon
chr10:98246868-98246959
Length
646 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGA
5' ss Score
6.8
3' ss Seq
ATTTAATTCCTGTGTTTCAGGTG
3' ss Score
9.93
Exon sequences
Seq C1 exon
AAGCCAGTCATTGTTGCCAGCTGCCTACGCAAAGAGTACGCAGGGAAATGGAAACATTGCCTTTCTAAGAAGAAGGCTAAGATAGCCACCAGGAATGTCTCATTCTGTGTCAGGAAAG
Seq A exon
GTCAGACATGTGGGTTTCAATAGTTGGCTCAACTTTCCTGGTTACTGAGGGAAATCCTTCACATGCTGTCTGCTCACTGATATTTGGACCCTTTACCAGGGTAGCCTGACAACTCCTTTATGCATTTCATTTTTAAGTACACTTATTTCACTCCAAGAATAGGGACCCAGCCATATCTACTTAAGAATCAACACTGCTCTGGGACCCCTGAAAGTCATTAAATTTCCTCTTAAACTCACAAGACTAACATTCTAATGTTTATTAATTTTTTTAAAGAGAATTTGGGGGGGGGGATGCAGCAGCATATACTGAAGGCTTATCCTGCCAGTGCTGGAGGAACTTAATTTCTCTCATTACTACCAAAGGCTTAAGGTCACAGGAAACAGAATCAAACACTCTTAATTTCTAAGAATGTCTTTCTAATTTCCATTAATGTAATCTTAGGAAAATACCTCATTCTTGAGACTTTTTATCACCAAGAATGAAAGAAGAGATTGTGATGATACCTTGGAATAGCTATGACCTTTAAATGGTACACAATGTACAAAACATATCATATGACATACATCAGGCAGTGAGAGTTCAGACTATGTTTCATGCTTAATTTTACTGTAAATTTAAGCTCAATTTAATTCCTGTGTTTCAG
Seq C2 exon
GTGAGATTCTAGGATTGCTGGGACACAATGGAGCTGGCAAAAGTACATCTCTTAAAATGATAAGTGGAGACACAAAATCCACAGCTGGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004040:ENSRNOT00000005489:31
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=0.161
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PU(7.1=25.0)
A:
NA
C2:
PF0000522=ABC_tran=FE(21.3=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:
GTCATTGTTGCCAGCTGCCTA
R:
AGCTGTGGATTTTGTGTCTCCA
Band lengths:
198-844
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]