RnoINT0010439 @ rn6
Intron Retention
Gene
ENSRNOG00000004147 | Abca8a
Description
ATP-binding cassette, subfamily A (ABC1), member 8a [Source:RGD Symbol;Acc:1307333]
Coordinates
chr10:98365146-98365846:-
Coord C1 exon
chr10:98365677-98365846
Coord A exon
chr10:98365266-98365676
Coord C2 exon
chr10:98365146-98365265
Length
411 bp
Sequences
Splice sites
5' ss Seq
GAGGTACAT
5' ss Score
6.75
3' ss Seq
TCGTGTCTGTGCATGTGCAGGTA
3' ss Score
8.15
Exon sequences
Seq C1 exon
GTTGGGTCACTATCCATGATAACAAACTCTCAGAAATGACTGACTTGGAAAGCATCAGCAAGCTCACTGGAGTTTGTCCGCAGTGCAATGTACAATTTGACTTCCTCACTGTAAGAGAAAATCTTAGGCTTTTTGCTAAAATAAAAGGGATTCAAGAAGTGGATAATGAG
Seq A exon
GTACATGACATGTTACACTAACATAAAATTTAAATTTTTAGTAAAAATGCTTAATCCTTTTTGCTTTGATTTGGGGTGTATTAAATTACCCATGTATCGATATGTTAAGGTTGGCTGTGAAAACATGGGAATAGCAAACTCTAAGATGTAACCCATGATGTTCTCCCAGACCATTAAATACATTCCTTTAATCTTAGCAACTCTTAGATAAGTAACGGAATTTCTTCATACTCAAATAAGATTGAATTACGAAGAGGTAAACAATTTCCCCCAAGTCGTAGGTCAAGTAAGAGTAAAGTCCTATGAATCCCAAACAGAAGACTCTGCTTATTACAAGTCATTATATTTTATGGTGCTGGGTATAAAGACCTTTTAGTTATGGCTTGAAAGTTCGTGTCTGTGCATGTGCAG
Seq C2 exon
GTACAAAGGGTTTTGCTGGCACTGGAGATGAAAAATATTCAGAATACTCTTGTTCAAAACCTAAGTGGTGGACAGAAGAGAAAGCTGACATTTGGAATCGCCATTTTAGGAGACCCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004147:ENSRNOT00000005665:13
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(38.6=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(26.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGGGTCACTATCCATGATAACA
R:
TGAGGGTCTCCTAAAATGGCGA
Band lengths:
289-700
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]