RnoINT0010318 @ rn6
Intron Retention
Gene
ENSRNOG00000046890 | Abca6
Description
ATP binding cassette subfamily A member 6 [Source:RGD Symbol;Acc:1308998]
Coordinates
chr10:98518741-98519481:-
Coord C1 exon
chr10:98519343-98519481
Coord A exon
chr10:98518832-98519342
Coord C2 exon
chr10:98518741-98518831
Length
511 bp
Sequences
Splice sites
5' ss Seq
CTGGTAACT
5' ss Score
5.45
3' ss Seq
GATGTGCTTTGTTTCCTCAGACA
3' ss Score
8.97
Exon sequences
Seq C1 exon
ATTTTGCTCTTAGATGAACCTACTGCGGGACTCGATCCCTTCTCAAGGCAGCGAGTGTGGGGTTTCCTGAAGGAACGCAGGGCGGACCGCGTGATCCTCTTCAGTACGCAGTTCACCGACGAGGCAGACATCCTTGCTG
Seq A exon
GTAACTGATAACTTTATTTCAGGGTCCTCATGAAAACTTCGGGAAACTTGGACGTGACCTTTATTTCTCGGGTTAAGAGCCCTGTTCTCATCACCTCAACTCCGAAGCGTTCCAGAGGATATCGGAATCCACTCCTCTCCTGGAGTTCCGCACTGGCTACACATTTGTTGCATTGTGGCCAGCAGAGAAAACTTGTGCTGGCTGTTTCCAGTTCATTTGTATTTTTACTTAAACTCCCAAATCTTTGATATATGTTTACATGAAAACTAGCCACTTGCTCCTTATCATCCAGACAGAAGAATGCCCATTTCCCCTTTTAGGATGTGTTGGAGGAAACTTAAAAAGATTAGCAATGGGAGCTCCGATTACATAAGATGTGTTTGAAAATTTGAAATGTCCAGGAGGCACGGTCATGCCTTCCAGAGCACGCCTTTGGAATTCTGAGCTTTCGATTCTTGCTTTTCTTTGATAGAGAGGAAAGAATTACTGATGATGTGCTTTGTTTCCTCAG
Seq C2 exon
ACAGGAAAGTGATCCTCTCCAACGGGGCTCTCAAGTGTACAGGGTCTTCCGTCTTCCTGAAGAGAAAGTGGGGTCTTGGATATCACTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046890:ENSRNOT00000073149:14
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=PD(5.4=17.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATTTTGCTCTTAGATGAACCTACTGC
R:
CTTAAGTGATATCCAAGACCCCACT
Band lengths:
230-741
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]