RnoINT0010317 @ rn6
Intron Retention
Gene
ENSRNOG00000046890 | Abca6
Description
ATP binding cassette subfamily A member 6 [Source:RGD Symbol;Acc:1308998]
Coordinates
chr10:98519343-98519839:-
Coord C1 exon
chr10:98519720-98519839
Coord A exon
chr10:98519482-98519719
Coord C2 exon
chr10:98519343-98519481
Length
238 bp
Sequences
Splice sites
5' ss Seq
CGCGTAAGT
5' ss Score
9.93
3' ss Seq
ACTATCCTTATCCTTTCTAGATT
3' ss Score
9.12
Exon sequences
Seq C1 exon
GTACAACAAATCCTGTCGGAGTTGGACATGCAGACGATCCAGGATGAACTGGCTGAACATTTAAGTGAAGGACAGAAAAGAAAGCTCACCTTTGGCGTGGCCATTCTAGGAGACCCTCGC
Seq A exon
GTAAGTAAGATTAGGCACAGGAAGCAAGGAGGTTGTAAGAGGCTCAGAAAGAGTCATGCTCTTGTACCACGAACGCCAACAGAGCTTCTAGCTATCATAGTGTATCCGGCGAGAACCGGCTACGCTTACGTCTACAACGATATACTACAATTATTTCTATTTATCGTTCTCCACGTTACTATGTGGGAGTAGTTAACGTGGAGGGGGGTCATATATTGACTATCCTTATCCTTTCTAG
Seq C2 exon
ATTTTGCTCTTAGATGAACCTACTGCGGGACTCGATCCCTTCTCAAGGCAGCGAGTGTGGGGTTTCCTGAAGGAACGCAGGGCGGACCGCGTGATCCTCTTCAGTACGCAGTTCACCGACGAGGCAGACATCCTTGCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000046890:ENSRNOT00000073149:13
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:
AAATCCTGTCGGAGTTGGACA
R:
CAGCAAGGATGTCTGCCTCG
Band lengths:
252-490
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]