RnoINT0010415 @ rn6
Intron Retention
Gene
ENSRNOG00000004040 | Abca8
Description
ATP binding cassette subfamily A member 8 [Source:RGD Symbol;Acc:1307069]
Coordinates
chr10:98252185-98253092:-
Coord C1 exon
chr10:98252973-98253092
Coord A exon
chr10:98252248-98252972
Coord C2 exon
chr10:98252185-98252247
Length
725 bp
Sequences
Splice sites
5' ss Seq
CATGTAAGT
5' ss Score
8.31
3' ss Seq
TACTTTTCTTTCTTTTCTAGCTT
3' ss Score
10.41
Exon sequences
Seq C1 exon
ATCACCATGTTCTCGGTGGTTGCAATGTTGCTGGATTTCAATGTGGATGCTATACTGTACTGCATCATCTTTTTACTACCGCCGTCCACTCTGATTGGATGTCTGATCTTATCTATGCAT
Seq A exon
GTAAGTGAGACTAGCGTCTAACATCCCGGAGCTCATGACAATGTATAAAAGTTTGACATCTTTGTGGGTCTCTAGAACTTGCAGAGCATGCATGAGGGTTCCAGTGGATTTTCTCCCAGATGGGACCGTGTGTTCTGCTTGACTTTTAATAGAACACATGGAGATGAATAGGACTAGGCGGTGGGAAACATAGCGGTGTTCACAGTCATTTTATGCCTTTCATGTTTCTAGGCTTACTTCACTTTGAATGTACGTGGATAAAATGATGTTAAGCTTCATGATTTGGGGGGTTGGAGAAGCATCCTATATAAATAAATTCCCTTCTTTCTATATAATACCTATACCACTGTAAGTAGAAGAATGGTGCCAGGCTTAGTAAAGGGGTAGCAATGAGGGGGAAGAGAGGAGGCATCATGGGAGAAGCAGGGGGCACGGGAAGCGTCCAGAGTTCTGTGGGATAAAACTAAAAGCAGGTCTCTCATCATCTGAGGAGGCTGGCTCAACCTAACCCAGATCCTCTCTCACCAAGCGATCAATGAAACTCATCACTTCAGATGAAACCTCTTAGACCAGGTACACCAGCTCCTCAGGGCACATGTCAGAATGAACACTTGCCTGAGATTTCTAGTGCACTTGAGAAAATGTCATTGAAAATTCATATTCCTAATGATAAAAAATCTGTGAGATGAAATTTTCCTATTTAACTACTTTTCTTTCTTTTCTAG
Seq C2 exon
CTTTTCATATATCGGATCTCTCGTGAAGAATCAATTGTAGAGCCATTTCTGGTATTCCTCATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004040:ENSRNOT00000005489:27
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:
PF126982=ABC2_membrane_3=FE(19.0=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(9.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCACCATGTTCTCGGTGGTTG
R:
AATGAGGAATACCAGAAATGGCTCT
Band lengths:
182-907
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]