RnoINT0010484 @ rn6
Intron Retention
Gene
ENSRNOG00000059326 | Abca9
Description
ATP binding cassette subfamily A member 9 [Source:RGD Symbol;Acc:1305931]
Coordinates
chr10:98465829-98466657:-
Coord C1 exon
chr10:98466450-98466657
Coord A exon
chr10:98465994-98466449
Coord C2 exon
chr10:98465829-98465993
Length
456 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGC
5' ss Score
9.55
3' ss Seq
TCCCTTTCTTCACGTGGCAGGAA
3' ss Score
7.35
Exon sequences
Seq C1 exon
GAATGGCTTCTCTCATTTCTCCTAATACTGTTGGCATATCAATTATCCTCCAATTTGCATCAAGTTCACGACGCTCCTGAAATGTCTATGATGGATCTGGGACGTGTTGATGACTTTAACGATTCTAATTATATTATTGTGTTTGCTCCTGAGTCTGAAACCACCCATGAGATAATGAACATAGCGGCCTTAGCTCCATTCATGAAAG
Seq A exon
GTATGCTCTGTAGGAGTTCGGGAAATCATTATTCAATGGGCCCTAATCAGAGTCCATTGGAAGTTATGAGCCTCTAATCTAGCAACACACGACTTCTTGTAGTCTGGTGCAAAGGATCATACCTCTTAAGAATCAGATTAAGAAGTGGTTCATAACCATCCATAACTCCAGTTCCAGCGACTCGGAAGCTTTTTCTGAGTTCCTCTGGCAGCAGGCACTCATATGGGACACACACACACACACGCACTGGTGAAACGTCACACACACAAGATGAATATGTCTTCAAAGAAAGGGTGTTTGCCACGGAACACTGGGAATCTCCCACTTCATTCTAAGTGCGGGTGTCTAAGGGGGAAAGTAACTCCAACCCAACATGACCCGTACACACTTGTATGCGGCATGCTGTCGTTGGCCATACAGGAAGCTCACGGTCTCTTCCCTTTCTTCACGTGGCAG
Seq C2 exon
GAAGGACAATCGTGGCGTGTCCTGACGAAAGCAGCATGAGTGAACTCAATTTAAACTATTCAATAGATGCAGTGAGAGTCATCTTTAAGGATACGTTCTCATATCATTTGAAATTTTCATGGGGTCAGAGGATCCCTAAGACGAAAGAACACAAAGACCACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000059326:ENSRNOT00000087502:2
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=0.089
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=FE(17.6=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(14.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAATGGCTTCTCTCATTTCTCCT
R:
GGGATCCTCTGACCCCATGAA
Band lengths:
344-800
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]