RnoINT0010495 @ rn6
Intron Retention
Gene
ENSRNOG00000059326 | Abca9
Description
ATP binding cassette subfamily A member 9 [Source:RGD Symbol;Acc:1305931]
Coordinates
chr10:98465245-98465993:-
Coord C1 exon
chr10:98465829-98465993
Coord A exon
chr10:98465349-98465828
Coord C2 exon
chr10:98465245-98465348
Length
480 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
TGTGTCTTCTTTTCTTGAAGCTC
3' ss Score
9.19
Exon sequences
Seq C1 exon
GAAGGACAATCGTGGCGTGTCCTGACGAAAGCAGCATGAGTGAACTCAATTTAAACTATTCAATAGATGCAGTGAGAGTCATCTTTAAGGATACGTTCTCATATCATTTGAAATTTTCATGGGGTCAGAGGATCCCTAAGACGAAAGAACACAAAGACCACACAG
Seq A exon
GTAAAGTTGCCATTATTTAAAAAAACTATATTAATGTAGATATTGCTATTACGTCTTAGTCCCCCGGGCACATAACAGAACTGAGATGAATGACACAGCCCCCCTGTGTTAATTTCAAATCAAGAACAGATCGATCCTTATTAAATAAAGCCTCTATTCTTCAAAATCCCCATAATTTTATTGGTATATATTTCTAGTATACAGTGAGATTGAATAAAGACATGTTTGGTCAAGTCTACTGTATACTCAGAAGGCGACAGCAACAAGCCAGCAGCAAGCAGACAAGATCTGATCTTTAAAGATGTTGACAAAGCAACCTGGTCCTCCTTGGGCATGCACCATAACCCGAACCAATGAGCCTTACCATGTACTGTATTGTTATAGATTTTAGACACATTTTGGAGGATTACAGGTTTCCATTTATCCCACAGTGAAGACTGTCTGGTCACCTAATAGCGGTTGTGTCTTCTTTTCTTGAAG
Seq C2 exon
CTCCTTGTGAACCATTCAAGAACAAAATGGTTTGTGAAAATTCAGTCTTCTGGGAAAAGGGCTTTGTAGCCTTTCAGACTGCCATTAATGCTGGCATCATAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000059326:ENSRNOT00000087502:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.089 A=NA C2=0.021
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=FE(14.0=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(8.7=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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGGACAATCGTGGCGTGTC
R:
CTCTATGATGCCAGCATTAATGG
Band lengths:
269-749
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]