RnoINT0010497 @ rn6
Intron Retention
Gene
ENSRNOG00000059326 | Abca9
Description
ATP binding cassette subfamily A member 9 [Source:RGD Symbol;Acc:1305931]
Coordinates
chr10:98422660-98423869:-
Coord C1 exon
chr10:98423752-98423869
Coord A exon
chr10:98422752-98423751
Coord C2 exon
chr10:98422660-98422751
Length
1000 bp
Sequences
Splice sites
5' ss Seq
AAGGTTGGC
5' ss Score
6.1
3' ss Seq
AGTATGATTGTTTCTTTCAGGTG
3' ss Score
8.52
Exon sequences
Seq C1 exon
AAACCAGTCATCATCGCGAGCTGTCTGCGGAAGGAATATACAGTCAAAACGAAAAGGTGCTTTTCCAAAACGAAGAAAAAGATTGCCACAAGGAACATCTCCTTCTGTGTCAAAAAAG
Seq A exon
GTTGGCAACCACCATTCAGCAGAGTTGCTGTGGGCTCTGAAGGCTGGATCTTTCTAAGAGGCAGGCATGTCTGGGACAGGGATCTGGTGGTGAGCGCTGAGGCAGCTGGCTCACCATGGAGTTCAGGCTGTGCCTTCCAGCTGACAAGCCTTGGTTTTAATAGAACAGTTTTTCTTTGCAAAGGAAGAGAGAGTTACGGGCTGTGTCTTAAATCCTGCTGAAAGAGGTAAAAAGGATAGCATGGATTTTATTTTAAGCAGTAAATATTTCAAATATTTATTTACTTTGTGATGTTGGGGATAAAACACAGGGCCTTATGCATGCTAGACAAATATTCTACCATTGGGTGACATCCTAAGTCTTGGCAGAGGGTGAAAGTAAAATTCTGATCATAAATGGGACTTGATTGGGTTGCAGCAGGGCATCTTTCATTCTTAACAAATAGTTCATGATGGCTACATGTCACAGTTCATGCCTGCAATGCCAGAACTTGGCAGACTAAGCAAATGTTGTAACAAGTTCAAGGCCAGCCTGGGCTCCATCGATGAGTTCCAGTGCATCCCAGACTACACAAAAAGAACCTATCTCGAGTTAAAATGATAGTGTTTGGTAGGGAAGTTTCTGTTTAAATGAAACACGTGGTCTTCGAAATTCCAGCTCAGTCTCTTAATAAACTTACCTTAGGCAAGTTATCTGCATTCTTTAAGACGCAGATTTCTCCTCAATAAGGTGAAGCTAGTAATAACATCATCTCTCTCTCTCTCTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTGAGAGAAGGGGCAAGGGAAGGGAGGGAGGGAGGAAAGAGAAGAGAGAAAGAGAGAGATTGATTTCGAAACAATGTACAAAGTATATTTTGAGTACTCTCCACAGGGAGTGTCTGCAAATTGCATTTAGTTTTATTTTTTTTAAGTTATTTGTGTCTTCTTGAGTATGATTGTTTCTTTCAG
Seq C2 exon
GTGAAGTCCTAGGGCTCTTAGGACACAATGGAGCTGGCAAAAGTACAACCATTAGTATGATAACGGGAGACACAGTACCAACCGCAGGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000059326:ENSRNOT00000087502:31
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=0.065
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PU(7.1=25.0)
A:
NA
C2:
PF0000522=ABC_tran=FE(21.3=100)
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:
AAACCAGTCATCATCGCGAGC
R:
CCTGCGGTTGGTACTGTGTC
Band lengths:
206-1206
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]