RnoINT0010492 @ rn6
Intron Retention
Gene
ENSRNOG00000059326 | Abca9
Description
ATP binding cassette subfamily A member 9 [Source:RGD Symbol;Acc:1305931]
Coordinates
chr10:98427912-98430014:-
Coord C1 exon
chr10:98429895-98430014
Coord A exon
chr10:98427981-98429894
Coord C2 exon
chr10:98427912-98427980
Length
1914 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
CACACCTTCTCATTTTGCAGGTC
3' ss Score
11.63
Exon sequences
Seq C1 exon
GTCACCATCTTCTTCATAGTTGCTACCGACATAAATGAGTATGGCTTTCTACAGCTGCTCTTCTGTACCCTTTTAATACCTCCCTTCACACTGATTGGCTCTCTATTAATTTTTTCTGAG
Seq A exon
GTAAGTAATTTCACTCTTCCACTATTATCAAATGTATAGCCTTCAAAGGAAACCTTGAATATCACAAAACCAGGCAGAGTCAGCCCCTGGATGTGCAAAGTCTGAAATTGTGATTTTTTTTCTTCAGAAAATGATCTCTCTGCAGCATGCAGAGGGCACATCCATGTTCTTTTTGAGTTGAGAGCCCTGCTCTAATTCATGAAGGTCAAAGGAAACTCCAGGGTAGTAGCATTTTATAGCCTTCATTCCAGGGAACTCTACAAAGAGGTGACTGAGACACCACTCTTCTGTTAAGGTTAGGGAGTATTAGGTTTAAGGCTTCTGAGAGATACGTGAGAAGGAGAAAAGCACTCAGCAGCCAGTTGGATGTATAGATCTGGATTTTAGCCTATGGGAGACTGAGAACAAAGAAAACCGCCCGAGATTCGTCAGTTATGAGTGTTGGTAAAACAATACAACCGAGCAGTGTAACGTACACAGGAAATATAAGATGAGATTAAAAAAAAAAAGAGAGAGAAAGCCAGAAACTTGACTTTGTACCCTAAAATTCAGAGGCTTGGAGAGAGGAAGGGTTGGTTAACCAGAGAGAAATGGTTGGCTTCTGAGGGTCAGATCCCCTCCCAGAAGCTCTGCCTCCATAATCCTGTCAGATTCCAAGGGCGAAATAAAAATGTCTCTAAGATCAGCTGAACTGTCAAATGCTTCTGGGTAGTCCAGAAGGACAGCTGGGAAGAGACCAATCCGTCTAAGGACATGAAGGTCACTGGTGATATTAACAGTGTCCATTGTGAGGAAAGCCTAGCACTTAGTAAAATGGGAGCACTTAGAGAACGGGAGGCGAGCAAGCCCAGGTGGGCAAGCATGTCATATCGTTTTATGTCAAGAAGAGCAGGAGAATCAGGAAGGTGGGAGATATCTTCAATCCATTGTTTCCCCCAAGAAGTGTCGTCCTGCACTGATGTGAGATACAAAGTTCTTCATAGAGAGAAAGGCATTGTCCGGGGAGTAAACTCCGAGAAGCTGAATGTAAAATGTAAGCATGCGTTGTACGAGTGGAGCGGTTGCTGTCCGTAAAACAGGGCCGTCCACCCCCTTGAGAATATGACATGGTGTGTGGCGACAGGGAGTGGGCCATCTCTCTTCTGGAAAATGAGATGCCTCTATTTTGAATGCTTTTTCTGTGTGTATGTGTGTGTGGGGAGGGGTCATTAACTGTGTGTGATATGCTCAAGGCAGAATTAGCATTTTGAGAGCAGAAGGAGATGTATGAAAAATTATTTCTTGGAGTGAACCACTAGGATTTCCAGAGCTGTGGGAACAAAACACTTTTCAAGTAGAATAAGAAAAGTTGAGGGGATAAAAAAACTATCCAAAAGGTCCCTTGATAAATACAGTTAAAGAAGTAAAATTGGCCCATACCAGATGCCCCTTTGCAGAGAGATCTAATGGGATGCGGTATGTAAGTATATACAAGTGAAGCTCTGTATGAAGAATTTTGTCTGGTTTGGAAACTGCTCATGGTTATTTCCAAAAGTGGATGTCAGCTGATGAGAACAATGTGAGTCCAGGGTCCCTAGAGAAGGAGAATAGAGAGAAAGAGTGCGAGTGAGAACAGAACGTCAGGGGAGCACAGCTCAGGGAGACGGGTTGCTTTAGAAAGACTTGTCCCAGTCTTCAGTGGCTCCTGCCAGCATGGCCCTCAATCCTGCCCACTCTCAGTGTTGCACAGAATGGGTACCTACACCTTGGCCCATGGACAAGTTGAAGTTCATGGAAACACTGGGGGACAAGGGAAACACACCCACAGTCAGAAGCAGACATTACCTGATATCCAGGCTATGTGGGGACTCATCGAAAGGAGGACAAATCACGAACAGAGGAACGTTGACCTGAACACACCTTCTCATTTTGCAG
Seq C2 exon
GTCTCTTACGACTCCGTGGATTACTTAGGATCATCAGAATCTCAACTTGTATTTCTGGCATTGCTGATA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000059326:ENSRNOT00000087502:27
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(12.6=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(7.1=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:
ACCATCTTCTTCATAGTTGCTACCG
R:
TCAGCAATGCCAGAAATACAAGT
Band lengths:
184-2098
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]