RnoINT0010511 @ rn6
Intron Retention
Gene
ENSRNOG00000059326 | Abca9
Description
ATP binding cassette subfamily A member 9 [Source:RGD Symbol;Acc:1305931]
Coordinates
chr10:98455526-98457171:-
Coord C1 exon
chr10:98457003-98457171
Coord A exon
chr10:98455585-98457002
Coord C2 exon
chr10:98455526-98455584
Length
1418 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
CATTTTTTTCTTGTTTGCAGGAT
3' ss Score
10.87
Exon sequences
Seq C1 exon
GTAAGTACGGACATCAGCGTTCTCCGTTGTTTTTCCTGAAGTCATCTTACTGGTTTCAACGCAGAGGAGCTGATCATGTGGTCCTTGAGAATGAAATAGACTCTGCTCCTTCACTCAATGACTCATTGGAACCCGTGTCTCCAGAATTCCAGGGGAAAGAAGCTATCAG
Seq A exon
GTAATGAACAAGTCAAATGGAAGTACATACAACAGAGAACAAAACCAGGTCAGAGACCTGTTAGTACAACAGAGAACATACCCCAGATCAGACACCTACAGGCCAGACACTGATGTACACCGATTTCCTTCTGAGCCCCTCTGCACCTGCCTCCTCCCAGCCTACTGTACTTATGAAATGACACTCTTATTCTAGATAGCACGGTCTTTTATCCCATCTCCTATATTCACACTTACTAGTATCTTTCGGTACAGTAATAACTGTCAACCAAATAAGGAGTTCAGTTCCACGTCCCTCACTGTCTTCCTTGAGCTTCCTTTCCATATTTGCTCTGATGTTCTTCTTGATGGAAGACAGGGGGCGCCACTCCCCTATTCGCATCCTCTTTCTGTAGACTGCACTCTGTCTCTTTTCCTTTCCCTTCATGGTCGATAAGATGAAAACGCAAACGTAAGCAATGTAGAAAGGGGGTTAGAGACATCCCAGGAAGATGGGACGAGATGATGAGGCCGTGAGGCACTAAAAATCCCTGTATCGAGAGACCTCAAGGCACAAATGTCCTACATCTTCTCCCCCGAAGCCATGCTTGCCCCTATGGTCAACACTTTGACTTCCAGACAGCTACGCGTCCCAAAGATCCTTATCATTTGCTCAGATTTTGTCTCTAGCGCACCTGATGGTTTGTTTTGATATAGGAAATGAATGCAGGTTAACGGCGCAGGGTCTACAGCATAACAGACCTTCAGCTCCTTCAAAGCCTTCCATGTACTTTTTCCTTCCTTTAAGGCAGAACGTTACTTTATGTCAGTCTGACCTGGAACTCAAGATGTATCCTAGGCTGGCCTCAGACTTCTACACGTCCTGCCTGAGTTCCGAGTGCTGGGATCATGGGCGTGTGTCACCATGCCATCACTTCTGTGGACTTTTACACCAGTCTCATCCTTTCATTCTCTTTTCCTGGGCTCTGCAATCCTTCTTTTAGGAATCAACCCTATGTGATAATTACTGTTGTCGTCCTTGCTTTATTACTGAAGGCTTGTGAGTTACATTTTTGTACAAGAGCTCTGTGTAAATGGCACAGAAGGGACCGCACTCAGGGTGTCTTGACTCCAAACTTGAAGTCCTTTTGATCTGATGTGGTTTCCTTCACCCACAGCATGGGATCTTCCACCATTGATTTCATTGCTAGCTTTTCTCTCCAGTCATTTGTAATGTCTGCACATATGGCTAAGTGTATCCACAAGTTGGTCACCCCCTCCACTTATGCTCGGCTGAGGTACAATAGGCAGAGATGAGCCTCTCATAGGAGGCCCAGAGTGCTTCTCTCAGTGCCTGTGCAAAACGGAAAAACCTCTAGGTCTCATCAGGTCTCCCCCAATCACTGCAATTTCCTTGAAACATTTTTTTCTTGTTTGCAG
Seq C2 exon
GATCAAAAATCTTAGAAAGGAATATACAGGAAAGCATGGAAAAGTAGAAGCCTTAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000059326:ENSRNOT00000087502:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.018 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0000522=ABC_tran=PU(1.4=9.5)
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:
GTACGGACATCAGCGTTCTCC
R:
TCTTAAGGCTTCTACTTTTCCATGCT
Band lengths:
223-1641
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]