RnoINT0010482 @ rn6
Intron Retention
Gene
ENSRNOG00000059326 | Abca9
Description
ATP binding cassette subfamily A member 9 [Source:RGD Symbol;Acc:1305931]
Coordinates
chr10:98444778-98447011:-
Coord C1 exon
chr10:98446816-98447011
Coord A exon
chr10:98444945-98446815
Coord C2 exon
chr10:98444778-98444944
Length
1871 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
ATTTATTTTCCTCCATTTAGGTT
3' ss Score
11.17
Exon sequences
Seq C1 exon
ACGCTGGAGTTTGTGGTCGCTTGCTAAGCGATGGGGCAAAAGATGTGGAAAGCCTTGTTGAGCTGGAGCGAGTGTTGCCTCTCGATTCATCAGGGAGCTCAGTGAGCGGCATGGCGCTGTGGAGGCAGCAGCTCTGCGCAGTCGCGAAGGTCCGCTTCCTCAAGCTCAAGAACGAACGAAGAAGTCTGATGACCAT
Seq A exon
GTGAGTCTGGAGTGTCTGAATGGTTGAGAGCACAGTGTAAAAAGTAGACAGAATGCATTCCATCACTTGCAGATAGTCCCCTAAGCGTTTTACTTAATAGACCTGCCCTTGTGCAAATGCGATCGAAATATGTAGAGTTAGGGATCATCTTAATTGCACACAGGATTTGTCCTTACCAACGACCCATTCTCTTGAAAACACCAAAAATACTCAAATCTCTCAGCACTTTTCATAGTATAAGGTAGGGGGAGGAGCAGGGGAGAGAGAGATAGTATATAAATATACAGATAGGTAAATAGATATTGATTTTATGGAATTGGTTTGCACTACCATGTGAACTAGAAACTAAAATTTATAGGACAGATCAGCAGCCTGAAAACTTGGGTCAGTGTTAGTGTTCCTGCCATCAGATTGGGCAGAGAGGCTCTGATCCTTTTTTAATAAACTTCTCAGTGGTTATCTAGTGCTTGAAACTGCAGGCTTTTCCATCCGCACCCCACTTCCCCAAATCATGACTTTGAGACTTGAAAATGTATGAACAGACACGTAGGCCATAATTTGGGCTTGTTTCCCAGTTAGTTCATCACTTAATCCATTTTTTTCTATTCTATGAGGACCACATGGCTGGCTTCCTCGTCTCAGATTCACGCACCTGTCTCCTCTGAGGTCCCGCTAAATATCTAGCGGCCCGACTCTATCCCAGAGTTCCTCTCTCCCTCCTGGAACTCCCACTTCCTATTTCCTGCCTCAGCTCATTGGCCAATCAGCTTTTTATTGACAGGTGATCCTTCCATACAATACACAAGAGGCTCTATCGCAAGTGCCTGTTACAGCAGCAAACTGCTACACCTCGAGCTTCCACCTCATGGAAAAGTGCTGCCTTCTAGCGTAAACGCAACTCTACACTCGGAAGACGTATTTATGCAAATATTTGCATATGCATATGCATATGCATTGTCTTTCTTTTACTGTAATGGAATAGCCAAGCTGATGCACTTTTGAAGGGAAAACCTGTTCTGCTTCACAGTCATGTAGATTCCTATCCAAGACCAGGGTGCCGCCCCAGATGTCTGCTTTCATAGCCCCCCTTTAAGAACATTCCCCAGTAACCTGTGTTTCATACTCTGTCTTTCGGCTCTCACATACTTCCTGCTCCCTCTTCTGCAATGTACCCTGAGTGTTAGACACAGTGTTCTCAATGACTTGTTTGGGGCTGGACCCACATCCTCTGCTTATTTTCTGCATCTTAGGTAGCCACGAGTCTCTGCATTGCAAGGAGGGGCTTCTCCGATTAAGCTGAGACTGTTTTTGTCTCCAGGTATAAACCATTCTTTAGAGGGAAGTTTTCTGCTATGCCACTGTAGTTAACCACCAGGAATAAGCTCCCCACATGGCCCTTCTGTCTCCCCATGGCCTGAGTTATTAGAGAAATTGATAGGGCCAGACATCCCCATCCCTTGCTTTGTCTTCCAGTAATTTCAGAGGATCGGGCCTCACAAGAGGTTTTAGTATACCTGTAGTCCCAGCACTCAGGAAGTAGAGGCAGGAGGATCAGAAGTTCTGGGCCGTCCTTGGTTACATAGTCAATTCAAGGCCCTCCTGGACTACATGATACCCTGTTTCAAAAAGAAATCAAAGAGAGTCATAACCAGCAACTTGGAAGGACCAAACAAAAAGTTGAAAGCAGGAGTAGAGGTCTGTGGAAGACCAAAGCTATACCATCTCATTTCGGGAAGAAGAGGATGCAACATGACCTCAACATTCCCTGTGCTCGTATTTTATCCTGTTCGTTATCTATTGAATCCTAGGGCTCCACAAAGTTACTGTAGGTTAACGATTATTACTCGTAATATTTATTTTCCTCCATTTAG
Seq C2 exon
GTTATTGCTTTTTGGCATTAGCTTTGTGCCCCAACTTTTGGAACATCTAGTCTACAAGGTATACCACAAAAGTTACTCGTGGGGGCTGTCTCCAAGTATGTATTTCCTTTCACCAGGACAGTTACCACAGGATCCTCTGACCCACTTACTGGTCATCAATAAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000059326:ENSRNOT00000087502:18
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:
NO
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(3.6=19.3)
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:
GGAGTTTGTGGTCGCTTGCTA
R:
CAGTAAGTGGGTCAGAGGATCCT
Band lengths:
342-2213
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]