RnoINT0010494 @ rn6
Intron Retention
Gene
ENSRNOG00000059326 | Abca9
Description
ATP binding cassette subfamily A member 9 [Source:RGD Symbol;Acc:1305931]
Coordinates
chr10:98425303-98427038:-
Coord C1 exon
chr10:98426947-98427038
Coord A exon
chr10:98425424-98426946
Coord C2 exon
chr10:98425303-98425423
Length
1523 bp
Sequences
Splice sites
5' ss Seq
CAGGTTGAC
5' ss Score
1.3
3' ss Seq
CCATGCCGCTGTGACTTTAGGAT
3' ss Score
6.31
Exon sequences
Seq C1 exon
CCTTACCTTCATTTTCTCCTTTTCTTTTTCATCCTGCGATGTCTGGAAAGATACATCAGGAAGAAGACGCTGAGAGTGGACCCTGTGTTCAG
Seq A exon
GTTGACAGCATTCAAATGGAATTTATGTTTCATTTAACCTTTATTCTTTAGACATTTTAATATGCCTGAATTAATTGGGAAGGGGAGGTCAGGGTTGTTTTTAAGGGCTTGTGTTGTAGGCAAATTTAATAATTCATGGTCTTACCGTCTAGTGGGAAAAGCAACTATAACGTACAGGAGATGCCAAATTAGGAGAGAAGGAAATTCTCCTCACACATCTAAGTTATATACAAGAGCTAGTGTCTTTGAAAGGATAGATAACTACAGACAAGCAGTTGGAAACACGTTGACAGTCCAAGAAGGAAATACATGTGAGCAATAAGACAAAGACTGAGATGCTCTTTCCCACAGACTTGTGAAGACAGCGAGGGCAAACTTAAAGGCTTATATTGGAGAAGAGCAGAAACTAAAAGTGAAGCTGGATATTGGAGGATGATCAATAGGGATGTGTGAGGAATCTATTGAATATGACTTAATGAGAAACCAGTACATGAGCATGTTTTACACACTGTCTTGGCTAATTTTTCTATTGCTTTGAAGAGATGTTACTACTGAGGCAGCTCTTACAAAAAAAAAAGAAAGCACTTAACTGGGGTTTTCTTAATGTTTTAGAGGGTTAGTCCATGGTTATCATAATGGGAAACAGACAGGCATGGCACTAGAGCTGTAGCTCAGAGATTTACATCCTGACGCACCGTCAACAGGCAGAGAGATAGAAGTGGAGACTGGGCCTGGCATGGGCTTCAGAAATCTCAGAGCCCATCCCTTGTGACATACCTATTCCAACATGGCTACACCTACCTCTTAATCCTTCCAAAGCAGTTCCACTATCTGGTGACCAAACCTTCAAACACCAGAGACTACGGTGGCCATTCTTGTTCAAACCACCTCACACACCTTGCTTCCCCCTAAAAGGTAAAAACCAAATTCAAATCTAAGTGTGATGAAAAGAAGAATGGCAAGATGACACCATGCTTTAGGGACACCAAGCAATCATAGTAATTAAGGTGACCCATGGGAGAGAAGAAACAATCGGCTGACTCAGTTACGGTTGATGAAAGGTCTTGTTTTACAGCAGTGGGAAGGACTGGCTGACAGATTCCTAAGAGGTAACATGCCAAGTGACTGAGTACACATTGGGATTCTGATCAGACACCCTGGAGCGGCTGAGATATGTTCCTAAATTATGTGCTTTGGTTCCTCATTCTTATGAAACTTTTGTGATTATAAAATATACCCCAAATGAATGTGCAGACTTCTTTCCTCAAAGAAAGCTGCCTTGACTTCCACCGACAGAGGGTGTGGGCTGCTTTGCTAGTTGAAGAGGGAAAACGTCATCGCCTCATTAGGAGAGCTATATCCACGTAAGAAGCAAAAGGGAACAGCAGCACCATTTGACTGGTTGACGAGAGCAATGAGGGTATTAGATAGGCACACAAGAGAGTAGAAGAATGGAGTTGTGCTCCATTTCTGGTCCACATATTTCAATAACCGATAAGTTGACCATGCCGCTGTGACTTTAG
Seq C2 exon
GATTTCTCCGAGAAGCTGCCGTGCTTTTCCAAACCCAGAAGATCCTGGAGAAGAGGATGAAGATGTTCAGATGGAAAGAGTGAGAACGTCGGGCGCCATGACAACCCCACAGATGGACGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000059326:ENSRNOT00000087502:29
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=0.585
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PD(3.6=35.5)
A:
NA
C2:
NO
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:
CCTTACCTTCATTTTCTCCTTTTCT
R:
CCATCTGTGGGGTTGTCATGG
Band lengths:
208-1731
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]