RnoINT0010487 @ rn6
Intron Retention
Gene
ENSRNOG00000059326 | Abca9
Description
ATP binding cassette subfamily A member 9 [Source:RGD Symbol;Acc:1305931]
Coordinates
chr10:98437303-98438568:-
Coord C1 exon
chr10:98438461-98438568
Coord A exon
chr10:98437427-98438460
Coord C2 exon
chr10:98437303-98437426
Length
1034 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGA
5' ss Score
6.91
3' ss Seq
TTTATTATTGTTATTATCAGAAA
3' ss Score
6.27
Exon sequences
Seq C1 exon
GACCATATGCTTTATGAGTACGGATTCATGAGCAATGCATTTTTCTGGATACCAGTGGCTGCCAGCCTCACCCCTTACATTGCGATGGGCAGCATCAGCGACCACAAA
Seq A exon
GTAAGATGTTTTAAACTCTTCAGATACCTTTCATGCCCTGGAAAACTTCCCTTGGAACTTGTGAACATAGGTTTGCATGCCCATAGCGGATCTAACGTATGTGTTTGTTGCAATGCATCACCGAGCTTTTCAATAACAGGCTGTCAAAATAGGAATAAAACGGAGTTTTTTCTAAAACAGGATAACACCACCAACCAGTAGTGACAGCCTTAAAACATTCTTCAAGACCAGTTGTCCTCTCCTCCACCCCATTCTTCATACAAGACTCCTTGGTATTCATATCTCAGCCCAAAGACACTCTCCCAAACCTTTCCCCTGCTTAATAAGGCCAAATAGATGCCTGTAAAAACTGCCATGAGAACTCATTTATAAAGTATATGAATGGGGCTTACAGTCACAGGACTCTCCTTGTTTGTTAACTGTTTCTTCCCACCGAGAATGAACACTGTTTAAGTAGTGCTTTTGTCTTTAAAATCTGCCCATTCTATTGCTTTCCATCCTGGTGAATAAGGGGTCAGCCTCTGTTCCCATGCTCTATAGGACTCCACATTTTAAGCAGAAGAATGTTTGCCTGCATGCGTTCATCTGTCATGGGTCTATAGTGTCCATGAAGGTCAGGAGAGGGTGTCCGACTCCCTGGAACTAGAGATACCATCCCTGTTCACAGCACGGGCCTGACAGCTGTCAATCAAGACATCATGCCCAACAGCTTATCTGTTGCAAATAAAAAATTAAATATAAAAATGTTTACTAAGGACCTATCATTAAGTCCTTGATGAAAACCCTTAGGGAGAGCTGAGTCAACCTCTCTGTCTCATTTTGTGATGTTATCCGTCCCTCTCGTGTAGGATTGGGGCAAGTGGTGATGTCGTTGCCAAACAAGAGTAATAATTATTAGAGGACTAGAGTGAACGTAGTTGCTGTAACTGTGGATGTGGTTGGTTTCCCAGGTCTCAGCTCTTTAGGATTTTATGATGATTTTTCTGTTTTGTTTTTTTGTTTGTTTGTTTGTTTTTTATTATTGTTATTATCAG
Seq C2 exon
AAAAAAGTTCTTTCCCAGCTGTGGACTTCAGGCCTTTACCCATCTGCTTACTGGTGTGGGCAGGCTCTGGTGGATATTCCCATATACTTCCTGATTCTCCTCCTCATCCGTGCTAATATTTCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000059326:ENSRNOT00000087502:22
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(11.3=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(13.3=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:
GACCATATGCTTTATGAGTACGGA
R:
GGAAATATTAGCACGGATGAGGAGG
Band lengths:
231-1265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]