RnoINT0010480 @ rn6
Intron Retention
Gene
ENSRNOG00000059326 | Abca9
Description
ATP binding cassette subfamily A member 9 [Source:RGD Symbol;Acc:1305931]
Coordinates
chr10:98448242-98450265:-
Coord C1 exon
chr10:98450126-98450265
Coord A exon
chr10:98448362-98450125
Coord C2 exon
chr10:98448242-98448361
Length
1764 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATC
5' ss Score
6.99
3' ss Seq
GTTGTTGTTCCTACTTTTAGACC
3' ss Score
8.32
Exon sequences
Seq C1 exon
TTTGCATTTGAATGAAACTTGTGATCCAGAGAGTATAACATCACTGGTCAAAAAGCACATACCGGACGCCAGACTGACTGCACAAAGCGACGAACAGCTTGTCTATATCTTGCCCCTGGAAAGGACAAACAAGTTTCCAG
Seq A exon
GTAATCCTGAGCAAGTGACATGGCTCTCCAGGCTGCGGTTTTCGCACTTGTGTGAGGGGAATGGCAGTCAGGAACTTTATGAGTTTGTCCTGATGGTTAAATTATCACCCAAAACATTTAAACCTATTGTTAAAATGTTAGACATCAATAGTGAGTAGAGGAACCGTGTCTGACATGGGGTTACTGAGGTGTTTCCCCAGCTCTAAGATACCAATATGTAGACTACGTCACCAGAAGACAAAAAGAATAGATGTTGACTTTTCAAATCGTGATCCATTCTCAAGTCAGAATACCAGAAATGGCAGCATTCTTTCTTTGTAAGGATCATTGATCGTAATAACAGACACAATCAGAGTACCACATGTGGTTGGGGGGGTTGGGGGGGAGAGCCTGGAGTAAATATGGTTGAAATACATGTGTACATGTATAGAATCCTCAAATATTGAGTAAACTTTTTATATATTTAAAAGGGGACATGGTTTTCATCTTAGATGTTCACACAGTACATCTGAGATGCATCTCATTCTGAAGACAAAAATCCTCACAAAGATCGGACAGCACAGTTTGCTCCACCATTTCTTAAAATGCATTCCAAAGGGCCAAACCATCTAAGTAGAGGCTGGGACATAGATTTAAGGAGCTGGGAGCACTTATGTATTTTCCTCTAGCATGTAGTTAAGACAGCTTCAATTCCCAACATCATTTAAAAATTTTCAAAATGGCCTCCTAATTGTTCACATGGGTGTACCCTATTTCAGTGTTTCTGTGTAATTCTCATAGCAGATTTAGAAAGGAAAAGAGGAAGGAAAGAGAAGGAGGGCGGAGAACATTTAAGTGGATGGAATGTCTTCCAGGGAAAGCACAAAGACACACCACACATTCTGCCCAACTCCTTTTCTTCCTTTCTACTTCCCACACAGAGTTCATGGAAATTATTTATGTATGCATCAACGTTTTTGCATTTGTTATTACAGTTTTTTAAGAAACTAATTGTAACCTAAAATAATAAATATTTATTCTCTGGATGCTATTCTTTAATCAGAGTTTGGAATTAAACATCCCCATAACAGAATTTAAAATAGAAAGGGGTTGGAGAGAAGACTCAGTCGTTAAGAGTGCTTGCCACACTTTTAGGGGATCCAAGTTCGCTTCATAGCACCCACATCAAGGAACTCACAACTAGTTGAAGCTCATACACACACACACACTCACACACACACTCACACACACACACACACCCCACATAAAACTTTGAAATTCAAAATAATTTAATATATTTTTAGTGTGTTTGCATGTTTTGCCTACATGTATACCTGTGTACAATGTGCATGCATGATGCCCTTGGAGGCCAGAAGAGGGTGTCAAGTCCCCCGGATTTGGAGGTATTTGTGGGCTGTCATGTGGGTCCTAGGAACAAAACCTGGGGTCTCTGTAAGAGCAGCAAGTACTCTTAACCAGTGAATCATCTCTCCAGGTTCTGGAGTTAAAACACGTTAAATACATCCATCAATATTTTTAAACTGAGGTGTTTTCCAAGTATAGAAGCATAGATGTTTGTGTTATACATCGATGCTGAGAAAGACATGGGAACCTAATATAGTCTACAGACAGGTTTTATGAGTAAGCGAACACGATATCAATCAGTTTATGATAAAAAAGCACATAGTTTATATCAATATTTTCTCATTTTGGCAGATATCATTGACTACCTCATTATGAATGATACTGTAATCTACTTTTTGTCGTTGTTGTTCCTACTTTTAG
Seq C2 exon
ACCTTTACAGGGACCTTGACAGATGCTCTAACCACGGCATTGAGGATTATGATGTTTCCATGACAACCCTGAATGAGGTGTTCCTGAAGTTAGAGGGGAAGTCCATGGCTGAGGAACCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000059326:ENSRNOT00000087502:16
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:
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:
TGCATTTGAATGAAACTTGTGATCCA
R:
GTTCCTCAGCCATGGACTTCC
Band lengths:
255-2019
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]