RnoINT0010475 @ rn6
Intron Retention
Gene
ENSRNOG00000059326 | Abca9
Description
ATP binding cassette subfamily A member 9 [Source:RGD Symbol;Acc:1305931]
Coordinates
chr10:98453594-98455314:-
Coord C1 exon
chr10:98455204-98455314
Coord A exon
chr10:98453770-98455203
Coord C2 exon
chr10:98453594-98453769
Length
1434 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TCTTTACTTTCTCTGTGTAGGCT
3' ss Score
10.33
Exon sequences
Seq C1 exon
GTCTGGGATTTGATATATACGAAGGCCAGATCACTGCCCTTCTTGGTCATAGTGGAGCTGGGAAAACCACCCTGATAAACACACTCAGTGGACTGTCACCTCCTACTACAG
Seq A exon
GTAAGAGGACACTTATTCTAAGACAACCTCAAGGGCAAATGAATAGTCTGGGCTTTCCAGGCAAACACCACCCCAATGAGTTTTCCTTGAGCTTATACAATGTACGCGTGTGTTGATTATATATGTTTCCCCAACAGTAGGTGCTACCTTTATATTCTTATATGGCAGTGAAAACATTTTTTAGAAGTTTAAGTTACTTTTATATAATTGAATACATTTGTGAAAATGTGCTTGATATAAGTGGCTTTATAATTATTCAGTTACTAATTGACACTTCTACTAGATTAGATGTTCTGAACACTGAATCTCTCTTCCTCTCTTCCTTTCCCTCTCCCCCTCCCTCCCTCCATCCATCCCCCCTCTTCTCTCTCTTTCTTTCTTTCTCTCTCTCTCTCTCTCTCTCTCACTCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAGTATATAGAGACCTGTTGGTGAATTTGCCTGGGTGAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAGTATATAGAGACCTGTTGGTGAAATTGCCTGGGTGAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAGTATGTAGACTCCTGTTGCTGAGCCTGCCTGGCTGAGTACATCTGGAGGTTACAGCGCCTTCCTCAATCACTTCTCTACCTTTTTGTTTTGAACTATTTTTTATCTTAAAAATTCTTTTTATTATTAAGTTTCACATAGGTGCACAGTGTATCTGGGGCACATCCCTTCCACACTTCTGCCTTCCAGCACCTCCCAGTCTCACCCCAACTGATCCCCCTCACAACTTTATGCTTCATGTCTTTTTTTTTTTTTAAAAGCCAGTAGCGCATCAATCCCAGTAGCCCTGTCCATACTCACGTGGGTGTGCAGTTTACCAGGAGTCACACCCTCACACACAAGCAAAGTAGCTCTGCCTCTCTCGGAAGCCATTAGATTCTCAGCGTGGTGTGGGGCATTGGGAAAGGCTTTCCCACCTACATTGGAAGTTTTAAGTCTCTTCATATTGCATTCACCTTATTCTTTGAGGCAAGGATTTGCGCTTAACCTGAAACTTACTATTATTTTAAATTTACACATTTATTTACTTTATACCCCAATATCAGCACCCCCTCTCCTCCCAGTACCCCCTAAGGCAAGTTCTACCCCAAATCTACCTTCCCCATCTCTTTTGAGAAGGGGAAGCCCCCCCTCTCGATGTTAACCCCTCACTCCCTGCTCCCCCACCCCCTATCAAGTTGCTGTGGGATTAGGTTCACCCTCCCCCACTGAGGGCAGGCAAGCTGTCCATTTAGGGGAGGGGGACCCACAACTCTCCTAACTCCTGCATAACAATGAGTGCTCCCTTGTGACTTACATAATTCACACCTTGTCAGGGTAATTCTTTACTTTCTCTGTGTAG
Seq C2 exon
GCTCCATCACCATTTATAATCAGACAGTTTCAGAGACGGAGGACTCCTACGCTGTCCCCAAGCTCACTGGAGTTTGCCCACAATCCAACATACAGTTTGGTTTCCTCACTGTGCAGGAGAATCTCAGGCTTTTTGCCAAGATAAAGGGAATTCTGCCGCAGGAAGTGGAGCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000059326:ENSRNOT00000087502:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.105 A=NA C2=0.085
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(25.2=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(39.5=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:
TCTGGGATTTGATATATACGAAGGCC
R:
CTCTTGCTCCACTTCCTGCG
Band lengths:
286-1720
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]