HsaINT0000874 @ hg19
Intron Retention
Gene
ENSG00000154258 | ABCA9
Description
ATP-binding cassette, sub-family A (ABC1), member 9 [Source:HGNC Symbol;Acc:39]
Coordinates
chr17:67016529-67018002:-
Coord C1 exon
chr17:67017883-67018002
Coord A exon
chr17:67016728-67017882
Coord C2 exon
chr17:67016529-67016727
Length
1155 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
ATATTGATCTTATGTTTTAGATA
3' ss Score
10.06
Exon sequences
Seq C1 exon
AACTTTACAGGGATCTTGATAGATGTTCTAACCAAGGCATTGAGGATTATGGTGTTTCCATAACAACTTTGAATGAGGTGTTTCTGAAATTAGAAGGAAAATCAACTATTGATGAATCAG
Seq A exon
GTAAGAAAAAATAAGAAAGAGAAAGAAAGGGAGAAAGAAAGAAAGGAAGGAAGGAAGGAAGGACGAAAGAAAGATTTTATCTTTGTGTGCAGTATTTTATCTTGAAAATATGCCCAAATGATGAGATTATATACTTTTGTTGGTGCTATGATTCAGGCTTGTCTTGGGAAAACTTAGAGAAGAAATATATCTCTGTGGAATATAGCAATGTACAACACTAGTTCCTTATGCAGCAAACAATAAATATATGGTATGATATTACCTGAATATACATGCTATAGAGAAAAGAAAATTAGAGTTCACAGAAATGCTACTTTTCTGGTAGCATTTCAGTGATATTATTCCAATGTATCTGGGATTTAGTTGTTGCTTTTGGAAAGTTTGCTCTCTGTCTCATCTTTATTCCTTGGGAAGCATTCTGTCTTTTCTCTCTTATTGCTGCTAAGATAATTTTTTTTACTGGTTCACTATCATCTTATGGTGTTTACTCTTTACTGTGCTCTTTATTTTCATTTTTGCAATTTTCTGGGGGTCTTTTTGGATTGATCAAGCATTTTTCTTTAATCCTCCTTTTCCTCTCTTATTCATTTTTGAAGTTATATACTTGTTACTTTTTTAGTGTTATACTAAATTTTAATGTATGTACATATTTTATAGCTTTCTAGTAGCCAGAGTTAGTCATTTTCTCTAGGCTTCACCTCAAAACAGGTAACTTTTATCTTGCTTTTAACCATGGTTATATTTTAAAAATATCGTTTCTCCCATTTTTATGTTCTTGAAGGGTAGAGGAGGGGTTTCTGTATATACTAACTCTCCTACCTTGGTCAGAAATACTAAGTGGTTTATCTTTTACAACAAATAGATTTCTTAATGAGTTTTTTTTCATTGATTTCCTTAGAATAAATAAAGTCCTATAAAGCTGCAGACAGAGGACGTTTAAAATCAGAAAACACAAGATTTTCTTTTATTATATCAATACTTTCTGCTTCTTTCCCATTTCTTCAATAGTTGCTCTAATAATGTCATACATTAGATTACTTGTATCTTGGCCCAAGAGGGTAACTTTGACACCTTTGTAGGAAAATTTATCATAGGAAAAGCTAAATAATGCATAACTAAAATGGCACTTTATAAAATATTGATCTTATGTTTTAG
Seq C2 exon
ATATTGGAATTTGGGGACAATTACAAACTGATGGGGCAAAAGATATAGGAAGCCTTGTTGAGCTGGAACAAGTTTTGTCTTCCTTCCACGAAACAAGGAAAACAATCAGTGGCGTGGCGCTCTGGAGGCAGCAGGTCTGTGCAATAGCAAAAGTTCGCTTCCTAAAGTTAAAGAAAGAAAGAAAAAGCCTGTGGACTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000154258-ABCA9:NM_080283:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
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
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACTTTACAGGGATCTTGATAGATGT
R:
TAGTCCACAGGCTTTTTCTTTCT
Band lengths:
318-1473
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)