HsaINT1000135 @ hg38
Intron Retention
Gene
ENSG00000154258 | ABCA9
Description
ATP binding cassette subfamily A member 9 [Source:HGNC Symbol;Acc:HGNC:39]
Coordinates
chr17:69020388-69021861:-
Coord C1 exon
chr17:69021742-69021861
Coord A exon
chr17:69020587-69021741
Coord C2 exon
chr17:69020388-69020586
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:ENST00000340001:18
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
Associated events
Conservation
Chicken
(galGal3)
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]
SPECIAL DATASETS
- Autistic and control brains