HsaINT0000898 @ hg38
Intron Retention
Gene
ENSG00000154258 | ABCA9
Description
ATP binding cassette subfamily A member 9 [Source:HGNC Symbol;Acc:HGNC:39]
Coordinates
chr17:69043489-69044600:-
Coord C1 exon
chr17:69044497-69044600
Coord A exon
chr17:69043716-69044496
Coord C2 exon
chr17:69043489-69043715
Length
781 bp
Sequences
Splice sites
5' ss Seq
GAAGTGAGT
5' ss Score
7.97
3' ss Seq
TCATTGATATCTTTCTTCAGATC
3' ss Score
9.82
Exon sequences
Seq C1 exon
CTCACTGTCAAGCAGTGAATGAAAAAATGAAGTGTGAAGGTTCAGAGTTCTGGGAGAAAGGCTTTGTAGCTTTTCAAGCTGCCATTAATGCTGCTATCATAGAA
Seq A exon
GTGAGTATAAAGTTAAAGGAATCTAACCACATTGCATTTGAATTTTGCTGGATGGTGATTTAATGGATTATCCTATTCTATCATTTATTCACTTCATTAATAAGGCACAATATACAGAACAACTTCCATAATAAAACCATTGTACTAAGTACTGGGGATCAGAAAATAAGTAGAACACAGGCATTTTTCTCCAGGGATACTGGTATAGGGGGAGATAGAAACATGGATATATAGTCATAATAAGAGTTTAGATTCTATCATAGAATTTTTTATTTTTAACTTTGTTTTTCTTAGAGACAAAGTTTTACTCTGTTGCCCAGGCTGGAATGCAGTGGCTATTCACAGACATGATTATAGCTCACTGCAGCCCCCAAACTTCTGGGCTCAAGTGATCCTCCTACCTCAGCCTCCCAAGTAGCTGGGATTACAGACCATGCCACCATGCCTGATTCTATCATGGAATTTAAAATGGTGTACTAGGCAAACAATGAAGCAGGATATACTCTGATAAGAAACATCAGGGAAAATTTGCTAATTGAAGTGACATTTCAGCTAGTCTTAAAACAGGAGTAGCGTTTTGTCCAGTGAGGTTGATGATGTTCTAAGGAGTCACGACAAAACCTAAAGTGTTCCAGGAACCACAAGGGGCCAGATCATGAAGGGCATATAAACATAAAATACATAAATGTAGAATGTACGTGATTCCTTATAATTTAGAGAAAAAGCCTAAGGTTGGAATTAGATTGATGATAACAATTTGTTCATTGATATCTTTCTTCAG
Seq C2 exon
ATCGCAACAAATCATTCAGTGATGGAACAGCTGATGTCAGTTACTGGTGTACATATGAAGATATTACCTTTTGTTGCCCAAGGAGGAGTTGCAACTGATTTTTTCATTTTCTTTTGCATTATTTCTTTTTCTACATTTATATACTATGTATCAGTCAATGTTACACAAGAAAGACAATACATTACGTCATTGATGACAATGATGGGACTCCGAGAGTCAGCATTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000154258:ENST00000340001:5
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(14.1=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(19.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAGTGTGAAGGTTCAGAGTTCTGG
R:
CAGAATGCTGACTCTCGGAGT
Band lengths:
302-1083
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development