HsaINT0000449 @ hg38
Intron Retention
Gene
ENSG00000154263 | ABCA10
Description
ATP binding cassette subfamily A member 10 [Source:HGNC Symbol;Acc:HGNC:30]
Coordinates
chr17:69214704-69216000:-
Coord C1 exon
chr17:69215815-69216000
Coord A exon
chr17:69214852-69215814
Coord C2 exon
chr17:69214704-69214851
Length
963 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
TTTTTTCTTTTAAATCTCAGATT
3' ss Score
8.79
Exon sequences
Seq C1 exon
ATAGCATTGGCTTTCCTCATGAGTGTTTTAATAAGGAAACCTATGCTCGCTGGTTTGGCTGGATTTCTCTTCACTGTATTTTGGGGATGTCTGGGATTCACTGTGTTATATAGACAACTTCCTTTATCTTTGGGATGGGTATTAAGTCTTCTTAGCCCTTTTGCCTTCACTGCTGGAATGGCCCAG
Seq A exon
GTAAGAACATAATTATTTCAAGATTTTATTATTAGATTTTCAAAATATGTTCTTATTCAAGAATTTGGTGCCTCATGAAATTTAATAATCAGCCACTCTGTGTTTTAAGAAATTCTGCTGTTGAGAAACTAAATAAGAACAACAAAAAAGTTTTATCAAATGGATAAACAAAGCAGGCAGATCATTTGTAAAATCCTAGCAAATTTAAAGAAGAAAAATAATTGCCCATTATCTGACCACTGAGAAATATCTGGTTTGTGTCCCCCTTTAAAGAGGCAGTAAAATGTGAGGTTATGAATAACGAGTGAAGCCAGATGGCATGGATAAGGGTCTCATCTCTGTTGCCTACCAGCTGGTGACACTGGGCAAGTCACTTAATCTCTTTAGCCTGTCTTCTGCAGAATGAGGATGTCAGTAGAACCCACCTCATGGGGGTAAATTTTTAGGATTAATTGTGCTATTATATACATATAGCACTAGTACAGAGCCAGATACATACTATCTAAATGTTAACTGTTATCATTATTATCTTTCTAGTTTTTTCTTCAAGTCTTCAGTACTTATTTAATAATTGAATGTTTCTGCAATATCTTATACTTAGAATTTTTATGTTTCTTTAAATGGGCTCTAATTATGTTGCCCACTTCAAGTTTTCCTTCCCAAAGTATGTTATATTTGGTTGCTTGTCCACTTCTCCATATTTTCTTTGTTAAAATACCCATGATTAATGATGCAGTTAATTTCTCTTTTTTGTTTTACTTTCATATATAGCATTTTAAAATTTTGTGAGAATACTTACATTTTTTAAAAAGCAACAATACTAATAGCACATTTACTATGCATATTTGAAAAGGTATTAAAATATTAATTACATATCTCTAGGTACCACTATTTTTTAAAAAAAATTGTTTTATTTAGTTTTATAAGTTCATCTAACATTTTATTTTTTCTTTTAAATCTCAG
Seq C2 exon
ATTACACACCTGGATAATTACTTAAGTGGTGTTATTTTTCCTGATCCCTCTGGGGATTCATACAAAATGATAGCCACTTTTTTCATTTTGGCATTTGATACTCTTTTCTATTTGATATTCACATTATATTTTGAGCGAGTTTTACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000154263:ENST00000269081:9
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(18.9=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=PD(13.0=84.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCATTGGCTTTCCTCATGAGTG
R:
GAAAAGAGTATCAAATGCCAAAATGA
Band lengths:
291-1254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development