HsaINT0000436 @ hg38
Intron Retention
Gene
ENSG00000154263 | ABCA10
Description
ATP binding cassette subfamily A member 10 [Source:HGNC Symbol;Acc:HGNC:30]
Coordinates
chr17:69153831-69154326:-
Coord C1 exon
chr17:69154235-69154326
Coord A exon
chr17:69154010-69154234
Coord C2 exon
chr17:69153831-69154009
Length
225 bp
Sequences
Splice sites
5' ss Seq
GTGGTATGT
5' ss Score
7.64
3' ss Seq
ACATTCATTGTCTTGTGCAGGTG
3' ss Score
10.71
Exon sequences
Seq C1 exon
GTGAAGTTTTGGGATTACTAGGACACAATGGAGCTGGTAAAAGTACTTCCATTAAAATGATAACTGGGTGCACAAAGCCAACTGCAGGAGTG
Seq A exon
GTATGTGACATGTGAAGGAAATTTTATTTTAAATATTGATGACATCTTTCTATTATTCCTATCAGTAAATCAAATATCTTTTTAAAAAATAGATGAAAGAATTTATAAAATTTCTCTTGCGTATTCAAAAAATATTGTAGCTTAATGGCCACTTTTATCTCCTTTAGTAGAAGGGGGATTGGAGCAAAAACCAAAGGTGAATCTGACATTCATTGTCTTGTGCAG
Seq C2 exon
GTGGTGTTACAAGGCAGCAGAGCATCAGTAAGGCAACAGCATGACAACAGCCTCAAGTTCTTGGGGTACTGCCCTCAGGAGAACTCACTGTGGCCCAAGCTTACAATGAAAGAGCACTTGGAGTTGTATGCAGCTGTGAAAGGACTGGGCAAAGAAGATGCTGCTCTCAGTATTTCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000154263:ENST00000269081:32
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(20.4=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(40.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAGTTTTGGGATTACTAGGACACA
R:
CGTGAAATACTGAGAGCAGCA
Band lengths:
270-495
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