HsaINT0000437 @ hg19
Intron Retention
Gene
ENSG00000154263 | ABCA10
Description
ATP-binding cassette, sub-family A (ABC1), member 10 [Source:HGNC Symbol;Acc:30]
Coordinates
chr17:67149612-67150150:-
Coord C1 exon
chr17:67149972-67150150
Coord A exon
chr17:67149688-67149971
Coord C2 exon
chr17:67149612-67149687
Length
284 bp
Sequences
Splice sites
5' ss Seq
ACGGTACAG
5' ss Score
5.76
3' ss Seq
ATCACACTGTTTTTTGTCAGATT
3' ss Score
7.6
Exon sequences
Seq C1 exon
GTGGTGTTACAAGGCAGCAGAGCATCAGTAAGGCAACAGCATGACAACAGCCTCAAGTTCTTGGGGTACTGCCCTCAGGAGAACTCACTGTGGCCCAAGCTTACAATGAAAGAGCACTTGGAGTTGTATGCAGCTGTGAAAGGACTGGGCAAAGAAGATGCTGCTCTCAGTATTTCACG
Seq A exon
GTACAGAGAGAAGTCTCACAATTTGTAGCAGGAGGAAGGGGAAAATATGTCATTTCTTCATTATATATTAAAAGGAAATTATAAACAATGTCTTTAAATTTTCATGCAAATAAAATGATTCAAATACCTGAATAAGAACCAAATCATAAGATTTAGCATTTATGAAAACGTTAAGGAAGCTTAAATTTACTATCTAGAATAATAGTGCTTAGAGTTTCCTACAGTTGTTTTAGATAGGTCCATTTGCCATATACTTCATGTATAATCACACTGTTTTTTGTCAG
Seq C2 exon
ATTGGTGGAAGCTCTTAAGCTCCAGGAACAACTTAAGGCTCCTGTGAAAACTCTATCAGAGGGAATAAAGAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000154263-ABCA10:NM_080282:33
Average complexity
IR-S
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:
PF0000522=ABC_tran=FE(40.1=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(17.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGTGTTACAAGGCAGCAGA
R:
TCTCTTTATTCCCTCTGATAGAGTTT
Band lengths:
252-536
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
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)