HsaINT0000427 @ hg19
Intron Retention
Gene
ENSG00000154263 | ABCA10
Description
ATP-binding cassette, sub-family A (ABC1), member 10 [Source:HGNC Symbol;Acc:30]
Coordinates
chr17:67170748-67171654:-
Coord C1 exon
chr17:67171547-67171654
Coord A exon
chr17:67170919-67171546
Coord C2 exon
chr17:67170748-67170918
Length
628 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGA
5' ss Score
6.91
3' ss Seq
TCCCTTCTATTCTTTGTCAGAAA
3' ss Score
8.06
Exon sequences
Seq C1 exon
GATGACATAGTGCTGGATCTTGGTTTTATAGATGGGTCCATATTTTTGTTGTTGATCACAAACTGCGTTTCTCCTTTTATCGGCATGAGCAGCATCAGCGATTATAAA
Seq A exon
GTAAGAGGGAGAGAGAGGAAATTAGATTGAGATTGATTTTATTTGACTGTAGTAATTGCAATTTTATTGTTTTATACACACACAGTTGTACTTTGGTTAATGTTTTTACACATACATTACAATCTAATATCAGTATAGATTATAGTAAACACATGATTTCAAAGAGGTCAGAAAGTTTACCATTTAGCACAATAAAATTGCCACAGCTGTAAGGGAAATCATGCTAAATAAACTTCAGGGATGAAGATGTGGTACTGTTTGATCCATGCAGTTATTTCACAGTTCCAAAGGGAATTTAGATTTTTAACTATAGCATGAAATGTCAGACATACAGTGTTTCCAATTATTTAACTACGCTTTAATAAACTGGGCTTTAAAAATATATAGTGTAGTCATCTTCATTAATCTGTATCAATGGGTAAATTAACTTTAAAAATAGCTGAGACTTTTCTGTTGAACCAATAACTACACATTTCCATTGGAGATGCTAGATTTTTAGGAGGATGCTTTTTGTCACACAGACACTATAACATACTATTTCTAAAATTTATTAAACAATTTTTTTTACATAACCACAAAATCTTTTCAAACTAAGATCCCTTCCTCTATCCCTTCTATTCTTTGTCAG
Seq C2 exon
AAAAATGTTCAATCCCAGTTATGGATTTCAGGCCTCTGGCCTTCAGCATACTGGTGTGGACAGGCTCTGGTGGACATTCCATTATACTTCTTGATTCTCTTTTCAATACATTTAATTTACTACTTCATATTTCTGGGATTCCAGCTTTCATGGGAACTCATGTTTGTTTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000154263-ABCA10:NM_080282:24
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:
PF126982=ABC2_membrane_3=FE(9.7=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(15.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGACATAGTGCTGGATCTTGGT
R:
CAAAACAAACATGAGTTCCCATGA
Band lengths:
278-906
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)