HsaINT0000729 @ hg19
Intron Retention
Gene
ENSG00000154265 | ABCA5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:HGNC Symbol;Acc:35]
Coordinates
chr17:67304421-67305564:-
Coord C1 exon
chr17:67305403-67305564
Coord A exon
chr17:67304510-67305402
Coord C2 exon
chr17:67304421-67304509
Length
893 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
TCATATTCTTCCCCCCATAGCTG
3' ss Score
9.72
Exon sequences
Seq C1 exon
TCATAATTACTGAAGAATATACAAATGAAAAAGAAATGTTAACATCCAGTCTCTCTAAGCCGAGCAACTTTGTAGGTGTGGTTTTCAAAGACTCCATGTCCTATGAACTTCGTTTTTTTCCTGATATGATTCCAGTATCTTCTATTTATATGGATTCAAGAG
Seq A exon
GTAAATAGCCCTACATAATCATTGAAGATCAATTAAATGCATATCTTTGCTGCTTGCAGTTCATAGTCAAAATTTTATATAGTTCAATATTGGCATTTTCAACTATTCTTACTTGTTCCAATAGGAAAACTGAGAAGTATAGCATAAAAATATTTATTTATAAATACCTATCTACTTCTACACATAAAACATTTTTATATATACCCATTTTGATTTAATACATTTATATATATTAAATACAGTAGCATAAAGCAAAATTGCATTTTGGGTTATATGACTTTCTAAATCTCTTTTTTTCATGTAATTGTTTTTACTTGTGGTATGTACAAATCTTTAAAATCTTGAGGTCTTCTACTAGTGAACTTGATTAGTTTTATATTTGAAACATGGGAAACAACCTTTGGTTGTTTAAATCTATGAAGAAATATTATCAACCACAAACATTTATTGAGCAATGTTAAAGTCACTATGCTAAATACTGAATTTGTGACTTTATTTCAAAAAGCCCTTCTGAAAATTCTTTTTTCCTGTTTGCTTAACTTTGACTTTTCCTTGCTTCTGGAAGTGCTTTAGAGCTAAGTCATGTAGAATGATTTACTTTAAAACAAAAAAGTAACTTGTTTTAAATAACTACAATTAATTTCTTTCTTTACATTTTTATTCATTTACTATTTAGTATTCTAACACATATAACTTTTATTTCAAAATTTCAAGTAAATGATCAGAAATCTTGTAAGTATTGTTTACCTTTGAAAGTCAGTAGCTTATTTCTTTGGTCCTGTAAAGATTGATTGATTATATTGTTTTGGTAGGTATCTCTCCATATAATATCTTTAAAACGATGCACTTGCATGTTGTACAGAATCTTAGATCTCATATTCTTCCCCCCATAG
Seq C2 exon
CTGGCTGTTCAAAATCATGTGAGGCTGCTCAGTACTGGTCCTCAGGTTTCACAGTTTTACAAGCATCCATAGATGCTGCCATTATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000154265-ABCA5:NM_018672:3
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(14.0=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=PU(14.9=74.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AAAGAAATGTTAACATCCAGTCTCTC
R:
CTGTATAATGGCAGCATCTATGGA
Band lengths:
222-1115
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
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)