HsaALTD0000019-2/2 @ hg19
Alternative 5'ss
Gene
ENSG00000179869 | ABCA13
Description
ATP-binding cassette, sub-family A (ABC1), member 13 [Source:HGNC Symbol;Acc:14638]
Coordinates
chr7:48547468-48550795:+
Coord C1 exon
chr7:48547468-48547552
Coord A exon
chr7:48547553-48547645
Coord C2 exon
chr7:48550680-48550795
Length
93 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGA
5' ss Score
6.66
3' ss Seq
ATTTCTTTTTATCTTCTCAGCTC
3' ss Score
8.87
Exon sequences
Seq C1 exon
CCTGGAGAGCATCCGTCAGTGTGGAGTGGCCCTCTGCATCGTGCTGGGATTCTCCATCCTGTCTGCATCCATCGGCAGCTCTGTG
Seq A exon
GTGAGGGACAGGGTGATTGGAGCCAAAAGGTTGCAGCACATAAGTGGCCTTGGCTACAGGATGTACTGGTTCACAAACTTCCTATATGACATG
Seq C2 exon
CTCTTTTACTTGGTTTCCGTCTGCCTGTGTGTTGCCGTTATTGTCGCCTTCCAGTTAACAGCTTTTACTTTCCGCAAGAACTTGGCAGCCACGGCCCTCCTGCTGTCACTTTTCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000179869-53-52,54-52-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=PU(13.0=65.5)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(12.5=100)
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCATCGTGCTGGGATTCTC
R:
CGAAAAGTGACAGCAGGAGGG
Band lengths:
167-260
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- The Cancer Genome Atlas (TCGA)
- 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)