HsaINT0000425 @ hg19
Intron Retention
Gene
ENSG00000154263 | ABCA10
Description
ATP-binding cassette, sub-family A (ABC1), member 10 [Source:HGNC Symbol;Acc:30]
Coordinates
chr17:67178294-67178949:-
Coord C1 exon
chr17:67178816-67178949
Coord A exon
chr17:67178432-67178815
Coord C2 exon
chr17:67178294-67178431
Length
384 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
TTTGTGTACTTTTTTTCAAGGAT
3' ss Score
8.15
Exon sequences
Seq C1 exon
GATCAAATATTGAAGACCTCGTGCATTCACTGAAGTGTCAGGATATAGTTTTGGAAATAGATGACTTTAGAAACAGAAATGGCTCAGATGATCCCTCCTACAATGGAGCCATCATAGTGTCTGGTGACCAGAAG
Seq A exon
GTATGTTTGCTTCTATGCACTGTTTTTTTTTGGTTTTTTTTTGTTTTTTTTGCCACGTCCTAATACTTAGAACTATAGGAAACTTAAGTATGTTTTCTAAATTGGCATCATATTAGAGGAGGCTTGAAACTTTCTTTGTCACATAAAATATAAATATTTGACATCTTTTCATGTTAGTAAATGTTAATCCATTTCATTTACAAAACAAGTCACTTGAATTACAAAAATAATGCATTCTTGTACCAATTCAAAGAAGGCAGAAGTGTCAAAGAAAAATTAATAGTCTCCTTCTCATTCTAATTCCACTCTGGTAATATACAAAGTATACAATAAATATATTTACTATAAGAATTTATAACTTATATTTGTGTACTTTTTTTCAAG
Seq C2 exon
GATTACAGATTTTCTGTTGCGTGTAATACCAAGAAATTGAATTGTTTTCCTGTTCTTATGGGAATTGTTAGCAATGCCCTTATGGGAATTTTTAACTTCACGGAGCTTATTCAAATGGAGAGCACTTCATTTTCTCGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000154263-ABCA10:NM_080282:22
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(12.2=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(12.5=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:
TCAAATATTGAAGACCTCGTGCA
R:
ACGAGAAAATGAAGTGCTCTCCA
Band lengths:
270-654
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)