HsaINT0000428 @ hg19
Intron Retention
Gene
ENSG00000154263 | ABCA10
Description
ATP-binding cassette, sub-family A (ABC1), member 10 [Source:HGNC Symbol;Acc:30]
Coordinates
chr17:67170422-67170918:-
Coord C1 exon
chr17:67170748-67170918
Coord A exon
chr17:67170536-67170747
Coord C2 exon
chr17:67170422-67170535
Length
212 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
TTGATCCTCATTATTTGCAGGTG
3' ss Score
9.42
Exon sequences
Seq C1 exon
AAAAATGTTCAATCCCAGTTATGGATTTCAGGCCTCTGGCCTTCAGCATACTGGTGTGGACAGGCTCTGGTGGACATTCCATTATACTTCTTGATTCTCTTTTCAATACATTTAATTTACTACTTCATATTTCTGGGATTCCAGCTTTCATGGGAACTCATGTTTGTTTTG
Seq A exon
GTAAGTGATCATTTTTTCCACAAGCCAATTATAATAGTAGAATCAAAATGAAAATTCATTTTCATGAATGTTTTGTCATTAGCAAAAGGCATGTAATATGCAAGAAAATAAGAAAATTGCCTTAGGCAGCTTTATGACCTGATTATCTCCCCTCCTCTTTCCCTCTATGACCTGCCATTTCTAATCTTGCCATTGATCCTCATTATTTGCAG
Seq C2 exon
GTGGTATGCATAATTGGTTGTGCAGTTTCTCTTATATTCCTCACATATGTGCTTTCATTCATCTTTCGCAAGTGGAGAAAAAATAATGGCTTTTGGTCTTTTGGCTTTTTTATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000154263-ABCA10:NM_080282:25
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF126982=ABC2_membrane_3=FE(15.5=100)
A:
NA
C2:
PF126982=ABC2_membrane_3=FE(10.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTTATGGATTTCAGGCCTCTGG
R:
AAGCCAAAAGACCAAAAGCCA
Band lengths:
262-474
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)