HsaINT0000731 @ hg19
Intron Retention
Gene
ENSG00000154265 | ABCA5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:HGNC Symbol;Acc:35]
Coordinates
chr17:67249935-67250631:-
Coord C1 exon
chr17:67250456-67250631
Coord A exon
chr17:67250011-67250455
Coord C2 exon
chr17:67249935-67250010
Length
445 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAAA
5' ss Score
5.48
3' ss Seq
TTGTATTGTTCATTTTGCAGAAT
3' ss Score
9.39
Exon sequences
Seq C1 exon
GTATTTTTAGGAGATTATTCTTCAGAGACAAGTGAAGATGATGATTCACTGAAGTGTATGGGTTACTGTCCTCAGATAAACCCTTTGTGGCCAGATACTACATTGCAGGAACATTTTGAAATTTATGGAGCTGTCAAAGGAATGAGTGCAAGTGACATGAAAGAAGTCATAAGTCG
Seq A exon
GTAAAATAATTGTCTTTAGATTCCTTTTGTTACTTAGAGGAAAGGTTTGCATTTCATATTTTTAAAATTTCATAACAAGCATTTCTGTGGACAATGATTTTTATAGAAAATGTTTATTACTTTTTCATATATTCTTTATGATATATGAAAATATACTGATAGCTGTAAATTATGATAGTTATAAAAAGGTCATTTTTTAATTTCTAGTTACAGGATAAATATACCTATAGATATCATGAAACTTATTTTAATTCAAAGTGAACCATTTTATCAAGATATTAATTTATTTAAAATGATGTAAATTGGAGACTTTTGCCCTTACCTACTTATAATAAGCTTCGACTAAGTAACTATTCTAGAGAAAACAACATCAGGGATCACACCCAGTTGGTATTTGTGTTTATATATATCATGGTATTCTCATTTTGTATTGTTCATTTTGCAG
Seq C2 exon
AATAACACATGCACTTGATTTAAAAGAACATCTTCAGAAGACTGTAAAGAAACTACCTGCAGGAATCAAACGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000154265-ABCA5:NM_018672:31
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.034 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=FE(39.7=100)
A:
NA
C2:
PF0000522=ABC_tran=FE(17.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGATTATTCTTCAGAGACAAGTGA
R:
TCGTTTGATTCCTGCAGGTAGT
Band lengths:
240-685
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)