HsaINT0000734 @ hg19
Intron Retention
Gene
ENSG00000154265 | ABCA5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:HGNC Symbol;Acc:35]
Coordinates
chr17:67246613-67248007:-
Coord C1 exon
chr17:67247888-67248007
Coord A exon
chr17:67246763-67247887
Coord C2 exon
chr17:67246613-67246762
Length
1125 bp
Sequences
Splice sites
5' ss Seq
AAGGTTGAT
5' ss Score
4.19
3' ss Seq
CTTTTAAAAAATTACTTCAGATG
3' ss Score
5.79
Exon sequences
Seq C1 exon
GCGAGCAATTCGAACTGCATTTAAAAACAGAAAGCGGGCTGCTATTCTGACCACTCACTATATGGAGGAGGCAGAGGCTGTCTGTGATCGAGTAGCTATCATGGTGTCTGGGCAGTTAAG
Seq A exon
GTTGATGTCTAAATAGCGTGCCATTCAGGGGAAGAGGTTGGGGGTTGGATTTTGAAAGTCATCATTTCAAAAACATGGCAATAGTTAGTAATTTAAATGTTAAATATTTTAGTTTTTGAGTTAGCTTTTGATAGATTGACTTGGAAGTATGTTGAGTTTTTTAAAAATATGGCTGTCTACTTTGAATTTGAATTCACTTAATATTTCAATAACTTGGAATATTATTTTTAGGCATAGTACTTGTTATTTCAAAAAATTGTTATATATTGGATTAATTATGTAACACAAATATGAAATAAACATATGAGTTTCTACTTACATAAATAAATAATTGAGTAAAGAAATGTGTCAGAGAAGAGGTACATCTTCCTTACAGAACAATTCCAAATAATAATATATGTAGATAATACCCACTTCAAGGGAGGAGGCTTAATCTCCTATCCCCCAAGTTTGGACGGGACTTAGCCAGTTTCTTGTAAAAAATGAACGACAGAAGGAGAAAAATAGTAACTTTACAGTTGAGAAAGCTGGCAAATACTACCTTAACTAAACGATGTTGTGCAGATATCATGTATTCACTGATATGATATGATGGAAAAAGTACTACAGCTGTGTAATATTCTCTCCAAAACCCATAACCCAAGTGTAGTCATGAGAAAAATATCAGACTAACCCAAATTGAGGGACCTTCTAACACACACCTGACCAGTACTTCTCAAAACTGTCAAAATCATGAAAAAGACAGAAAGAGTAAGAAACTGTCACCCACAGTTAGAGACTAAGGTGACGTGACAGCCAAGAACACTACGGTATCCTGGATAGAACCTGGAATAAACAAAGGACACTAATAGAAAATTGGTGAAATCTAAATAAAGTATGGAGTTCAGTGACAAGGAATGTACCAATGTCGGTGTCTCAGTTGTGAGGAATTTACCATGGTAATATAAGATGATAAGATTAGGGAAACTGAAACCGGATAAAGAGTGTATGGGGATGCTGTATTTTCTTTGTAATTTTTCTCTAAATATAAAGGTATATTTTTTTAAAATGTAGTTATATGTGTGAGAGATTATTCTTTGAAGCTGTCATTTTATATCTGAGCTTTCTTTTAAAAAATTACTTCAG
Seq C2 exon
ATGTATCGGAACAGTACAACATCTAAAGAGTAAATTTGGAAAAGGCTACTTTTTGGAAATTAAATTGAAGGACTGGATAGAAAACCTAGAAGTAGACCGCCTTCAAAGAGAAATTCAGTATATTTTCCCAAATGCAAGCCGTCAGGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000154265-ABCA5:NM_018672:34
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:
NO
A:
NA
C2:
NO
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:
GAGCAATTCGAACTGCATTTAAAA
R:
TGACGGCTTGCATTTGGGAAA
Band lengths:
262-1387
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)