HsaINT0000711 @ hg19
Intron Retention
Gene
ENSG00000154265 | ABCA5
Description
ATP-binding cassette, sub-family A (ABC1), member 5 [Source:HGNC Symbol;Acc:35]
Coordinates
chr17:67283754-67285437:-
Coord C1 exon
chr17:67285318-67285437
Coord A exon
chr17:67283893-67285317
Coord C2 exon
chr17:67283754-67283892
Length
1425 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAT
5' ss Score
8.88
3' ss Seq
CTTCACCTCTTTTCACACAGATA
3' ss Score
8.65
Exon sequences
Seq C1 exon
GTGCAGAAGGTTTTACTAGATTTAGACATGCAGACTATCAAAGATAACCAAGCTAAAAAATTAAGTGGTGGTCAAAAAAGAAAGCTGTCATTAGGAATTGCTGTTCTTGGGAACCCAAAG
Seq A exon
GTAAATAAATATTACTTTTACAGATGAGCTCATTTTAAATTATGTCGAATTAAAAAGCAGGTTGTAGAAAGATATAATACATTATGTAAAGGTTAAGTGTACATAAAATGCTGTATGTTATTATGGATATAATCATAGTAATGAGATTTTAAAAGTGAAGTCAGAAAGATGTATAACTTTTTTTAATTTTAGTAGCTGTCAAGGTACTAAAGGTTTTTGGTTACATGGATGAATTATATAGTGGTAAATTCTGAGGTTTTAGTGCACCCATCTCCTGAGTACTGTACATGGTACTCAATATGTAGTTTTTTTTATTCCTCACCCCCTTCCACCCTTTCCTTTCTGAGTTATAACATCTTTATGATAACTGGTTACTTTTAGGAAGGAGAATGGAAGAATAGACTTTAGTTATGACTGCCATGTTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTCTTTTTTTTTTTAATTTGTAGAGACGAGACCTTGCTATGTTGCCCAGGCTGGTCTTGAACTGGCCTCAAGCGATCCTCCCGCCTTTGCCTTCCAAAGTGTTGGGATTACAGGCATGAGCCACCACGCCTGGCCTCCATGTTTTATTTCTTTAAAAAATGATCTGAAGAAAATGTGGCCAAAAAATAACATTGCTGAATTGGAATGGTAGCTATAATAGTATTACTCTCTTGTTCTCTATAGTTTAAAAAATATTTGTTATAGTTAATAACAAAAGTTAAGAAATAGAACAAAATCAAAGGAGTGATTCAGTTTATCACTGTCCTGCTTTGATTTTGTATGTATTTGTTTTATGCTGTTCTCTGTCATAGAAACAGAGAAACAACTGATGTACCACTTTACACAGGGCATCAAAACTGACAGGTGCATGCATGCAGCTAGGATGATCTCCTATTGATCCCCACCATCCTGCCACATTCCCCCTTGCTGTTGCAGCTGGGGAATGATTCTGGATCCTGGCTTTATGTTCATTAGTCTTCCTCTCAGCCACCACCACCATGTTCTTTTTTATATTAAAAATAGTCTTGAAACAAATTGCTTCCCTTGAACTACTATAAAACCATATATTCTTCTCCAAAAAAGCAAGTGTTACATCTACAAATTTAATTGTTAAGGATAATAGCAATATACTTAATGTTTTGTTTTTAGTTTGTTTGTCTGACTGTTGTTATACTTTTGTCTTGTGTATTACAGGCAGTCTTTTAGAATTAAACCTGGGAAAATATTCACATGTCAAATTTATAATTTTAAAAATTTATGTGAACTCAATTATGAATGAAAAAATCTGATCTAATATATTTCTGATTGAAAATAATAATTTGAAATGGGGCAGTTTTTTAGTGTCCACATGCCTGTTTAATATTTAGTTTTTCTGAGGATTCCCTGCCCTTCTTCACCTCTTTTCACACAG
Seq C2 exon
ATACTGCTGCTAGATGAACCAACAGCTGGAATGGACCCCTGTTCTCGACATATTGTATGGAATCTTTTAAAATACAGAAAAGCCAATCGGGTGACAGTGTTCAGTACTCATTTCATGGATGAAGCTGACATTCTTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000154265-ABCA5:NM_018672:13
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:
PF0000522=ABC_tran=FE(26.5=100)
A:
NA
C2:
PF0000522=ABC_tran=PD(5.4=17.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGAAGGTTTTACTAGATTTAGACA
R:
TGCAAGAATGTCAGCTTCATCCA
Band lengths:
256-1681
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)