HsaINT0000767 @ hg19
Intron Retention
Gene
ENSG00000154262 | ABCA6
Description
ATP-binding cassette, sub-family A (ABC1), member 6 [Source:HGNC Symbol;Acc:36]
Coordinates
chr17:67081766-67082876:-
Coord C1 exon
chr17:67082759-67082876
Coord A exon
chr17:67081858-67082758
Coord C2 exon
chr17:67081766-67081857
Length
901 bp
Sequences
Splice sites
5' ss Seq
AAGGTCTGT
5' ss Score
6.43
3' ss Seq
AGTCTGATTCTTTCTTTCAGGTG
3' ss Score
10.5
Exon sequences
Seq C1 exon
AAACCTGTTATAATTGCCAGCTGTCTACACAAAGAATATGCAGGCCAGAAGAAAAGTTGCTTTTCAAAGAGGAAGAAGAAAATAGCAGCAAGAAATATCTCTTTCTGTGTTCAAGAAG
Seq A exon
GTCTGTAATAATCCCTTTTAAAACTTACCATTACTTTTAGAACTACCTACCGAACATCTATGTCATAGGCACAGTTTTACTCGCTGAAGCATTCATTCATTTATTCTATATATATATATATATATATATATTTAGTGTGCCAGGGAGTGTTTTAGACTCTGGAAATACAATTATGAAGCCACTAGACAAAGAGCATCCAGGTAGAGGAAACAGTGAGGGCAGGGACTCAGACACATTTGGAAACGTTGTGTCTCTAGCCAAGAGGCCAGTGAATGCATCCATAAATGGAAGGGATAAAGCTATAGAGCTGAGCAGCGCCAGATTAGGTACAGCTTTTGAAAACAGCAATGAGTTTGTGTTTTATACAAGTTAGCATAATACCATTGGAGAGTTTTTAGCGGACTTGTGTCATATTTAATTTATATTTTGAAAAGATTACAGATTGGCTATTGTTTGTTTGTCAGTTTGGGTTGGGGGGGACAAGTTCAGAGGCTTTTATATCAGTTGGGATGAAAGATGATGGTAACTTGGACAGAGGTGGTTGAATTTGGGATGAAGAAAATATCCCTAACTTCTCAAGTTTGAGAATCATTCATACATGTACTCAGTGCATCGGCCATCTATTACGGAAAACAGTTGGACACATTTCCAACTGAAACAAGTAATCTGGGGGGAAAAGGACAGATGTATTGACATCAAATTCATTAGCTTTGCAGTAACATTTGGCATAATTACAGAAAATAAAGAACATGCTTTGGTGACGTGGATTACATATATGTTATCAATCTCAAAATGGTACTAACTGAAGGGTGCAGAAATCTCAGAAGATTTCACTGGAGCAAAAGGTTTATGTTGTTCAGTATTTCACTTCCAATATTGATAGTCTGATTCTTTCTTTCAG
Seq C2 exon
GTGAAATTTTGGGATTGCTAGGACCCAATGGTGCTGGAAAAAGTTCATCTATTAGAATGATATCTGGGATCACAAAGCCAACTGCTGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000154262-ABCA6:NM_080284:30
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=0.032
Domain overlap (PFAM):
C1:
PF0000522=ABC_tran=PU(7.2=25.0)
A:
NA
C2:
PF0000522=ABC_tran=FE(21.6=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:
ACCTGTTATAATTGCCAGCTGTCT
R:
GCAGTTGGCTTTGTGATCCCA
Band lengths:
201-1102
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)