HsaINT0003171 @ hg19
Intron Retention
Gene
ENSG00000072110 | ACTN1
Description
actinin, alpha 1 [Source:HGNC Symbol;Acc:163]
Coordinates
chr14:69376035-69376759:-
Coord C1 exon
chr14:69376672-69376759
Coord A exon
chr14:69376114-69376671
Coord C2 exon
chr14:69376035-69376113
Length
558 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
TCTTCTCTCTCCCCGGGCAGCTG
3' ss Score
11.1
Exon sequences
Seq C1 exon
AGACTTCAGCCAAGGAAGGGCTGCTCCTGTGGTGTCAGAGAAAGACAGCCCCTTACAAAAATGTCAACATCCAGAACTTCCACATAAG
Seq A exon
GTGAGTGCTGGGGTCTGAGGGGCTCTCACAGAACCAGGCTGCCTCCCCCGGGAGCTCCCAGACCCCCTTGGCTGGGTCAGTCTCAGCTTTAGAACAAAGTGGAGACCTCTGGGGGAAGAAGTAGCTTTCCTTGGGAAGGGGATGTCGCCATCGCTCTGAATCCCCCCGTCTCTCTCCCTGCAGTGTCTTAGATGGGGCTGCTGCCTGATATAACTTTGGTTGATGCTTTTGCTACTGGGAGCGCCCCCAAGGAAATTGTCCAGGAAGTCCCAGCCCAGGGCTCTGGAACAGCAGACTAGGGCCATAGGCCTTGGTCGGGGGTAGGGCTGGATATGGCAGGTTTATCTGAACTTGTCAACCCCCCCACAAAGTCTTGACCCTAGTGCCTGGGATTTGTGGCAGGAAGAAATGTCCCTTCCCATCCTGTCTTCTAACTCCTACCCCAGAAAGCTCTATGTGTTCATCTCTCTGGTGTCTAGGAGGCCCCTGCTTTGCCCTGGTTGCCCGTTTGTTCAGCCTCATTTACCAGCCTGCTCCTTCTTCTCTCTCCCCGGGCAG
Seq C2 exon
CTGGAAGGATGGCCTCGGCTTCTGTGCTTTGATCCACCGACACCGGCCCGAGCTGATTGACTACGGGAAGCTGCGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000072110-ACTN1:NM_001130005:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=0.018 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0030726=CH=PU(24.0=83.3)
A:
NA
C2:
PF0030726=CH=FE(25.0=100)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)