HsaINT0012746 @ hg19
Intron Retention
Gene
ENSG00000136950 | ARPC5L
Description
actin related protein 2/3 complex, subunit 5-like [Source:HGNC Symbol;Acc:23366]
Coordinates
chr9:127635971-127637430:+
Coord C1 exon
chr9:127635971-127636043
Coord A exon
chr9:127636044-127637253
Coord C2 exon
chr9:127637254-127637430
Length
1210 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAG
5' ss Score
9.06
3' ss Seq
TTGCTCTTTTTCGTCTGCAGGAG
3' ss Score
11.58
Exon sequences
Seq C1 exon
AGGGGACATGCTTCGGGCATTCCATGCAGCCTTGCGGAACTCTCCCGTCAACACCAAGAATCAAGCTGTGAAG
Seq A exon
GTAAAGGGGTGGCGCTGCGGCTCTGCTGGGTGCTGTTGGGACCAGGGCTGTGGGTGTCTGCCCAGTGCGAGTGTGAGCTTTCATCCACATCAGAGGGAGTGAGTTGGCACTGGGCGGGGCTTCCAGGGAAGCCTCCTGGCGCTCCCTAGGTGGTGAGGCTTCTCTGACATCAACGCTGTCAGCGTTTATATACGAGAACCTCCCCACAGAAGCCTTCACTCCTGCTCACGGCCTCGTAGGCTGAGAAGTCAGCCTGGCCCTGGCTGATGAGGAAAATGGATGAATTCGCTCACCTGTGGTGCTTATGCTCCCACAGACTGTTAAATAGGCTTTGTCTGCCTGAGGATTTTAAGTACCCGTACGCTTTCCTACCTTCTAAAAACTAAATTGTGCTTACTGCATCACCAAGTCTAAAATTTGGTTCAGAGAAAGGGGTCTCCCTGCAGCTGGGATTCTGGCAGCTGTGACAGCATCTTGATGTCACCAGTGGCTGCACCTTCACAGAGTTCTGGGGAATGGCCCCACCCTTCTGGGTGTGAACACAAGAGGGACGCTGCAGCCGAGTCAACCTGGTTTTATTTTTATTTTTTAATAGTCCACCACCATTGTGGAGTATAATAAGGCCTTATTGGTGTCATCTAAAATAGTGATGGGCTGGGTGCCATGGTTTATGCCTGTAATCCCAGCACTTTGGGAGGCAGGAGGATCGCTTGAGCTCAGGAGTTTGAGACCAGCCTGGGCAACATAGCGAGACTTTGTCTGTATTAAAAAATAAAAAAAATAATTAGCTGGGCATGGTGGCATGTGCCTGTAGCCCTAACTGAGGTGGGAGGATTGCTTGAGCCTGGGAGAGGCTGCAGTGAGCTGAGATTGCACCACTGCACTCTAGCTCAGGCAACAGAGCGAGACCCTGCCCCTCCCTCCCTCTCTCCCTCTTTTCTCTTCTCTCTCTCTCTCTCTCTCAGAGTTGATACTTGTCCTAGTAAACTACTTACTCCCCCAAAATAAGTAGGGTAACTTGTTGGCATAAATAAAAGATACTTTGAAATTTAAATCCACAAAAGACGTTCTAACCCACTTATTTTAACCATCCTGGACGAATTAGAAACTGGGCAGTGTTTCTGGTGATCTGTGTCCTTGCTTTGGTGTGGGGCATGGCATGGCGGTGCCTTCGCAGCTCTGGGACTCACTTGCTCTTTTTCGTCTGCAG
Seq C2 exon
GAGCGAGCCCAGGGCGTGGTGCTGAAAGTGCTCACAAACTTCAAGAGCAGTGAGATTGAGCAGGCTGTGCAGTCACTGGACAGAAACGGCGTTGACTTGTTAATGAAGTACATTTATAAAGGCTTTGAGAAGCCCACAGAAAATAGCAGCGCAGTGTTACTCCAGTGGCACGAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000136950-ARPC5L:NM_030978:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.240 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF046999=P16-Arc=FE(16.4=100),PF093845=UTP15_C=FE(20.2=100)
A:
NA
C2:
PF046999=P16-Arc=FE(39.7=100),PF093845=UTP15_C=FE(48.7=100),PF040037=Utp12=PU(91.9=96.6)
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:
AGGGGACATGCTTCGGGC
R:
TCGTGCCACTGGAGTAACACT
Band lengths:
246-1456
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)