HsaALTA0009846-2/2 @ hg19
Alternative 3'ss
Gene
ENSG00000118156 | ZNF541
Description
zinc finger protein 541 [Source:HGNC Symbol;Acc:25294]
Coordinates
chr19:48044150-48049237:-
Coord C1 exon
chr19:48047383-48049237
Coord A exon
chr19:48044209-48044226
Coord C2 exon
chr19:48044150-48044208
Length
18 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
TTTTGGATGTGTTGGTTCAGATG
3' ss Score
6.15
Exon sequences
Seq C1 exon
CCAGAGAGGCCTCCCCCGGCAGCACGAGACGAGACGCAAAGGGGGGACTGAAAGTGGCCGCGGTTCCAACGCCCCTTGCAGCACCGTCTCTGGACCCTTCCAGGAATCCAGACATCTCTTCTCTGGCCAAGCAGCTGCGATCCTCTAAAGGGACCTTGGACCTGGAGGACATCTTCCCCTCCACAGGCCAACGGCAGACCCAGTTAGGTGGGGAGGAGCCACCAGGAGCCTCGCTGCCAGGGAAGCAGGCCCCAGCCGAGAATGGCGCGGCTTCAAGGATCACAAAAGGTGAAAAGGGCCCAGCCTGCTCCCGGGGTGGAGGCTACCGGCTCTTGGGCAACCCCAGGGCCCCGCGATTCTCCGGCTTCCGGAAAGAGAAGGCGAAGATGGATATGTGCTGTGCGGCTTCTCCGAGCCAGGTAGCCATGGCCTCCTTCTCATCGGCCGGGCCCCCGGCAGATCCCTCCAAGTCCAAGCTGACAATATTCAGCAGAATCCAG
Seq A exon
ATGCATTTTCATCTTCAG
Seq C2 exon
GGTGGAAACATCTACAGGCTCCCCCATCCGGTGAAGGAAGAGAATGTGGCAGGCAGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000118156-2-4,2-3-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.817 A=NA C2=0.840
Domain overlap (PFAM):
C1:
PF0009621=zf-C2H2=PD(30.4=1.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAGCCATGGCCTCCTTCTCAT
R:
GATGGGGGAGCCTGTAGATGT
Band lengths:
108-126
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)