Variant report

Variant	rs2861381
Chromosome Location	chr3:141546876-141546877
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs11920081	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4234469	0.91[CEU][hapmap];0.85[EUR][1000 genomes]
rs4337623	0.93[EUR][1000 genomes]
rs4683627	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7625423	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7637770	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9819437	0.92[EUR][1000 genomes]
rs9835447	0.93[EUR][1000 genomes]
rs9835566	0.92[CEU][hapmap];0.89[TSI][hapmap];0.84[EUR][1000 genomes]
rs9881983	0.95[CEU][hapmap];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949709	chr3:141295050-142178144	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	nsv1013352	chr3:141541105-141870293	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs2861381	RBP2	cis	parietal	SCAN
rs2861381	RNF7	Cis_1M	lymphoblastoid	RTeQTL
rs2861381	RASA2	cis	parietal	SCAN

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141534800-141547800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:141539800-141547000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr3:141544800-141547000	Weak transcription	NHEK	skin
4	chr3:141544800-141547200	Weak transcription	HMEC	breast
5	chr3:141544800-141547200	Weak transcription	HSMM	muscle
6	chr3:141544800-141547800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr3:141544800-141547800	Weak transcription	Adipose Nuclei	Adipose
8	chr3:141544800-141547800	Weak transcription	Esophagus	oesophagus
9	chr3:141544800-141550800	Weak transcription	Right Atrium	heart
10	chr3:141545000-141547000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr3:141545000-141547200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr3:141545000-141547200	Weak transcription	Fetal Muscle Leg	muscle
13	chr3:141545000-141547800	Weak transcription	Psoas Muscle	Psoas
14	chr3:141545600-141547200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr3:141545800-141547000	Weak transcription	Hela-S3	cervix
16	chr3:141546000-141548200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
17	chr3:141546200-141548400	Enhancers	HUES48 Cell Line	embryonic stem cell
18	chr3:141546400-141548400	Enhancers	iPS-18 Cell Line	embryonic stem cell
19	chr3:141546800-141548000	Enhancers	H1 Cell Line	embryonic stem cell

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

what's new

Quick links