Variant report

Variant	rs10202871
Chromosome Location	chr2:112898848-112898849
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:112896674..112899558-chr2:113471538..113473155,2	K562	blood:
2	chr2:112898707..112900411-chr2:112905803..112908114,2	MCF-7	breast:

Extended variants
information (count: 49 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10084408	1.00[GIH][hapmap]
rs10166396	0.82[CEU][hapmap];1.00[ASN][1000 genomes]
rs10174680	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10180086	1.00[GIH][hapmap]
rs10181117	1.00[GIH][hapmap]
rs10182451	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10185224	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10185747	1.00[GIH][hapmap]
rs10190845	1.00[ASN][1000 genomes]
rs10201778	1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs10205793	1.00[GIH][hapmap]
rs10206255	1.00[GIH][hapmap]
rs10211152	1.00[GIH][hapmap]
rs12328678	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1317633	1.00[ASN][1000 genomes]
rs13387346	1.00[GIH][hapmap]
rs13402707	1.00[GIH][hapmap]
rs13404771	1.00[GIH][hapmap]
rs13418394	1.00[GIH][hapmap]
rs13422534	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13432863	1.00[GIH][hapmap]
rs17041977	1.00[ASN][1000 genomes]
rs2230517	1.00[GIH][hapmap]
rs2312695	1.00[ASN][1000 genomes]
rs35586251	1.00[ASN][1000 genomes]
rs4849052	1.00[ASN][1000 genomes]
rs55958600	1.00[ASN][1000 genomes]
rs56090586	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56106340	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56166956	1.00[ASN][1000 genomes]
rs56371451	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs66470738	1.00[ASN][1000 genomes]
rs6723394	1.00[GIH][hapmap]
rs72829697	1.00[ASN][1000 genomes]
rs72831604	1.00[ASN][1000 genomes]
rs72831605	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72831609	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72831611	1.00[ASN][1000 genomes]
rs72831613	1.00[ASN][1000 genomes]
rs72831616	1.00[ASN][1000 genomes]
rs72831617	1.00[ASN][1000 genomes]
rs72831618	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv874863	chr2:112591224-113157344	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv874864	chr2:112617280-113104142	Strong transcription Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
3	nsv874865	chr2:112623098-113049274	Enhancers Genic enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
4	nsv1013218	chr2:112645633-112908416	Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
5	nsv1014787	chr2:112679182-112908416	Flanking Active TSS Weak transcription Bivalent Enhancer Enhancers Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
6	nsv535893	chr2:112679182-112908416	Strong transcription ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	19 gene(s)	inside rSNPs	diseases
7	esv3422414	chr2:112883450-113200285	Strong transcription Weak transcription Bivalent Enhancer Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10202871	MERTK	cis	lymphoblastoid	seeQTL

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:112896400-112934600	Weak transcription	Aorta	Aorta
2	chr2:112896800-112907000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr2:112898000-112907000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr2:112898200-112899000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr2:112898200-112899600	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr2:112898200-112899600	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr2:112898200-112899800	Weak transcription	Lung	lung
8	chr2:112898200-112900800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr2:112898200-112906200	Weak transcription	Right Atrium	heart
10	chr2:112898200-112915000	Weak transcription	Pancreas	Pancrea
11	chr2:112898400-112899000	Enhancers	Cortex derived primary cultured neurospheres	brain
12	chr2:112898400-112899200	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr2:112898400-112900000	Weak transcription	Fetal Muscle Leg	muscle
14	chr2:112898400-112905000	Weak transcription	Osteobl	bone
15	chr2:112898400-112907400	Weak transcription	NHLF	lung
16	chr2:112898800-112899000	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
17	chr2:112898800-112899000	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr2:112898800-112899000	Flanking Bivalent TSS/Enh	Fetal Muscle Trunk	muscle
19	chr2:112898800-112899200	Enhancers	HepG2	liver
20	chr2:112898800-112899400	Genic enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr2:112898800-112899400	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr2:112898800-112902400	Weak transcription	NHDF-Ad	bronchial
23	chr2:112898800-112906200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links