Variant report

Variant	rs10743889
Chromosome Location	chr12:10521389-10521390
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:10520202..10521817-chr12:10526312..10528193,2	K562	blood:

Extended variants
information (count: 37 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10743888	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1382265	0.81[EUR][1000 genomes]
rs1478310	0.83[EUR][1000 genomes]
rs1600127	0.81[EUR][1000 genomes]
rs2100923	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2126888	0.81[EUR][1000 genomes]
rs2126889	0.81[EUR][1000 genomes]
rs2255336	0.81[EUR][1000 genomes]
rs2255353	0.81[EUR][1000 genomes]
rs2255364	0.81[EUR][1000 genomes]
rs2417734	0.81[EUR][1000 genomes]
rs2617151	0.81[EUR][1000 genomes]
rs2617152	0.81[EUR][1000 genomes]
rs2617156	0.81[EUR][1000 genomes]
rs2617157	0.81[EUR][1000 genomes]
rs2733840	0.81[EUR][1000 genomes]
rs2733847	0.81[EUR][1000 genomes]
rs2927561	0.81[EUR][1000 genomes]
rs4764430	0.85[EUR][1000 genomes]
rs6488285	0.86[EUR][1000 genomes]
rs7307721	0.86[EUR][1000 genomes]
rs7310643	0.84[EUR][1000 genomes]
rs7397310	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7957681	0.86[EUR][1000 genomes]
rs7958658	0.86[EUR][1000 genomes]
rs7964772	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv898757	chr12:10229281-10614641	Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
2	nsv832328	chr12:10398071-10620443	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
3	nsv898759	chr12:10454556-10583365	Enhancers Weak transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	esv3432683	chr12:10470734-10527581	Genic enhancers Flanking Active TSS Weak transcription Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	esv3351751	chr12:10472734-10522269	Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv898760	chr12:10492982-10564329	Genic enhancers Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
7	nsv898761	chr12:10496724-10564329	Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
8	nsv1036390	chr12:10496724-10596720	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
9	nsv557455	chr12:10508975-10560957	Flanking Active TSS Weak transcription Genic enhancers Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
10	nsv898762	chr12:10509383-10564329	Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
11	nsv898763	chr12:10514528-10603670	Genic enhancers Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

Variant related diseases (count:1)

Disease	PMID	Source
Obesity-related traits	23251661	GWAS catalog

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10743889	KLRK1	cis	multi-tissue	Pritchard
rs10743889	KLRK1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:71 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:10518400-10537000	Weak transcription	Left Ventricle	heart
2	chr12:10518600-10521400	Enhancers	Primary T helper naive cells from peripheral blood	blood
3	chr12:10518600-10525200	Weak transcription	Lung	lung
4	chr12:10518600-10526600	Enhancers	Primary T killer memory cells from peripheral blood	blood
5	chr12:10518800-10527400	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
6	chr12:10519000-10523600	Weak transcription	Primary neutrophils fromperipheralblood	blood
7	chr12:10519000-10525200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr12:10519200-10522200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr12:10519200-10523400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr12:10519200-10523600	Weak transcription	Gastric	stomach
11	chr12:10519200-10525200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr12:10519200-10525200	Weak transcription	Spleen	Spleen
13	chr12:10519200-10525400	Weak transcription	Aorta	Aorta
14	chr12:10519400-10522200	Weak transcription	Psoas Muscle	Psoas
15	chr12:10519400-10523400	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr12:10519400-10525000	Weak transcription	Primary T helper cells fromperipheralblood	blood
17	chr12:10519400-10525000	Weak transcription	Pancreas	Pancrea
18	chr12:10519400-10525200	Weak transcription	Esophagus	oesophagus
19	chr12:10519400-10525200	Weak transcription	Right Atrium	heart
20	chr12:10519600-10522600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
21	chr12:10519600-10523000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr12:10519600-10523400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr12:10519600-10524600	Weak transcription	Rectal Mucosa Donor 29	rectum
24	chr12:10519600-10525000	Weak transcription	Primary hematopoietic stem cells	blood
25	chr12:10519600-10525000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
26	chr12:10519600-10525200	Weak transcription	Primary T helper cells PMA-I stimulated	--
27	chr12:10519600-10525200	Weak transcription	Colonic Mucosa	Colon
28	chr12:10519600-10525200	Weak transcription	Small Intestine	intestine
29	chr12:10519600-10534800	Weak transcription	Fetal Stomach	stomach
30	chr12:10519600-10547800	Weak transcription	Colon Smooth Muscle	Colon
31	chr12:10519800-10522200	Weak transcription	Placenta Amnion	Placenta Amnion
32	chr12:10519800-10524000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr12:10520000-10522200	Weak transcription	Primary T cells from cord blood	blood
34	chr12:10520000-10524000	Weak transcription	Stomach Mucosa	stomach
35	chr12:10520000-10525200	Weak transcription	Fetal Intestine Small	intestine
36	chr12:10520200-10521600	Genic enhancers	Primary T killer naive cells fromperipheralblood	blood
37	chr12:10520200-10525000	Weak transcription	Fetal Intestine Large	intestine
38	chr12:10520400-10522800	Weak transcription	Hela-S3	cervix
39	chr12:10520400-10525000	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr12:10520400-10525200	Weak transcription	Primary B cells from peripheral blood	blood
41	chr12:10520600-10522200	Weak transcription	NHEK	skin
42	chr12:10520800-10521400	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr12:10520800-10521400	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr12:10520800-10521400	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
45	chr12:10520800-10521600	Active TSS	Skeletal Muscle Female	skeletal muscle
46	chr12:10520800-10521800	Enhancers	Adipose Nuclei	Adipose
47	chr12:10521000-10521400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
48	chr12:10521000-10521400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
49	chr12:10521000-10521400	Active TSS	Ovary	ovary
50	chr12:10521000-10521400	Active TSS	Stomach Smooth Muscle	stomach

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