Variant report

Variant	rs4141840
Chromosome Location	chr10:49623677-49623678
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	chr10:49619514..49622153-chr10:49622504..49625064,2	K562	blood:

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10735224	0.94[AFR][1000 genomes]
rs10735225	0.94[AFR][1000 genomes]
rs10776599	0.94[AFR][1000 genomes]
rs10776605	1.00[CEU][hapmap]
rs10857569	1.00[CEU][hapmap]
rs10857570	1.00[CEU][hapmap]
rs11101337	1.00[CEU][hapmap]
rs1542153	1.00[EUR][1000 genomes]
rs1550774	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1814473	1.00[CEU][hapmap]
rs1867575	1.00[CEU][hapmap]
rs1881739	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1919705	1.00[CEU][hapmap];0.93[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1978998	1.00[CEU][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2590379	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2590380	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2590387	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2590388	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs2590390	0.93[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2698760	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2698765	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2698769	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3730154	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3867450	1.00[CEU][hapmap]
rs4012795	1.00[CEU][hapmap]
rs4012801	1.00[CEU][hapmap]
rs41301111	1.00[EUR][1000 genomes]
rs4281444	0.83[AFR][1000 genomes]
rs58181014	0.83[AFR][1000 genomes]
rs59377405	1.00[EUR][1000 genomes]
rs60467447	1.00[EUR][1000 genomes]
rs61343950	1.00[EUR][1000 genomes]
rs7072065	1.00[EUR][1000 genomes]
rs7073628	1.00[EUR][1000 genomes]
rs7085678	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs73293121	1.00[EUR][1000 genomes]
rs73293181	1.00[EUR][1000 genomes]
rs73293198	0.87[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73298383	1.00[EUR][1000 genomes]
rs73300395	1.00[EUR][1000 genomes]
rs74130210	0.83[EUR][1000 genomes]
rs74130216	1.00[EUR][1000 genomes]
rs7894863	0.94[AFR][1000 genomes]
rs7901179	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895371	chr10:49492075-50232180	Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases
2	nsv895372	chr10:49576878-49933488	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	nsv1039508	chr10:49595718-49654403	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:49607600-49624200	Weak transcription	Gastric	stomach
2	chr10:49607600-49624200	Weak transcription	Lung	lung
3	chr10:49607600-49647800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr10:49607600-49652400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr10:49608000-49645600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr10:49608200-49634400	Weak transcription	Rectal Mucosa Donor 31	rectum
7	chr10:49612000-49664200	Weak transcription	Thymus	Thymus
8	chr10:49612800-49660200	Weak transcription	Aorta	Aorta
9	chr10:49614800-49638400	Weak transcription	HUVEC	blood vessel
10	chr10:49617200-49624200	Weak transcription	Left Ventricle	heart
11	chr10:49619000-49664200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
12	chr10:49619600-49628000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr10:49619600-49634000	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr10:49619600-49645600	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr10:49619800-49634400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr10:49620600-49643400	Weak transcription	Brain Cingulate Gyrus	brain
17	chr10:49620800-49626000	Weak transcription	Ovary	ovary
18	chr10:49620800-49634000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr10:49620800-49634400	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr10:49620800-49643400	Weak transcription	Right Ventricle	heart
21	chr10:49620800-49646800	Weak transcription	Hela-S3	cervix
22	chr10:49620800-49647000	Weak transcription	NHDF-Ad	bronchial
23	chr10:49620800-49647600	Weak transcription	Colonic Mucosa	Colon
24	chr10:49620800-49652400	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr10:49620800-49658600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr10:49621000-49625200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
27	chr10:49621000-49638400	Weak transcription	Fetal Stomach	stomach
28	chr10:49621000-49638800	Weak transcription	Brain Germinal Matrix	brain
29	chr10:49621200-49624200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr10:49621200-49624400	Weak transcription	HSMM	muscle
31	chr10:49621200-49625000	Weak transcription	Adipose Nuclei	Adipose
32	chr10:49621200-49626000	Weak transcription	Brain Anterior Caudate	brain
33	chr10:49621200-49632000	Weak transcription	Psoas Muscle	Psoas
34	chr10:49621200-49638400	Weak transcription	Fetal Muscle Leg	muscle
35	chr10:49621200-49638800	Weak transcription	Brain Inferior Temporal Lobe	brain
36	chr10:49621200-49641600	Weak transcription	Small Intestine	intestine
37	chr10:49621200-49641800	Weak transcription	Rectal Smooth Muscle	rectum
38	chr10:49621200-49643400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
39	chr10:49621200-49647000	Weak transcription	Fetal Intestine Small	intestine
40	chr10:49621200-49647400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr10:49621200-49647800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
42	chr10:49621200-49657400	Weak transcription	Brain Hippocampus Middle	brain
43	chr10:49621400-49624000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr10:49621400-49624200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
45	chr10:49621400-49624200	Weak transcription	HSMMtube	muscle
46	chr10:49621400-49624800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr10:49621400-49625400	Weak transcription	HUES6 Cell Line	embryonic stem cell
48	chr10:49621400-49626000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
49	chr10:49621400-49631000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
50	chr10:49621400-49633200	Weak transcription	Primary B cells from cord blood	blood

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