Variant report

Variant	rs61708145
Chromosome Location	chr3:140697159-140697160
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:140658522..140661250-chr3:140695108..140698043,2	K562	blood:

Variant related genes	Relation type
ENSG00000114120	Chromatin interaction

Extended variants
information (count: 83 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:82)

rs_ID	r²[population]
rs1047330	0.85[ASN][1000 genomes]
rs1056126	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1056127	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10935413	0.87[ASN][1000 genomes]
rs10935414	0.87[ASN][1000 genomes]
rs1109282	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1109283	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11707116	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11710204	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11710926	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11711131	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11713505	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11713816	0.87[ASN][1000 genomes]
rs11714438	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11715248	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11717097	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11717620	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11718040	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11718539	0.89[ASN][1000 genomes]
rs11718563	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11720342	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12489397	0.89[ASN][1000 genomes]
rs13063450	0.86[ASN][1000 genomes]
rs13099706	0.86[ASN][1000 genomes]
rs1568337	0.89[ASN][1000 genomes]
rs1593624	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16850915	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16850917	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16850921	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16850924	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs16850926	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2081662	0.86[ASN][1000 genomes]
rs2292919	0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2311491	0.84[ASN][1000 genomes]
rs2555702	0.89[ASN][1000 genomes]
rs2555707	0.89[ASN][1000 genomes]
rs2871615	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs35140461	0.89[ASN][1000 genomes]
rs3755764	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3755765	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3773835	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3773837	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3773838	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4380393	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4524250	0.88[ASN][1000 genomes]
rs4528914	0.84[ASN][1000 genomes]
rs4538351	0.85[ASN][1000 genomes]
rs57151068	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57526660	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57799705	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59128309	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59221985	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61052022	0.92[EUR][1000 genomes]
rs61151473	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61629363	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6439962	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6439964	0.86[ASN][1000 genomes]
rs6764740	0.84[ASN][1000 genomes]
rs6770562	0.83[ASN][1000 genomes]
rs6772634	0.86[ASN][1000 genomes]
rs6773249	0.86[ASN][1000 genomes]
rs6785007	0.89[ASN][1000 genomes]
rs6785892	0.86[ASN][1000 genomes]
rs6788711	0.86[ASN][1000 genomes]
rs6789045	0.83[ASN][1000 genomes]
rs6789116	0.84[ASN][1000 genomes]
rs6797079	0.86[ASN][1000 genomes]
rs6810200	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72991025	0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs72991046	1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7621150	0.89[ASN][1000 genomes]
rs7626525	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7632043	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7638206	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7643287	0.89[ASN][1000 genomes]
rs7643434	0.89[ASN][1000 genomes]
rs7643614	0.89[ASN][1000 genomes]
rs7644725	0.89[ASN][1000 genomes]
rs7649116	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs765990	0.86[ASN][1000 genomes]
rs877142	0.89[ASN][1000 genomes]
rs957093	0.84[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv591865	chr3:140396022-140728850	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs61708145	SLC25A36	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:140661800-140697200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:140663400-140697400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr3:140664200-140703800	Weak transcription	Aorta	Aorta
4	chr3:140665400-140698400	Weak transcription	Brain Germinal Matrix	brain
5	chr3:140665800-140697600	Weak transcription	Gastric	stomach
6	chr3:140670000-140697200	Weak transcription	Esophagus	oesophagus
7	chr3:140670600-140698200	Weak transcription	Spleen	Spleen
8	chr3:140672200-140699000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr3:140672800-140698800	Weak transcription	Right Ventricle	heart
10	chr3:140672800-140700000	Weak transcription	Small Intestine	intestine
11	chr3:140673400-140698800	Weak transcription	Rectal Smooth Muscle	rectum
12	chr3:140673400-140700200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr3:140673600-140699000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
14	chr3:140674400-140697200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
15	chr3:140675000-140697600	Weak transcription	Primary neutrophils fromperipheralblood	blood
16	chr3:140675200-140699000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr3:140675600-140698200	Weak transcription	Pancreas	Pancrea
18	chr3:140679800-140697200	Weak transcription	Brain Substantia Nigra	brain
19	chr3:140679800-140699000	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr3:140679800-140699600	Weak transcription	Left Ventricle	heart
21	chr3:140680000-140697600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr3:140680000-140698600	Weak transcription	HSMMtube	muscle
23	chr3:140680000-140699200	Weak transcription	Stomach Smooth Muscle	stomach
24	chr3:140680000-140699600	Weak transcription	NHEK	skin
25	chr3:140690200-140697800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr3:140691600-140697600	Strong transcription	HUES64 Cell Line	embryonic stem cell
27	chr3:140692000-140697200	Strong transcription	Skeletal Muscle Female	skeletal muscle
28	chr3:140692000-140697400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr3:140692000-140697400	Strong transcription	Duodenum Smooth Muscle	Duodenum
30	chr3:140692000-140697600	Strong transcription	HUES48 Cell Line	embryonic stem cell
31	chr3:140692000-140697800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
32	chr3:140692000-140699000	Strong transcription	HSMM	muscle
33	chr3:140692200-140697400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr3:140692200-140697400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr3:140692200-140697400	Strong transcription	Rectal Mucosa Donor 29	rectum
36	chr3:140692200-140697600	Strong transcription	Primary monocytes fromperipheralblood	blood
37	chr3:140692200-140697600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr3:140692200-140697600	Strong transcription	Duodenum Mucosa	Duodenum
39	chr3:140692200-140698000	Strong transcription	iPS-18 Cell Line	embryonic stem cell
40	chr3:140692400-140697200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr3:140692400-140697200	Strong transcription	Fetal Brain Female	brain
42	chr3:140692600-140697400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr3:140692600-140697400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr3:140692600-140697400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr3:140692600-140697400	Strong transcription	NH-A	brain
46	chr3:140692600-140698600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
47	chr3:140692800-140698200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr3:140693000-140699800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr3:140693200-140698600	Weak transcription	Brain Hippocampus Middle	brain
50	chr3:140693200-140698600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links