Variant report

Variant	rs56737983
Chromosome Location	chr12:50138465-50138466
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:50134227..50139526-chr12:50218668..50224471,9	K562	blood:
2	chr12:50137650..50140394-chr12:50217891..50219857,2	MCF-7	breast:
3	chr12:50126958..50129574-chr12:50137567..50139944,2	K562	blood:
4	chr12:50137626..50141652-chr12:50149897..50153012,3	K562	blood:
5	chr12:50134112..50135645-chr12:50137455..50138993,2	MCF-7	breast:
6	chr12:50133925..50140140-chr12:50217980..50223924,8	K562	blood:
7	chr12:50096479..50103459-chr12:50133671..50138995,13	K562	blood:

Variant related genes	Relation type
ENSG00000139644	Chromatin interaction
ENSG00000167566	Chromatin interaction
ENSG00000258057	Chromatin interaction
ENSG00000161791	Chromatin interaction
ENSG00000257570	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs1012874	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10506287	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10506288	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11169126	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11169143	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11169145	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11830696	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11836837	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11837639	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12306422	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12306430	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12306481	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12307828	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12313354	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12315524	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12317778	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1317131	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17123764	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17123927	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17123970	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1993398	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2336447	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4641552	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55637397	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56743994	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56906356	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56945609	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57291131	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58756176	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59261129	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60094911	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60126713	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60415769	0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60613973	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61281663	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7298080	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74086911	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74087113	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74087134	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74087188	0.92[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs74089557	0.86[ASN][1000 genomes]
rs74089564	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74089566	1.00[ASN][1000 genomes]
rs74089570	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs74089573	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7487779	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7487854	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7953412	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7964320	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7967073	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7968302	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7970674	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7971176	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7971369	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7973498	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9805063	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][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	nsv1045327	chr12:49975040-50551375	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	170 gene(s)	inside rSNPs	diseases
2	nsv541490	chr12:49975040-50551375	Weak transcription Transcr. at gene 5' and 3' Enhancers Genic enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	170 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:50136400-50138800	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr12:50136400-50140800	Weak transcription	Gastric	stomach
3	chr12:50136600-50138600	Enhancers	Small Intestine	intestine
4	chr12:50136600-50139000	Flanking Active TSS	Liver	Liver
5	chr12:50136600-50146400	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr12:50136800-50138600	Enhancers	Brain Angular Gyrus	brain
7	chr12:50136800-50138600	Transcr. at gene 5' and 3'	NHEK	skin
8	chr12:50136800-50139000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr12:50136800-50139000	Genic enhancers	Primary B cells from cord blood	blood
10	chr12:50136800-50144200	Enhancers	Primary T helper naive cells from peripheral blood	blood
11	chr12:50136800-50146600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
12	chr12:50137000-50138600	Enhancers	Brain Anterior Caudate	brain
13	chr12:50137000-50138600	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
14	chr12:50137000-50138800	Enhancers	Rectal Smooth Muscle	rectum
15	chr12:50137000-50139200	Enhancers	Brain Cingulate Gyrus	brain
16	chr12:50137000-50139200	Enhancers	Colon Smooth Muscle	Colon
17	chr12:50137000-50142000	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr12:50137000-50142200	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr12:50137000-50143800	Weak transcription	Colonic Mucosa	Colon
20	chr12:50137000-50146200	Weak transcription	HSMMtube	muscle
21	chr12:50137000-50147000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr12:50137200-50138600	Transcr. at gene 5' and 3'	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr12:50137200-50138600	Transcr. at gene 5' and 3'	Dnd41	blood
24	chr12:50137200-50138800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr12:50137200-50139000	Genic enhancers	Brain Hippocampus Middle	brain
26	chr12:50137200-50139000	Enhancers	Skeletal Muscle Male	skeletal muscle
27	chr12:50137200-50139200	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr12:50137200-50139200	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
29	chr12:50137200-50139200	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr12:50137200-50140200	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood
31	chr12:50137200-50146200	Weak transcription	Placenta Amnion	Placenta Amnion
32	chr12:50137200-50152000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr12:50137400-50138600	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
34	chr12:50137400-50138800	Enhancers	Osteobl	bone
35	chr12:50137400-50139200	Enhancers	Duodenum Smooth Muscle	Duodenum
36	chr12:50137400-50140800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr12:50137400-50140800	Enhancers	Adipose Nuclei	Adipose
38	chr12:50137400-50141200	Enhancers	Primary T helper cells fromperipheralblood	blood
39	chr12:50137400-50142000	Weak transcription	HUES6 Cell Line	embryonic stem cell
40	chr12:50137400-50143200	Strong transcription	Fetal Thymus	thymus
41	chr12:50137400-50146400	Weak transcription	H1 Cell Line	embryonic stem cell
42	chr12:50137400-50146400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
43	chr12:50137400-50146600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
44	chr12:50137400-50150800	Weak transcription	Fetal Brain Male	brain
45	chr12:50137600-50138600	Strong transcription	Fetal Muscle Trunk	muscle
46	chr12:50137600-50138600	Transcr. at gene 5' and 3'	K562	blood
47	chr12:50137600-50138600	Weak transcription	NHLF	lung
48	chr12:50137600-50138800	Enhancers	Fetal Intestine Small	intestine
49	chr12:50137600-50139000	Genic enhancers	A549	lung
50	chr12:50137600-50139000	Transcr. at gene 5' and 3'	GM12878-XiMat	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links