Variant report

Variant	rs59371712
Chromosome Location	chr15:41406334-41406335
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:41404323..41407208-chr15:41574690..41577351,2	K562	blood:
2	chr15:40875804..40877878-chr15:41405943..41408049,2	K562	blood:
3	chr15:41396638..41398634-chr15:41406036..41407580,2	K562	blood:

Variant related genes	Relation type
ENSG00000247556	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs16971507	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28505814	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2927057	0.85[AMR][1000 genomes]
rs4924530	0.83[AMR][1000 genomes]
rs56088876	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs566929	0.85[AMR][1000 genomes]
rs58451492	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58952535	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs691160	1.00[AMR][1000 genomes]
rs7162972	1.00[AMR][1000 genomes]
rs7172558	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7172580	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7173284	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74012203	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74012218	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74012221	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74014744	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74014746	1.00[AMR][1000 genomes]
rs74014747	0.85[AMR][1000 genomes]
rs74014749	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8024014	0.83[AMR][1000 genomes]
rs8026099	1.00[AMR][1000 genomes]
rs8027150	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv569229	chr15:41361138-41483682	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases
2	nsv904107	chr15:41361138-41493013	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	38 gene(s)	inside rSNPs	diseases
3	nsv569230	chr15:41384649-41483682	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	36 gene(s)	inside rSNPs	diseases
4	nsv904108	chr15:41384649-41486990	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	37 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41361200-41407200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr15:41383200-41406800	Weak transcription	A549	lung
3	chr15:41383800-41407400	Weak transcription	Esophagus	oesophagus
4	chr15:41384000-41407400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr15:41384400-41407400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr15:41386200-41407400	Weak transcription	Aorta	Aorta
7	chr15:41386600-41407400	Weak transcription	Colonic Mucosa	Colon
8	chr15:41386800-41406800	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr15:41386800-41406800	Weak transcription	Right Ventricle	heart
10	chr15:41386800-41407000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
11	chr15:41386800-41407200	Weak transcription	HSMMtube	muscle
12	chr15:41386800-41407400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr15:41387200-41406600	Weak transcription	Pancreas	Pancrea
14	chr15:41387400-41407200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr15:41388000-41406600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr15:41388200-41406600	Weak transcription	Adipose Nuclei	Adipose
17	chr15:41388400-41406400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
18	chr15:41388600-41406600	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr15:41388600-41406600	Weak transcription	Ovary	ovary
20	chr15:41388600-41406600	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr15:41388600-41406800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr15:41388600-41406800	Weak transcription	Brain Inferior Temporal Lobe	brain
23	chr15:41388600-41406800	Weak transcription	Fetal Brain Female	brain
24	chr15:41388600-41406800	Weak transcription	Fetal Lung	lung
25	chr15:41388600-41407000	Weak transcription	Duodenum Smooth Muscle	Duodenum
26	chr15:41388600-41407000	Weak transcription	Fetal Kidney	kidney
27	chr15:41388600-41407200	Weak transcription	H1 Cell Line	embryonic stem cell
28	chr15:41388600-41407200	Weak transcription	Brain Anterior Caudate	brain
29	chr15:41388600-41407400	Weak transcription	Sigmoid Colon	Sigmoid Colon
30	chr15:41388800-41406800	Weak transcription	Rectal Smooth Muscle	rectum
31	chr15:41388800-41407000	Weak transcription	Brain Cingulate Gyrus	brain
32	chr15:41388800-41407000	Weak transcription	Fetal Intestine Large	intestine
33	chr15:41389000-41406600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr15:41389000-41406800	Weak transcription	HMEC	breast
35	chr15:41389200-41406800	Weak transcription	Skeletal Muscle Male	skeletal muscle
36	chr15:41389800-41406800	Weak transcription	Stomach Smooth Muscle	stomach
37	chr15:41391000-41407400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr15:41391600-41407000	Weak transcription	Primary neutrophils fromperipheralblood	blood
39	chr15:41392000-41406400	Weak transcription	Liver	Liver
40	chr15:41392000-41406800	Weak transcription	Rectal Mucosa Donor 29	rectum
41	chr15:41395600-41406600	Weak transcription	Brain Substantia Nigra	brain
42	chr15:41395600-41407200	Weak transcription	HSMM	muscle
43	chr15:41396000-41407000	Weak transcription	NHDF-Ad	bronchial
44	chr15:41397400-41406600	Weak transcription	HUVEC	blood vessel
45	chr15:41397400-41406800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr15:41397600-41406600	Weak transcription	Primary B cells from cord blood	blood
47	chr15:41398600-41407200	Weak transcription	Small Intestine	intestine
48	chr15:41398800-41407000	Weak transcription	Brain Angular Gyrus	brain
49	chr15:41398800-41407000	Weak transcription	NHLF	lung
50	chr15:41398800-41407200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links