Variant report

Variant	rs1582259
Chromosome Location	chr7:126891893-126891894
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	E2F6	chr7:126891248-126892306	H1-hESC	embryonic stem cell:	n/a	chr7:126891678-126891685 chr7:126891677-126891689 chr7:126892275-126892285 chr7:126891678-126891685 chr7:126891675-126891690 chr7:126891678-126891685
2	CTCF	chr7:126891512-126894684	SK-N-SH	brain:	n/a	chr7:126894124-126894145 chr7:126892213-126892222 chr7:126892525-126892543 chr7:126893829-126893842 chr7:126893041-126893054 chr7:126894129-126894147 chr7:126892528-126892538 chr7:126892531-126892540 chr7:126892858-126892871
3	BACH1	chr7:126891700-126892211	H1-hESC	embryonic stem cell:	n/a	n/a
4	RAD21	chr7:126891840-126895028	SK-N-SH	brain:	n/a	chr7:126894675-126894688 chr7:126893040-126893054 chr7:126892861-126892873 chr7:126894127-126894146
5	MAX	chr7:126891783-126892232	H1-hESC	embryonic stem cell:	n/a	chr7:126892102-126892112
6	E2F6	chr7:126891883-126892454	H1-hESC	embryonic stem cell:	n/a	chr7:126892275-126892285
7	TCF3	chr7:126891525-126891894	GM12878	blood:	n/a	n/a
8	ZNF263	chr7:126891685-126894553	HEK293-T-REx	kidney:	n/a	chr7:126894008-126894017 chr7:126893184-126893193 chr7:126894538-126894547
9	GATA2	chr7:126890832-126893276	SH-SY5Y	brain:	n/a	chr7:126892404-126892415
10	SUZ12	chr7:126891007-126892364	H1-hESC	embryonic stem cell:	n/a	n/a
11	CTBP2	chr7:126891260-126894159	H1-hESC	embryonic stem cell:	n/a	n/a
12	SIN3A	chr7:126891740-126894239	H1-hESC	embryonic stem cell:	n/a	chr7:126892513-126892526 chr7:126894080-126894091 chr7:126894085-126894094 chr7:126891816-126891824 chr7:126893526-126893535 chr7:126892943-126892956
13	ELF1	chr7:126891686-126892444	GM12878	blood:	n/a	chr7:126892125-126892136 chr7:126892126-126892135

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:126891429..126894759-chr7:127030328..127033331,3	K562	blood:
2	chr7:126884896..126891192-chr7:126891657..126895737,6	K562	blood:

Variant related genes	Relation type
GRM8	TF binding region
ENSG00000179603	Chromatin interaction
ENSG00000048405	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10250895	0.84[AFR][1000 genomes];0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs10255618	0.80[EUR][1000 genomes]
rs10269524	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10270765	0.84[CEU][hapmap];0.82[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11563673	0.84[YRI][hapmap];0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs11980484	0.85[CEU][hapmap]
rs12706771	0.85[CEU][hapmap];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13231840	0.85[CEU][hapmap];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1582260	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1592376	0.82[CEU][hapmap];0.85[CHB][hapmap];0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1592377	0.85[CEU][hapmap];0.82[YRI][hapmap];0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17862331	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs17862337	0.84[CEU][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17863254	0.85[CEU][hapmap];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17863259	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17867808	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3808116	0.84[YRI][hapmap]
rs4141414	0.84[CEU][hapmap];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4141415	0.84[CEU][hapmap];0.84[YRI][hapmap];0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6948480	0.85[CEU][hapmap];0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6954027	0.85[CEU][hapmap];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7776557	0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7792594	0.85[CEU][hapmap];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7793635	0.84[CEU][hapmap];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7797935	0.85[CEU][hapmap];0.80[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7800526	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes];0.82[ASN][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	nsv889189	chr7:126699088-126963028	Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv464712	chr7:126881029-126908258	Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv608380	chr7:126881029-126908258	Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv819682	chr7:126890804-126895155	Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:126890200-126894400	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
2	chr7:126890600-126892000	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 1	blood
3	chr7:126890600-126892000	Active TSS	Brain Anterior Caudate	brain
4	chr7:126890600-126892400	Active TSS	Brain Substantia Nigra	brain
5	chr7:126890600-126894400	Active TSS	Brain Angular Gyrus	brain
6	chr7:126890800-126892400	Flanking Bivalent TSS/Enh	Cortex derived primary cultured neurospheres	brain
7	chr7:126890800-126894400	Active TSS	Brain Inferior Temporal Lobe	brain
8	chr7:126891000-126892000	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
9	chr7:126891000-126892000	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
10	chr7:126891000-126892000	Bivalent Enhancer	Left Ventricle	heart
11	chr7:126891000-126892000	Bivalent Enhancer	Sigmoid Colon	Sigmoid Colon
12	chr7:126891000-126892400	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
13	chr7:126891000-126892600	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr7:126891000-126892800	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
15	chr7:126891000-126892800	Flanking Bivalent TSS/Enh	Stomach Smooth Muscle	stomach
16	chr7:126891000-126893400	Flanking Active TSS	Liver	Liver
17	chr7:126891200-126892000	Bivalent Enhancer	Primary hematopoietic stem cells	blood
18	chr7:126891200-126892000	Bivalent Enhancer	Primary T killer memory cells from peripheral blood	blood
19	chr7:126891200-126892000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
20	chr7:126891200-126892000	Bivalent Enhancer	Fetal Intestine Small	intestine
21	chr7:126891200-126892000	Bivalent Enhancer	Fetal Stomach	stomach
22	chr7:126891200-126892000	Active TSS	Rectal Mucosa Donor 31	rectum
23	chr7:126891200-126892200	Flanking Bivalent TSS/Enh	iPS DF 19.11 Cell Line	embryonic stem cell
24	chr7:126891200-126892200	Bivalent Enhancer	Placenta	Placenta
25	chr7:126891200-126892800	Bivalent/Poised TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
26	chr7:126891200-126892800	Flanking Bivalent TSS/Enh	Brain Germinal Matrix	brain
27	chr7:126891200-126892800	Flanking Bivalent TSS/Enh	Rectal Mucosa Donor 29	rectum
28	chr7:126891200-126892800	Bivalent Enhancer	Spleen	Spleen
29	chr7:126891200-126894200	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Female	--
30	chr7:126891400-126892000	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr7:126891400-126892000	Bivalent Enhancer	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
32	chr7:126891400-126892000	Bivalent/Poised TSS	Primary T cells from cord blood	blood
33	chr7:126891400-126892000	Active TSS	Brain Hippocampus Middle	brain
34	chr7:126891400-126892000	Bivalent/Poised TSS	Fetal Brain Female	brain
35	chr7:126891400-126892000	Flanking Bivalent TSS/Enh	Psoas Muscle	Psoas
36	chr7:126891400-126892000	Bivalent Enhancer	HUVEC	blood vessel
37	chr7:126891400-126892200	Bivalent/Poised TSS	ES-UCSF4 Cell Line	embryonic stem cell
38	chr7:126891400-126892200	Bivalent Enhancer	Fetal Heart	heart
39	chr7:126891400-126892400	Bivalent Enhancer	Fetal Brain Male	brain
40	chr7:126891400-126892600	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
41	chr7:126891400-126892800	Bivalent/Poised TSS	Fetal Kidney	kidney
42	chr7:126891400-126892800	Flanking Active TSS	Right Ventricle	heart
43	chr7:126891400-126893000	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
44	chr7:126891400-126894200	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
45	chr7:126891400-126894200	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr7:126891400-126894200	Active TSS	Brain Cingulate Gyrus	brain
47	chr7:126891400-126894200	Active TSS	Pancreatic Islets	Pancreatic Islet
48	chr7:126891400-126894400	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
49	chr7:126891400-126894600	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
50	chr7:126891600-126892000	Bivalent/Poised TSS	Primary T cells effector/memory enriched fromperipheralblood	blood

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