Variant report

Variant	rs7093562
Chromosome Location	chr10:23728182-23728183
allele	C/T
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	USF1	chr10:23727327-23728309	HCT-116	colon:	n/a	chr10:23728075-23728091 chr10:23728078-23728094 chr10:23728103-23728119 chr10:23728076-23728092 chr10:23728100-23728116
2	POLR2A	chr10:23727513-23728293	A549	lung:	n/a	n/a
3	POLR2A	chr10:23727416-23728387	HUVEC	blood vessel:	n/a	n/a
4	YY1	chr10:23727930-23728368	GM12891	blood:	n/a	chr10:23728301-23728315 chr10:23727987-23728001 chr10:23728080-23728094 chr10:23728171-23728180 chr10:23728105-23728119
5	TEAD4	chr10:23727476-23728206	H1-hESC	embryonic stem cell:	n/a	n/a
6	MAX	chr10:23727322-23728295	HCT-116	colon:	n/a	chr10:23727741-23727750 chr10:23727739-23727748 chr10:23727885-23727895 chr10:23727738-23727749
7	POLR2A	chr10:23727951-23728244	SK-N-SH	brain:	n/a	n/a
8	POLR2A	chr10:23727399-23728333	A549	lung:	n/a	n/a
9	HEY1	chr10:23727965-23728182	HepG2	liver:	n/a	chr10:23728080-23728095 chr10:23728077-23728092 chr10:23728105-23728120
10	ELF1	chr10:23727341-23728271	GM12878	blood:	n/a	chr10:23728078-23728090 chr10:23727997-23728009
11	POLR2A	chr10:23726898-23730348	Hela-S3	cervix:	n/a	n/a
12	MAZ	chr10:23727561-23729659	Hela-S3	cervix:	n/a	chr10:23727741-23727750 chr10:23727739-23727748 chr10:23727885-23727895 chr10:23727738-23727749
13	POLR2A	chr10:23727547-23728314	HCT-116	colon:	n/a	n/a
14	RAD21	chr10:23727487-23728246	IMR90	lung:	n/a	chr10:23728076-23728090 chr10:23728080-23728094 chr10:23728174-23728184
15	BHLHE40	chr10:23727520-23728272	GM12878	blood:	n/a	chr10:23728075-23728091 chr10:23728078-23728094 chr10:23728103-23728119 chr10:23728076-23728092 chr10:23728100-23728116
16	HEY1	chr10:23727501-23728252	HepG2	liver:	n/a	chr10:23727868-23727883 chr10:23728080-23728095 chr10:23728077-23728092 chr10:23728105-23728120
17	JUN	chr10:23727117-23728446	K562	blood:	n/a	chr10:23728172-23728181 chr10:23727990-23727999 chr10:23728052-23728061
18	MAX	chr10:23727374-23728375	K562	blood:	n/a	chr10:23727741-23727750 chr10:23727739-23727748 chr10:23727885-23727895 chr10:23727738-23727749
19	CTCF	chr10:23728084-23728185	Fibrobl	skin:	n/a	chr10:23728102-23728115
20	E2F6	chr10:23727545-23728193	K562	blood:	n/a	chr10:23728108-23728117 chr10:23728168-23728180 chr10:23728171-23728180 chr10:23727864-23727873 chr10:23727744-23727756 chr10:23727989-23727998 chr10:23727745-23727756
21	BCLAF1	chr10:23727438-23728265	GM12878	blood:	n/a	chr10:23728075-23728088 chr10:23728076-23728089 chr10:23728171-23728184 chr10:23728078-23728091 chr10:23728081-23728094
22	POLR2A	chr10:23727446-23729586	GM19193	blood:	n/a	n/a
23	MAX	chr10:23727534-23728233	NB4	blood:	n/a	chr10:23727741-23727750 chr10:23727739-23727748 chr10:23727885-23727895 chr10:23727738-23727749
24	RCOR1	chr10:23727522-23728243	HepG2	liver:	n/a	n/a
25	TBP	chr10:23727515-23728455	K562	blood:	n/a	n/a
26	TAF1	chr10:23727496-23728218	HepG2	liver:	n/a	n/a
27	POLR2A	chr10:23727501-23729557	GM12878	blood:	n/a	n/a
28	RAD21	chr10:23727852-23728314	H1-hESC	embryonic stem cell:	n/a	chr10:23728076-23728090 chr10:23728080-23728094 chr10:23728174-23728184
29	MAX	chr10:23727338-23728278	HCT-116	colon:	n/a	chr10:23727741-23727750 chr10:23727739-23727748 chr10:23727885-23727895 chr10:23727738-23727749
30	POLR2A	chr10:23727396-23728403	ProgFib	skin:	n/a	n/a
31	RUNX3	chr10:23727437-23728351	GM12878	blood:	n/a	n/a
32	HEY1	chr10:23727527-23728270	K562	blood:	n/a	chr10:23727868-23727883 chr10:23728080-23728095 chr10:23728077-23728092 chr10:23728105-23728120
33	POLR2A	chr10:23727586-23728425	HUVEC	blood vessel:	n/a	n/a
34	ELF1	chr10:23727449-23728281	GM12878	blood:	n/a	chr10:23728078-23728090 chr10:23727997-23728009
35	CREB1	chr10:23727647-23728250	H1-hESC	embryonic stem cell:	n/a	n/a
36	HCFC1	chr10:23727405-23728564	Hela-S3	cervix:	n/a	n/a
37	CTCF	chr10:23728160-23728310	GM12872	blood:	n/a	n/a
38	TCF12	chr10:23727400-23728416	ECC-1	luminal epithelium:	n/a	chr10:23728190-23728200
39	ESR1	chr10:23728089-23728393	ECC-1	luminal epithelium:	n/a	n/a
40	SIN3AK20	chr10:23727827-23728295	K562	blood:	n/a	n/a
41	RCOR1	chr10:23727564-23728588	K562	blood:	n/a	n/a
42	FOXP2	chr10:23727588-23728408	PFSK-1	brain:	n/a	n/a
43	E2F4	chr10:23727618-23728196	K562	blood:	n/a	chr10:23728108-23728117 chr10:23728168-23728180 chr10:23728171-23728180 chr10:23727864-23727873 chr10:23727744-23727756 chr10:23727989-23727998
44	CTCF	chr10:23728060-23728210	GM12874	blood:	n/a	chr10:23728102-23728115
45	CTCF	chr10:23728040-23728190	GM12864	blood:	n/a	chr10:23728102-23728115
46	FOXP2	chr10:23727570-23728189	PFSK-1	brain:	n/a	n/a
47	POLR2A	chr10:23727513-23728948	H1-neurons	neurons:	n/a	n/a
48	POLR2A	chr10:23727309-23728290	GM12891	blood:	n/a	n/a
49	POLR2A	chr10:23727486-23728416	H1-hESC	embryonic stem cell:	n/a	n/a
50	CTCF	chr10:23727970-23728201	K562	blood:	n/a	chr10:23728102-23728115

No.	Distal block	Cell Line	Cell type
1	chr10:23727668..23728613-chr16:56965645..56966488,2	Hela-S3	cervix:
2	chr10:23727770..23728754-chr6:170125045..170126039,2	Hela-S3	cervix:
3	chr10:23631888..23635089-chr10:23727661..23730060,4	MCF-7	breast:

Variant related genes	Relation type
OTUD1	TF binding region
ENSG00000224215	Chromatin interaction
ENSG00000227704	Chromatin interaction
ENSG00000179133	Chromatin interaction
ENSG00000232640	Chromatin interaction
ENSG00000051108	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs1995981	0.83[AFR][1000 genomes]
rs7097167	0.94[AFR][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	nsv825305	chr10:23698620-23740919	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv975033	chr10:23726218-23738848	Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
3	esv3407210	chr10:23727196-23730019	Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
4	esv3372977	chr10:23727571-23730319	Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:23727000-23728400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
2	chr10:23727200-23728400	Active TSS	ES-I3 Cell Line	embryonic stem cell
3	chr10:23727200-23729000	Active TSS	Thymus	Thymus
4	chr10:23727200-23729200	Active TSS	H1 Cell Line	embryonic stem cell
5	chr10:23727200-23729200	Active TSS	HUES6 Cell Line	embryonic stem cell
6	chr10:23727200-23729200	Active TSS	HUES64 Cell Line	embryonic stem cell
7	chr10:23727200-23729200	Active TSS	iPS-15b Cell Line	embryonic stem cell
8	chr10:23727200-23729200	Active TSS	iPS-18 Cell Line	embryonic stem cell
9	chr10:23727200-23729200	Active TSS	iPS-20b Cell Line	embryonic stem cell
10	chr10:23727200-23729400	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr10:23727200-23729400	Active TSS	Brain Cingulate Gyrus	brain
12	chr10:23727200-23729400	Active TSS	Fetal Brain Female	brain
13	chr10:23727200-23729800	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr10:23727200-23729800	Active TSS	Stomach Smooth Muscle	stomach
15	chr10:23727200-23730000	Active TSS	Colon Smooth Muscle	Colon
16	chr10:23727200-23730200	Active TSS	Colonic Mucosa	Colon
17	chr10:23727200-23730600	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr10:23727200-23731400	Active TSS	HSMMtube	muscle
19	chr10:23727200-23731600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
20	chr10:23727200-23731800	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr10:23727400-23728200	Active TSS	Brain Germinal Matrix	brain
22	chr10:23727400-23729000	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr10:23727400-23729000	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr10:23727400-23729000	Active TSS	Primary hematopoietic stem cells	blood
25	chr10:23727400-23729000	Active TSS	Cortex derived primary cultured neurospheres	brain
26	chr10:23727400-23729200	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr10:23727400-23729200	Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr10:23727400-23729200	Active TSS	HUES48 Cell Line	embryonic stem cell
29	chr10:23727400-23729200	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
30	chr10:23727400-23729200	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr10:23727400-23729200	Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
32	chr10:23727400-23729200	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr10:23727400-23729200	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr10:23727400-23729200	Active TSS	Pancreas	Pancrea
35	chr10:23727400-23729200	Active TSS	HepG2	liver
36	chr10:23727400-23729200	Active TSS	NH-A	brain
37	chr10:23727400-23729400	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr10:23727400-23729400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr10:23727400-23729400	Active TSS	Primary T cells from cord blood	blood
40	chr10:23727400-23729400	Active TSS	Primary T helper memory cells from peripheral blood 2	blood
41	chr10:23727400-23729400	Active TSS	Primary T helper memory cells from peripheral blood 1	blood
42	chr10:23727400-23729400	Active TSS	Primary T killer naive cells fromperipheralblood	blood
43	chr10:23727400-23729400	Active TSS	Brain Angular Gyrus	brain
44	chr10:23727400-23729400	Active TSS	Esophagus	oesophagus
45	chr10:23727400-23729400	Active TSS	Fetal Stomach	stomach
46	chr10:23727400-23729400	Active TSS	Placenta Amnion	Placenta Amnion
47	chr10:23727400-23729400	Active TSS	Rectal Mucosa Donor 29	rectum
48	chr10:23727400-23729400	Active TSS	Sigmoid Colon	Sigmoid Colon
49	chr10:23727400-23729400	Active TSS	A549	lung
50	chr10:23727400-23729400	Active TSS	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links