Variant report

Variant	rs2332654
Chromosome Location	chr4:174088399-174088400
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:1 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr4:174087536-174088638	PANC-1	pancreas:	n/a	n/a

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr4:174087023..174089565-chr4:174159233..174161373,2	MCF-7	breast:
2	chr4:174046313..174049132-chr4:174086110..174088705,2	K562	blood:
3	chr4:174080088..174082274-chr4:174088293..174089862,2	MCF-7	breast:
4	chr4:174087322..174089631-chr4:174102847..174104512,2	K562	blood:
5	chr4:174088355..174091772-chr4:174254077..174258410,8	K562	blood:
6	chr4:174072381..174074317-chr4:174086673..174089260,2	K562	blood:
7	chr4:174084331..174086204-chr4:174086936..174089803,3	MCF-7	breast:

No data

Variant related genes	Relation type
GALNT7	TF binding region
ENSG00000164104	Chromatin interaction

Extended variants
information (count: 42 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10011724	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10027708	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10031414	0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1006002	0.95[ASN][1000 genomes]
rs1006003	0.95[ASN][1000 genomes]
rs1054496	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1054497	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11737748	0.90[EUR][1000 genomes]
rs12503939	0.85[EUR][1000 genomes]
rs12639929	0.86[EUR][1000 genomes]
rs12644699	0.88[EUR][1000 genomes]
rs13111572	0.86[EUR][1000 genomes]
rs13125240	0.86[EUR][1000 genomes]
rs13138282	0.90[EUR][1000 genomes]
rs1574314	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17322893	0.90[EUR][1000 genomes]
rs1991727	0.86[EUR][1000 genomes]
rs2078475	0.96[EUR][1000 genomes]
rs2332655	0.96[ASN][1000 genomes]
rs2332669	0.86[EUR][1000 genomes]
rs28477433	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28612521	0.82[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28709762	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2877748	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs3733477	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4377567	0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4419455	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4561909	0.99[EUR][1000 genomes]
rs4643788	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4695826	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs66986541	0.80[AMR][1000 genomes]
rs6814857	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6822683	0.84[ASN][1000 genomes]
rs6822875	0.84[ASN][1000 genomes]
rs6826412	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6835098	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6851632	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7657374	0.83[ASN][1000 genomes]
rs7671278	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7672108	0.86[EUR][1000 genomes]
rs9990666	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9997477	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]

No data

Chromatin state (count:78 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:174066800-174089000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr4:174066800-174089000	Weak transcription	HSMM	muscle
3	chr4:174069200-174088800	Weak transcription	HMEC	breast
4	chr4:174072200-174089000	Weak transcription	Fetal Stomach	stomach
5	chr4:174073600-174089000	Weak transcription	Pancreas	Pancrea
6	chr4:174073600-174089200	Weak transcription	Aorta	Aorta
7	chr4:174073800-174089000	Weak transcription	NHLF	lung
8	chr4:174074600-174088800	Weak transcription	Fetal Intestine Small	intestine
9	chr4:174075400-174088600	Weak transcription	Fetal Intestine Large	intestine
10	chr4:174075800-174088800	Weak transcription	Primary monocytes fromperipheralblood	blood
11	chr4:174076400-174088400	Weak transcription	Primary T cells from cord blood	blood
12	chr4:174077200-174088800	Weak transcription	Primary neutrophils fromperipheralblood	blood
13	chr4:174077800-174089000	Weak transcription	Primary B cells from peripheral blood	blood
14	chr4:174078400-174088800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr4:174079600-174088800	Weak transcription	Rectal Smooth Muscle	rectum
16	chr4:174080000-174089000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr4:174081000-174088400	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr4:174081000-174088800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
19	chr4:174081000-174089000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr4:174081200-174089000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr4:174082200-174088800	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr4:174083400-174089000	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr4:174083600-174089000	Weak transcription	Brain Substantia Nigra	brain
24	chr4:174083800-174089000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
25	chr4:174084000-174088800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr4:174084200-174089000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr4:174084400-174089000	Weak transcription	Brain Hippocampus Middle	brain
28	chr4:174084800-174088800	Weak transcription	Fetal Heart	heart
29	chr4:174084800-174089000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr4:174085000-174088800	Weak transcription	Brain Anterior Caudate	brain
31	chr4:174085000-174088800	Weak transcription	NHEK	skin
32	chr4:174085200-174089000	Weak transcription	Adipose Nuclei	Adipose
33	chr4:174085200-174089000	Weak transcription	Stomach Smooth Muscle	stomach
34	chr4:174085400-174088800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr4:174085400-174088800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr4:174085400-174089000	Weak transcription	Placenta Amnion	Placenta Amnion
37	chr4:174085600-174088800	Weak transcription	Fetal Lung	lung
38	chr4:174085600-174089000	Weak transcription	Skeletal Muscle Female	skeletal muscle
39	chr4:174086200-174088800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
40	chr4:174086200-174089000	Weak transcription	Esophagus	oesophagus
41	chr4:174086600-174088800	Enhancers	Fetal Thymus	thymus
42	chr4:174086600-174089000	Weak transcription	Fetal Muscle Trunk	muscle
43	chr4:174086800-174088400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
44	chr4:174086800-174088800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
45	chr4:174086800-174088800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
46	chr4:174087000-174088800	Enhancers	Dnd41	blood
47	chr4:174087200-174088800	Weak transcription	HUES64 Cell Line	embryonic stem cell
48	chr4:174087200-174088800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr4:174087200-174089000	Enhancers	Primary T helper cells fromperipheralblood	blood
50	chr4:174087400-174088400	Weak transcription	H9 Cell Line	embryonic stem cell

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