Variant report

Variant	rs17139825
Chromosome Location	chr5:115788653-115788654
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	WRNIP1	chr5:115788599-115788693	GM12878	blood:	n/a	n/a
2	POLR2A	chr5:115788273-115789180	H1-hESC	embryonic stem cell:	n/a	n/a
3	POLR2A	chr5:115788553-115788684	H1-hESC	embryonic stem cell:	n/a	n/a
4	POLR2A	chr5:115788643-115788666	H1-hESC	embryonic stem cell:	n/a	n/a

Variant related genes	Relation type
SEMA6A	TF binding region

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10077506	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10077720	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11950135	0.80[AFR][1000 genomes]
rs17139805	0.93[CHB][hapmap];0.89[ASN][1000 genomes]
rs17139820	0.81[JPT][hapmap]
rs17139898	0.89[CEU][hapmap]
rs2161227	1.00[CEU][hapmap];0.87[CHB][hapmap]
rs2287685	0.89[CEU][hapmap]
rs2303752	0.93[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3733725	0.93[CHB][hapmap];0.92[ASN][1000 genomes]
rs6861198	0.82[YRI][hapmap]
rs6861354	0.89[ASN][1000 genomes]
rs6861511	0.86[CHB][hapmap];0.89[ASN][1000 genomes]
rs728529	0.86[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:115774600-115811000	Weak transcription	Small Intestine	intestine
2	chr5:115778000-115790000	Weak transcription	Primary T helper cells fromperipheralblood	blood
3	chr5:115778400-115788800	Weak transcription	HSMMtube	muscle
4	chr5:115779000-115789800	Strong transcription	Placenta	Placenta
5	chr5:115780600-115789400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr5:115781400-115789600	Weak transcription	Primary B cells from cord blood	blood
7	chr5:115782000-115789600	Weak transcription	Fetal Brain Male	brain
8	chr5:115782200-115798200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr5:115782600-115789800	Weak transcription	Monocytes-CD14+_RO01746	blood
10	chr5:115782800-115789200	Weak transcription	Primary B cells from peripheral blood	blood
11	chr5:115783000-115789800	Weak transcription	Fetal Thymus	thymus
12	chr5:115783400-115789800	Weak transcription	Thymus	Thymus
13	chr5:115783400-115790200	Weak transcription	Brain Germinal Matrix	brain
14	chr5:115783400-115790200	Weak transcription	Right Ventricle	heart
15	chr5:115783600-115788800	Weak transcription	Brain Anterior Caudate	brain
16	chr5:115783600-115789200	Weak transcription	Colon Smooth Muscle	Colon
17	chr5:115783600-115789600	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr5:115783600-115789600	Weak transcription	Rectal Smooth Muscle	rectum
19	chr5:115783600-115789800	Weak transcription	Primary neutrophils fromperipheralblood	blood
20	chr5:115783600-115789800	Weak transcription	Fetal Lung	lung
21	chr5:115783600-115790000	Weak transcription	Aorta	Aorta
22	chr5:115783600-115790000	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr5:115783600-115790200	Weak transcription	Skeletal Muscle Female	skeletal muscle
24	chr5:115783600-115790400	Enhancers	HepG2	liver
25	chr5:115783600-115802200	Weak transcription	Colonic Mucosa	Colon
26	chr5:115783600-115802200	Weak transcription	Pancreas	Pancrea
27	chr5:115783600-115803400	Weak transcription	Esophagus	oesophagus
28	chr5:115783600-115813000	Weak transcription	Spleen	Spleen
29	chr5:115783600-115813200	Weak transcription	Gastric	stomach
30	chr5:115783600-115829600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr5:115783800-115789600	Weak transcription	Stomach Smooth Muscle	stomach
32	chr5:115783800-115789800	Weak transcription	Adipose Nuclei	Adipose
33	chr5:115783800-115789800	Weak transcription	Ovary	ovary
34	chr5:115783800-115790000	Weak transcription	Skeletal Muscle Male	skeletal muscle
35	chr5:115783800-115803200	Weak transcription	Liver	Liver
36	chr5:115784000-115791200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
37	chr5:115784200-115796800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
38	chr5:115784200-115800000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr5:115784400-115789000	Genic enhancers	iPS-20b Cell Line	embryonic stem cell
40	chr5:115784400-115791000	Genic enhancers	HUES6 Cell Line	embryonic stem cell
41	chr5:115784600-115789400	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
42	chr5:115785000-115790000	Weak transcription	Rectal Mucosa Donor 29	rectum
43	chr5:115785200-115789000	Weak transcription	Fetal Brain Female	brain
44	chr5:115785200-115789800	Weak transcription	Primary T cells from cord blood	blood
45	chr5:115785200-115800200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
46	chr5:115785400-115789600	Weak transcription	Left Ventricle	heart
47	chr5:115786000-115788800	Weak transcription	Cortex derived primary cultured neurospheres	brain
48	chr5:115786400-115789000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr5:115786400-115789200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr5:115786400-115789600	Strong transcription	Fetal Muscle Leg	muscle

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