Variant report

Variant	rs10994210
Chromosome Location	chr10:61878214-61878215
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	GATA3	chr10:61878006-61878274	T-47D	breast:	n/a	chr10:61878095-61878103

No.	Distal block	Cell Line	Cell type
1	chr10:61874703..61879207-chr10:61928911..61934013,8	MCF-7	breast:
2	chr10:61876427..61878351-chr10:61898997..61900844,2	K562	blood:
3	chr10:61871019..61884969-chr10:61894465..61902502,21	MCF-7	breast:
4	chr10:61876458..61878339-chr10:61881421..61883490,3	MCF-7	breast:

Variant related genes	Relation type
ANK3	TF binding region
ENSG00000151150	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10218875	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.86[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap];1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10733758	0.83[ASW][hapmap];0.82[CHB][hapmap];0.84[CHD][hapmap];0.85[GIH][hapmap];0.88[JPT][hapmap];0.81[MEX][hapmap];0.86[MKK][hapmap];0.95[TSI][hapmap];0.86[YRI][hapmap];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10740007	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10740008	0.80[CEU][hapmap];0.86[GIH][hapmap]
rs10740009	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10740010	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10761452	0.88[JPT][hapmap]
rs10761453	0.88[JPT][hapmap]
rs10761454	1.00[CEU][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10761456	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821671	0.88[JPT][hapmap]
rs10821675	0.80[CEU][hapmap];0.82[YRI][hapmap];0.88[AFR][1000 genomes]
rs10994194	0.88[JPT][hapmap]
rs10994195	0.88[JPT][hapmap]
rs10994200	0.81[CEU][hapmap];0.91[EUR][1000 genomes]
rs10994206	0.81[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs10994214	0.82[CHB][hapmap];0.84[CHD][hapmap];0.88[JPT][hapmap];0.80[MEX][hapmap];0.88[TSI][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12146176	0.86[JPT][hapmap]
rs12761450	0.82[CHB][hapmap];0.85[JPT][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12761506	0.82[CHB][hapmap];0.84[CHD][hapmap];0.88[JPT][hapmap];0.86[MEX][hapmap];0.88[TSI][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12779035	1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.85[MEX][hapmap];0.94[ASN][1000 genomes]
rs2393585	1.00[CEU][hapmap];0.82[CHB][hapmap];0.82[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2393611	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3750800	0.80[CEU][hapmap];0.82[CHB][hapmap];0.85[CHD][hapmap];0.91[GIH][hapmap];0.85[MEX][hapmap];0.82[ASN][1000 genomes]
rs3793859	0.88[JPT][hapmap]
rs4948389	0.85[JPT][hapmap];0.84[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4948390	0.89[EUR][1000 genomes]
rs7077937	0.88[JPT][hapmap]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10994210	RTKN2	cis	parietal	SCAN
rs10994210	UBE2D1	cis	parietal	SCAN

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:61792200-61883200	Weak transcription	Psoas Muscle	Psoas
2	chr10:61835400-61883200	Weak transcription	Brain Cingulate Gyrus	brain
3	chr10:61835600-61883000	Weak transcription	Fetal Heart	heart
4	chr10:61836000-61881800	Weak transcription	Left Ventricle	heart
5	chr10:61836000-61893200	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr10:61841200-61899400	Weak transcription	Right Ventricle	heart
7	chr10:61846600-61888600	Weak transcription	Fetal Kidney	kidney
8	chr10:61848000-61900400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
9	chr10:61848400-61889800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
10	chr10:61849200-61882600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr10:61857200-61882600	Weak transcription	NH-A	brain
12	chr10:61857400-61889800	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr10:61857800-61889600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr10:61859800-61889800	Weak transcription	Duodenum Mucosa	Duodenum
15	chr10:61859800-61900200	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr10:61860000-61900000	Weak transcription	Fetal Brain Male	brain
17	chr10:61860600-61883400	Weak transcription	Brain Substantia Nigra	brain
18	chr10:61863800-61883400	Weak transcription	Brain Angular Gyrus	brain
19	chr10:61866400-61889800	Weak transcription	HUES48 Cell Line	embryonic stem cell
20	chr10:61867000-61910200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr10:61867600-61891200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr10:61868800-61889600	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr10:61868800-61891400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr10:61868800-61893000	Weak transcription	Primary T helper cells PMA-I stimulated	--
25	chr10:61869000-61879600	Weak transcription	Ovary	ovary
26	chr10:61869000-61886600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr10:61869000-61913200	Weak transcription	Primary T cells from cord blood	blood
28	chr10:61869200-61882800	Weak transcription	Skeletal Muscle Female	skeletal muscle
29	chr10:61869200-61895800	Weak transcription	Primary T helper cells fromperipheralblood	blood
30	chr10:61873400-61883000	Weak transcription	Fetal Intestine Large	intestine
31	chr10:61873600-61883000	Weak transcription	Fetal Intestine Small	intestine
32	chr10:61874000-61883200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
33	chr10:61874200-61884200	Weak transcription	Placenta	Placenta
34	chr10:61875000-61889800	Weak transcription	HUES6 Cell Line	embryonic stem cell
35	chr10:61875000-61898800	Weak transcription	Rectal Smooth Muscle	rectum
36	chr10:61875200-61882800	Weak transcription	HSMMtube	muscle
37	chr10:61875200-61899400	Weak transcription	Duodenum Smooth Muscle	Duodenum
38	chr10:61875200-61910800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr10:61875400-61878600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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