Variant report

Variant	rs2934963
Chromosome Location	chr17:37820992-37820993
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:30)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:30 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr17:37820652-37821347	GM12891	blood:	n/a	n/a
2	NFATC1	chr17:37820878-37821434	GM12878	blood:	n/a	n/a
3	POLR2A	chr17:37820937-37821261	GM12891	blood:	n/a	n/a
4	POLR2A	chr17:37820672-37821486	GM12892	blood:	n/a	n/a
5	POLR2A	chr17:37819835-37822433	K562	blood:	n/a	n/a
6	POLR2A	chr17:37820980-37821468	H1-hESC	embryonic stem cell:	n/a	n/a
7	POLR2A	chr17:37819937-37822773	K562	blood:	n/a	n/a
8	POLR2A	chr17:37820960-37821175	HepG2	liver:	n/a	n/a
9	BCL3	chr17:37819921-37821125	A549	lung:	n/a	n/a
10	POLR2A	chr17:37820971-37821433	GM12878	blood:	n/a	n/a
11	POLR2A	chr17:37819920-37822310	SK-N-MC	brain:	n/a	n/a
12	POLR2A	chr17:37820901-37821116	HUVEC	blood vessel:	n/a	n/a
13	POLR2A	chr17:37819928-37825272	K562	blood:	n/a	n/a
14	POLR2A	chr17:37820811-37821612	U87	brain:	n/a	n/a
15	POLR2A	chr17:37820082-37821403	HepG2	liver:	n/a	n/a
16	POLR2A	chr17:37820960-37821423	GM12878	blood:	n/a	n/a
17	POLR2A	chr17:37820806-37821272	K562	blood:	n/a	n/a
18	POLR2A	chr17:37820801-37821420	SK-N-SH	brain:	n/a	n/a
19	POLR2A	chr17:37820970-37821344	ECC-1	luminal epithelium:	n/a	n/a
20	POLR2A	chr17:37820849-37822254	GM12878	blood:	n/a	n/a
21	POLR2A	chr17:37820790-37821117	GM12878	blood:	n/a	n/a
22	MTA3	chr17:37820828-37821272	GM12878	blood:	n/a	n/a
23	ZNF263	chr17:37819971-37821227	HEK293-T-REx	kidney:	n/a	n/a
24	FOSL2	chr17:37819897-37821284	HepG2	liver:	n/a	n/a
25	POLR2A	chr17:37820897-37821436	H1-hESC	embryonic stem cell:	n/a	n/a
26	POLR2A	chr17:37820842-37821277	GM12891	blood:	n/a	n/a
27	POLR2A	chr17:37820745-37821278	PANC-1	pancreas:	n/a	n/a
28	POLR2A	chr17:37820817-37821431	U87	brain:	n/a	n/a
29	BCL3	chr17:37819865-37821233	A549	lung:	n/a	n/a
30	POLR2A	chr17:37820063-37822456	Hela-S3	cervix:	n/a	n/a

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr17:37820932..37826284-chr17:37838504..37843351,7	K562	blood:
2	chr17:37818282..37821110-chr17:37882752..37884709,2	K562	blood:
3	chr17:37820269..37822636-chr17:37824547..37827418,2	MCF-7	breast:
4	chr17:37820151..37821695-chr17:37885037..37886831,2	K562	blood:
5	chr17:37773404..37776321-chr17:37819728..37822241,2	MCF-7	breast:
6	chr17:37777756..37783081-chr17:37819129..37825010,9	K562	blood:
7	chr17:37820097..37822634-chr17:37895456..37897611,2	K562	blood:
8	chr17:37790905..37794856-chr17:37820000..37822270,4	K562	blood:

No data

Variant related genes	Relation type
TCAP	TF binding region
PNMT	TF binding region
ENSG00000141738	Chromatin interaction
ENSG00000131771	Chromatin interaction
ENSG00000131748	Chromatin interaction
ENSG00000141736	Chromatin interaction
ENSG00000141741	Chromatin interaction
ENSG00000161395	Chromatin interaction
ENSG00000141744	Chromatin interaction
ENSG00000214546	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs1050293	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs15968	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2934958	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2934959	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2934960	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2934961	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2934962	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2934965	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2934966	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2941510	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2941511	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2941512	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2941513	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2941514	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2941515	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2941516	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2941523	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2952139	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2952149	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2952150	0.92[EUR][1000 genomes]
rs57837184	0.84[AFR][1000 genomes]
rs59522915	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73294088	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73294092	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73294095	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73294098	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73296106	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73296109	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73308326	0.84[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932024	chr17:37192290-37850932	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	92 gene(s)	inside rSNPs	diseases
2	esv1825702	chr17:37487168-37876767	Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	53 gene(s)	inside rSNPs	diseases
3	nsv833442	chr17:37692880-37861291	Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
4	nsv908205	chr17:37709422-37830900	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
5	nsv908206	chr17:37709422-37866005	Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
6	nsv908207	chr17:37709422-37922259	Weak transcription Genic enhancers Strong transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
7	nsv833443	chr17:37725640-37882864	Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	23 gene(s)	inside rSNPs	diseases
8	nsv457738	chr17:37770005-37831035	Active TSS Weak transcription Enhancers Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
9	nsv574991	chr17:37770005-37831035	Bivalent Enhancer Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
10	nsv516757	chr17:37781849-37834541	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	16 gene(s)	inside rSNPs	diseases
11	esv1792029	chr17:37797757-37886460	Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
12	nsv908213	chr17:37807698-37839493	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	12 gene(s)	inside rSNPs	diseases
13	nsv528093	chr17:37814080-37866005	Weak transcription Bivalent Enhancer Enhancers Strong transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
14	nsv908214	chr17:37814224-37861833	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
15	nsv574992	chr17:37818561-37822311	Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
16	nsv908215	chr17:37818561-37834541	Strong transcription Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2934963	ROBO1	trans	lymphoblastoid	seeQTL

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:37795000-37823800	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr17:37803800-37821800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr17:37810600-37821000	Weak transcription	Fetal Brain Male	brain
4	chr17:37816600-37821600	Enhancers	Psoas Muscle	Psoas
5	chr17:37817000-37823000	Weak transcription	GM12878-XiMat	blood
6	chr17:37817200-37821000	Enhancers	Fetal Heart	heart
7	chr17:37817600-37823400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr17:37818000-37821200	Genic enhancers	Esophagus	oesophagus
9	chr17:37818200-37821000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr17:37818200-37823000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr17:37818400-37821800	Weak transcription	Colon Smooth Muscle	Colon
12	chr17:37818400-37823600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr17:37818600-37821000	Genic enhancers	Fetal Intestine Small	intestine
14	chr17:37818600-37821000	Enhancers	Rectal Mucosa Donor 29	rectum
15	chr17:37818600-37821800	Weak transcription	Primary B cells from cord blood	blood
16	chr17:37818600-37822000	Enhancers	H1 Cell Line	embryonic stem cell
17	chr17:37818800-37821200	Genic enhancers	Brain Cingulate Gyrus	brain
18	chr17:37818800-37821600	Enhancers	Stomach Mucosa	stomach
19	chr17:37819200-37821000	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr17:37819200-37821000	Enhancers	Stomach Smooth Muscle	stomach
21	chr17:37819200-37822000	Enhancers	Colonic Mucosa	Colon
22	chr17:37819200-37822200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
23	chr17:37819200-37822200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr17:37819200-37825200	Enhancers	Liver	Liver
25	chr17:37819400-37821000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
26	chr17:37819400-37821400	Enhancers	Duodenum Mucosa	Duodenum
27	chr17:37819400-37821400	Enhancers	Fetal Intestine Large	intestine
28	chr17:37819400-37821600	Weak transcription	Primary T cells fromperipheralblood	blood
29	chr17:37819400-37822000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr17:37819400-37822000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
31	chr17:37819400-37822000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
32	chr17:37819400-37822000	Enhancers	Rectal Mucosa Donor 31	rectum
33	chr17:37819400-37822200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
34	chr17:37819400-37822200	Enhancers	Placenta	Placenta
35	chr17:37819400-37822600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr17:37819400-37823000	Weak transcription	Primary T helper cells fromperipheralblood	blood
37	chr17:37819400-37823200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr17:37819400-37823200	Weak transcription	Primary B cells from peripheral blood	blood
39	chr17:37819400-37823600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
40	chr17:37819600-37821000	Weak transcription	Primary monocytes fromperipheralblood	blood
41	chr17:37819600-37821000	Weak transcription	Monocytes-CD14+_RO01746	blood
42	chr17:37819600-37821600	Weak transcription	Primary T helper cells PMA-I stimulated	--
43	chr17:37819600-37821800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
44	chr17:37819600-37821800	Weak transcription	Cortex derived primary cultured neurospheres	brain
45	chr17:37819600-37822000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
46	chr17:37819600-37822400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr17:37819600-37822800	Weak transcription	Primary T cells from cord blood	blood
48	chr17:37819600-37823400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
49	chr17:37819600-37823800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr17:37819600-37824200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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