Variant report

Variant	rs17354917
Chromosome Location	chr19:44952873-44952874
allele	A/G
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	GABPA	chr19:44952411-44952948	Hela-S3	cervix:	n/a	n/a
2	GABPA	chr19:44952087-44953069	HL-60	blood:	n/a	n/a
3	CEBPB	chr19:44952552-44953141	A549	lung:	n/a	chr19:44952899-44952907
4	SIX5	chr19:44952576-44952896	GM12878	blood:	n/a	n/a
5	E2F6	chr19:44952263-44953002	A549	lung:	n/a	n/a
6	ELK1	chr19:44952510-44952912	Hela-S3	cervix:	n/a	n/a
7	POLR2A	chr19:44952299-44952896	A549	lung:	n/a	n/a
8	GABPA	chr19:44952023-44953195	MCF-7	breast:	n/a	n/a
9	SP1	chr19:44952289-44953015	A549	lung:	n/a	chr19:44952548-44952561
10	ELF1	chr19:44952406-44952952	MCF-7	breast:	n/a	chr19:44952672-44952685
11	TBP	chr19:44952493-44952889	H1-hESC	embryonic stem cell:	n/a	n/a
12	CREB1	chr19:44952485-44952945	K562	blood:	n/a	n/a
13	MYC	chr19:44952412-44952915	MCF-7	breast:	n/a	chr19:44952794-44952804
14	CREB1	chr19:44952417-44952932	H1-hESC	embryonic stem cell:	n/a	n/a
15	POLR2A	chr19:44952428-44952931	H1-neurons	neurons:	n/a	n/a
16	POLR2A	chr19:44952356-44952931	H1-hESC	embryonic stem cell:	n/a	n/a
17	TCF12	chr19:44952459-44952900	A549	lung:	n/a	n/a
18	CREB1	chr19:44952613-44952920	HepG2	liver:	n/a	n/a
19	MAX	chr19:44951848-44953186	A549	lung:	n/a	chr19:44952794-44952804
20	MXI1	chr19:44951760-44953021	IMR90	lung:	n/a	n/a
21	E2F6	chr19:44952295-44952928	H1-hESC	embryonic stem cell:	n/a	n/a
22	ATF3	chr19:44952496-44952919	H1-hESC	embryonic stem cell:	n/a	n/a
23	GABPA	chr19:44952301-44953041	HL-60	blood:	n/a	n/a
24	BCL3	chr19:44952227-44952943	A549	lung:	n/a	chr19:44952796-44952809 chr19:44952531-44952540
25	HCFC1	chr19:44952518-44952914	K562	blood:	n/a	n/a
26	GTF2F1	chr19:44952460-44952996	Hela-S3	cervix:	n/a	n/a
27	CREB1	chr19:44952473-44952957	A549	lung:	n/a	n/a
28	CEBPB	chr19:44952529-44953108	Hela-S3	cervix:	n/a	chr19:44952899-44952907
29	E2F6	chr19:44952129-44953005	A549	lung:	n/a	n/a
30	MAX	chr19:44952447-44952936	Hela-S3	cervix:	n/a	chr19:44952794-44952804
31	ELF1	chr19:44952376-44952901	A549	lung:	n/a	chr19:44952672-44952685
32	POLR2A	chr19:44952270-44952983	HL-60	blood:	n/a	n/a
33	GABPA	chr19:44951909-44953005	A549	lung:	n/a	n/a
34	SIX5	chr19:44952195-44953129	A549	lung:	n/a	n/a
35	CREB1	chr19:44952450-44952990	GM12878	blood:	n/a	n/a
36	MAX	chr19:44952324-44952929	SK-N-SH	brain:	n/a	chr19:44952794-44952804
37	MYC	chr19:44952576-44952874	HUVEC	blood vessel:	n/a	chr19:44952794-44952804
38	SIX5	chr19:44952361-44952943	A549	lung:	n/a	n/a
39	FOXP2	chr19:44952456-44952895	PFSK-1	brain:	n/a	n/a
40	SP1	chr19:44952519-44952969	H1-hESC	embryonic stem cell:	n/a	chr19:44952548-44952561
41	MAX	chr19:44952444-44952917	Hela-S3	cervix:	n/a	chr19:44952794-44952804
42	ETS1	chr19:44952355-44952968	A549	lung:	n/a	chr19:44952702-44952715 chr19:44952670-44952679 chr19:44952676-44952683 chr19:44952670-44952679
43	MXI1	chr19:44951643-44953397	SK-N-SH	brain:	n/a	n/a
44	ETS1	chr19:44952002-44953045	A549	lung:	n/a	chr19:44952702-44952715 chr19:44952670-44952679 chr19:44952676-44952683 chr19:44952233-44952244 chr19:44952670-44952679
45	MYC	chr19:44952524-44952939	H1-hESC	embryonic stem cell:	n/a	chr19:44952794-44952804
46	ATF1	chr19:44952523-44952910	K562	blood:	n/a	n/a
47	SP1	chr19:44952236-44953032	A549	lung:	n/a	chr19:44952548-44952561
48	ZNF143	chr19:44952504-44952915	H1-hESC	embryonic stem cell:	n/a	chr19:44952704-44952722
49	POLR2A	chr19:44952451-44952966	Hela-S3	cervix:	n/a	n/a
50	MAX	chr19:44951994-44953117	A549	lung:	n/a	chr19:44952794-44952804

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:44644669..44647100-chr19:44951741..44953337,2	K562	blood:

Variant related genes	Relation type
ENSG00000267188	TF binding region
ZNF229	TF binding region
ENSG00000263002	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs2571158	1.00[YRI][hapmap]
rs2571159	1.00[YRI][hapmap]
rs2571162	1.00[YRI][hapmap]
rs2571174	1.00[YRI][hapmap]
rs2722697	1.00[YRI][hapmap]
rs2722701	1.00[YRI][hapmap]
rs2722702	1.00[YRI][hapmap]
rs45610138	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55656030	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55700709	0.81[EUR][1000 genomes]
rs56092297	0.81[EUR][1000 genomes]
rs56139767	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs56384811	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8101699	0.82[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv912112	chr19:44853707-45011727	Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv912114	chr19:44858776-45002563	ZNF genes & repeats Strong transcription Flanking Active TSS Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
3	nsv1061350	chr19:44869075-45035469	Active TSS ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17354917	ZNF155	cis	lymphoblastoid	seeQTL

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:44932000-44953200	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
2	chr19:44946400-44953000	ZNF genes & repeats	Aorta	Aorta
3	chr19:44948200-44959800	ZNF genes & repeats	Liver	Liver
4	chr19:44948600-44953200	ZNF genes & repeats	Primary B cells from peripheral blood	blood
5	chr19:44949600-44954200	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
6	chr19:44951200-44953200	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr19:44951400-44953200	Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr19:44951400-44953400	Active TSS	NHDF-Ad	bronchial
9	chr19:44951600-44953000	Active TSS	HUES48 Cell Line	embryonic stem cell
10	chr19:44951600-44953000	Active TSS	iPS-15b Cell Line	embryonic stem cell
11	chr19:44951600-44953000	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr19:44951600-44953000	ZNF genes & repeats	Primary mononuclear cells fromperipheralblood	Blood
13	chr19:44951600-44953000	Active TSS	Brain Angular Gyrus	brain
14	chr19:44951600-44953000	ZNF genes & repeats	HSMM	muscle
15	chr19:44951600-44953200	Active TSS	ES-I3 Cell Line	embryonic stem cell
16	chr19:44951600-44953200	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr19:44951800-44953000	Active TSS	H1 Cell Line	embryonic stem cell
18	chr19:44951800-44953000	Active TSS	H9 Cell Line	embryonic stem cell
19	chr19:44951800-44953000	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
20	chr19:44951800-44953000	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
21	chr19:44951800-44953000	ZNF genes & repeats	Primary Natural Killer cells fromperipheralblood	blood
22	chr19:44951800-44953000	Active TSS	Colon Smooth Muscle	Colon
23	chr19:44951800-44953000	Active TSS	Fetal Intestine Large	intestine
24	chr19:44951800-44953000	Active TSS	Left Ventricle	heart
25	chr19:44951800-44953000	Active TSS	Psoas Muscle	Psoas
26	chr19:44951800-44953000	ZNF genes & repeats	Thymus	Thymus
27	chr19:44951800-44953000	Active TSS	HSMMtube	muscle
28	chr19:44951800-44953000	Active TSS	NH-A	brain
29	chr19:44951800-44953200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr19:44951800-44953200	Flanking Active TSS	Primary T cells from cord blood	blood
31	chr19:44951800-44953200	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
32	chr19:44951800-44953200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr19:44951800-44953200	Active TSS	Brain Inferior Temporal Lobe	brain
34	chr19:44951800-44953200	Active TSS	Duodenum Mucosa	Duodenum
35	chr19:44951800-44953200	ZNF genes & repeats	Rectal Mucosa Donor 29	rectum
36	chr19:44951800-44953200	Active TSS	NHLF	lung
37	chr19:44952000-44953000	Active TSS	ES-WA7 Cell Line	embryonic stem cell
38	chr19:44952000-44953000	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr19:44952000-44953000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr19:44952000-44953000	ZNF genes & repeats	Primary monocytes fromperipheralblood	blood
41	chr19:44952000-44953000	ZNF genes & repeats	Primary T killer naive cells fromperipheralblood	blood
42	chr19:44952000-44953000	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr19:44952000-44953000	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr19:44952000-44953000	Active TSS	Fetal Stomach	stomach
45	chr19:44952000-44953000	Active TSS	Stomach Mucosa	stomach
46	chr19:44952000-44953200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
47	chr19:44952000-44953200	Active TSS	Brain Hippocampus Middle	brain
48	chr19:44952000-44953200	Active TSS	Fetal Kidney	kidney
49	chr19:44952000-44953400	ZNF genes & repeats	GM12878-XiMat	blood
50	chr19:44952000-44953600	Active TSS	Primary T killer memory cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links