Variant report

Variant	rs3212277
Chromosome Location	chr15:41222025-41222026
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	TBP	chr15:41221314-41222061	K562	blood:	n/a	chr15:41221506-41221517
2	SMARCB1	chr15:41220817-41222405	Hela-S3	cervix:	n/a	n/a
3	SIN3AK20	chr15:41220697-41222294	MCF-7	breast:	n/a	n/a
4	CTCF	chr15:41222000-41222150	HRPEpiC	eye:	n/a	n/a
5	MAZ	chr15:41221987-41222203	K562	blood:	n/a	n/a
6	POLR2A	chr15:41221083-41231664	HUVEC	blood vessel:	n/a	n/a
7	CTCF	chr15:41222020-41222170	AG09319	gingival:	n/a	n/a
8	E2F6	chr15:41221328-41222184	H1-hESC	embryonic stem cell:	n/a	chr15:41221383-41221392 chr15:41221798-41221805 chr15:41221778-41221787 chr15:41221798-41221805 chr15:41221798-41221805
9	MAX	chr15:41220647-41222296	ECC-1	luminal epithelium:	n/a	chr15:41220805-41220815 chr15:41221942-41221952 chr15:41220747-41220757
10	RCOR1	chr15:41221209-41222195	K562	blood:	n/a	n/a
11	SMC3	chr15:41221039-41222162	Hela-S3	cervix:	n/a	n/a
12	CTCF	chr15:41222020-41222170	AG04449	skin:	n/a	n/a
13	CTCF	chr15:41221940-41222090	HCPEpiC	choroid plexus:	n/a	n/a
14	ZEB1	chr15:41222010-41222302	GM12878	blood:	n/a	n/a
15	UBTF	chr15:41221424-41222305	K562	blood:	n/a	n/a
16	CTCF	chr15:41222000-41222150	SAEC	small airway:	n/a	n/a
17	E2F6	chr15:41221192-41222231	K562	blood:	n/a	chr15:41221383-41221392 chr15:41221798-41221805 chr15:41221778-41221787 chr15:41221798-41221805 chr15:41221798-41221805
18	TBP	chr15:41221327-41222120	Hela-S3	cervix:	n/a	chr15:41221506-41221517
19	ELF1	chr15:41221888-41222428	GM12878	blood:	n/a	chr15:41222146-41222159
20	CTCF	chr15:41221960-41222110	HEK293	kidney:	n/a	n/a
21	CTBP2	chr15:41221744-41223157	H1-hESC	embryonic stem cell:	n/a	n/a
22	POLR2A	chr15:41221094-41222056	PFSK-1	brain:	n/a	n/a
23	CTCF	chr15:41221980-41222130	AG04450	lung:	n/a	n/a
24	RAD21	chr15:41221987-41222213	IMR90	lung:	n/a	n/a
25	CTCF	chr15:41221880-41222030	GM12870	blood:	n/a	n/a
26	POLR2A	chr15:41221139-41222122	MCF-7	breast:	n/a	n/a
27	CBX3	chr15:41221834-41222237	K562	blood:	n/a	n/a
28	CTCF	chr15:41221841-41222340	K562	blood:	n/a	n/a
29	POLR2A	chr15:41220771-41222254	H1-neurons	neurons:	n/a	n/a
30	CTCF	chr15:41222020-41222170	AG04450	lung:	n/a	n/a
31	CTCF	chr15:41222020-41222170	HBMEC	blood vessel:	n/a	n/a
32	CTCF	chr15:41222020-41222170	HPAF	blood vessel:	n/a	n/a
33	REST	chr15:41221148-41222091	H1-neurons	neurons:	n/a	chr15:41221484-41221497 chr15:41221713-41221726
34	MAZ	chr15:41221124-41222100	IMR90	lung:	n/a	chr15:41221942-41221952
35	POLR2A	chr15:41220863-41223435	K562	blood:	n/a	n/a
36	MYC	chr15:41221265-41222192	NB4	blood:	n/a	chr15:41221942-41221952
37	FOXP2	chr15:41221126-41222246	PFSK-1	brain:	n/a	n/a
38	MAX	chr15:41221332-41222388	HepG2	liver:	n/a	chr15:41221942-41221952
39	ELF1	chr15:41221959-41222328	K562	blood:	n/a	chr15:41222146-41222159
40	HA-E2F1	chr15:41221449-41222236	MCF-7	breast:	n/a	chr15:41221798-41221805 chr15:41221778-41221787 chr15:41221798-41221805 chr15:41221798-41221805
41	MAX	chr15:41220624-41222395	H1-hESC	embryonic stem cell:	n/a	chr15:41220805-41220815 chr15:41221942-41221952 chr15:41220747-41220757
42	NFIC	chr15:41220514-41222264	ECC-1	luminal epithelium:	n/a	n/a
43	E2F6	chr15:41221350-41222223	A549	lung:	n/a	chr15:41221383-41221392 chr15:41221798-41221805 chr15:41221778-41221787 chr15:41221798-41221805 chr15:41221798-41221805
44	CEBPB	chr15:41221909-41222121	Hela-S3	cervix:	n/a	n/a
45	CTCF	chr15:41221920-41222070	HAc	cerebellar:	n/a	n/a
46	CTCF	chr15:41221954-41222170	K562	blood:	n/a	n/a
47	CTCF	chr15:41221980-41222130	NHDF-neo	bronchial:	n/a	n/a
48	POLR2A	chr15:41221192-41222133	HUVEC	blood vessel:	n/a	n/a
49	MAX	chr15:41221150-41222162	NB4	blood:	n/a	chr15:41221942-41221952
50	HMGN3	chr15:41221207-41222295	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr15:41219463..41223303-chr15:41521190..41526712,8	K562	blood:
2	chr11:62608457..62609642-chr15:41221400..41222048,4	NB4	blood:
3	chr15:41220723..41224054-chr15:41407218..41409948,5	K562	blood:
4	chr15:41221907..41222892-chr15:41234199..41234770,2	K562	blood:
5	chr15:41220353..41222997-chr15:41522209..41524671,3	K562	blood:
6	chr15:41165742..41167870-chr15:41221501..41224188,2	MCF-7	breast:
7	chr15:41219948..41223850-chr15:41241031..41249080,13	K562	blood:
8	chr15:41220723..41224054-chr15:41406979..41409349,3	K562	blood:
9	chr15:41193987..41204234-chr15:41215915..41223506,12	K562	blood:
10	chr15:41195189..41208751-chr15:41218816..41225232,20	MCF-7	breast:
11	chr15:41220084..41222525-chr15:41245007..41247668,2	MCF-7	breast:
12	chr15:41219573..41224863-chr15:41243808..41249661,11	MCF-7	breast:
13	chr15:41197462..41204234-chr15:41215803..41223321,13	K562	blood:
14	chr15:41194927..41205036-chr15:41218861..41227276,20	MCF-7	breast:
15	chr15:41219149..41223946-chr15:41302846..41305809,4	K562	blood:
16	chr15:41221331..41223458-chr15:41308283..41310657,2	MCF-7	breast:

Variant related genes	Relation type
DLL4	TF binding region
ENSG00000178997	Chromatin interaction
ENSG00000259405	Chromatin interaction
ENSG00000104140	Chromatin interaction
ENSG00000259463	Chromatin interaction
ENSG00000187446	Chromatin interaction
ENSG00000251161	Chromatin interaction
ENSG00000128965	Chromatin interaction
ENSG00000133316	Chromatin interaction
ENSG00000259521	Chromatin interaction
ENSG00000128908	Chromatin interaction
ENSG00000264256	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs4244583	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55934240	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904101	chr15:40979651-41275014	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	esv1819092	chr15:41017682-41255750	Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
3	nsv904103	chr15:41123172-41275014	Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
4	nsv904104	chr15:41149824-41234932	Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers Weak transcription Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
5	nsv904105	chr15:41149824-41275014	Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
6	esv1819792	chr15:41184722-41234825	Weak transcription Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
7	nsv904106	chr15:41221067-41259523	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41217600-41223200	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
2	chr15:41219200-41223000	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
3	chr15:41219400-41222400	Flanking Bivalent TSS/Enh	Primary T helper cells PMA-I stimulated	--
4	chr15:41219600-41223200	Flanking Bivalent TSS/Enh	Primary T regulatory cells fromperipheralblood	blood
5	chr15:41219600-41223400	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr15:41219600-41224800	Flanking Bivalent TSS/Enh	Fetal Muscle Trunk	muscle
7	chr15:41219800-41222200	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
8	chr15:41219800-41222200	Flanking Bivalent TSS/Enh	Thymus	Thymus
9	chr15:41219800-41222400	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
10	chr15:41219800-41222400	Flanking Bivalent TSS/Enh	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr15:41219800-41222600	Active TSS	Right Atrium	heart
12	chr15:41219800-41223200	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
13	chr15:41219800-41223200	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
14	chr15:41219800-41223200	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr15:41219800-41223200	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr15:41219800-41223400	Flanking Bivalent TSS/Enh	Foreskin Fibroblast Primary Cells skin01	Skin
17	chr15:41219800-41223400	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr15:41219800-41223600	Flanking Bivalent TSS/Enh	Fetal Intestine Large	intestine
19	chr15:41219800-41223800	Flanking Bivalent TSS/Enh	Brain Germinal Matrix	brain
20	chr15:41219800-41224000	Active TSS	Pancreatic Islets	Pancreatic Islet
21	chr15:41220000-41222800	Flanking Bivalent TSS/Enh	Placenta	Placenta
22	chr15:41220000-41222800	Bivalent/Poised TSS	Psoas Muscle	Psoas
23	chr15:41220000-41223800	Flanking Bivalent TSS/Enh	Brain Hippocampus Middle	brain
24	chr15:41220200-41223600	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
25	chr15:41220200-41224000	Flanking Bivalent TSS/Enh	Fetal Stomach	stomach
26	chr15:41220200-41224800	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle
27	chr15:41220400-41222400	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
28	chr15:41220400-41223000	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr15:41220400-41223400	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
30	chr15:41220800-41222200	Flanking Bivalent TSS/Enh	Primary B cells from peripheral blood	blood
31	chr15:41220800-41222200	Flanking Bivalent TSS/Enh	Primary mononuclear cells fromperipheralblood	Blood
32	chr15:41220800-41222400	Flanking Bivalent TSS/Enh	Primary T cells fromperipheralblood	blood
33	chr15:41220800-41222400	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells short term culture	blood
34	chr15:41220800-41222600	Flanking Bivalent TSS/Enh	Colonic Mucosa	Colon
35	chr15:41220800-41222800	Flanking Bivalent TSS/Enh	Brain Inferior Temporal Lobe	brain
36	chr15:41220800-41222800	Flanking Bivalent TSS/Enh	Fetal Thymus	thymus
37	chr15:41220800-41223200	Flanking Bivalent TSS/Enh	Primary T helper cells fromperipheralblood	blood
38	chr15:41220800-41223200	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin01	Skin
39	chr15:41220800-41223200	Flanking Bivalent TSS/Enh	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr15:41220800-41223200	Flanking Bivalent TSS/Enh	Brain Dorsolateral Prefrontal Cortex	brain
41	chr15:41220800-41223200	Flanking Bivalent TSS/Enh	Duodenum Smooth Muscle	Duodenum
42	chr15:41220800-41223200	Flanking Active TSS	Pancreas	Pancrea
43	chr15:41220800-41223400	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
44	chr15:41220800-41223400	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr15:41220800-41223400	Flanking Bivalent TSS/Enh	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr15:41220800-41223400	Flanking Bivalent TSS/Enh	Ganglion Eminence derived primary cultured neurospheres	brain
47	chr15:41220800-41223600	Flanking Bivalent TSS/Enh	H9 Derived Neuron Cultured Cells	ES cell derived
48	chr15:41220800-41224600	Flanking Bivalent TSS/Enh	Skeletal Muscle Female	skeletal muscle
49	chr15:41220800-41224800	Flanking Bivalent TSS/Enh	Skeletal Muscle Male	skeletal muscle
50	chr15:41220800-41225600	Flanking Bivalent TSS/Enh	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links