Variant report

Variant	rs554150806
Chromosome Location	chr16:12071602-12071603
allele	C/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	POLR2A	chr16:12071467-12071809	SK-N-SH	brain:	n/a	n/a
2	FOS	chr16:12071517-12071859	MCF10A-Er-Src	breast:	n/a	chr16:12071672-12071682 chr16:12071673-12071681
3	MAZ	chr16:12069635-12072270	IMR90	lung:	n/a	chr16:12070760-12070770
4	POLR2A	chr16:12069916-12071737	Raji	blood:	n/a	n/a
5	UBTF	chr16:12070168-12071715	K562	blood:	n/a	n/a
6	POLR2A	chr16:12069350-12071988	GM12878	blood:	n/a	n/a
7	POLR2A	chr16:12069698-12071959	IMR90	lung:	n/a	n/a
8	POLR2A	chr16:12069510-12071691	MCF10A-Er-Src	breast:	n/a	n/a
9	RCOR1	chr16:12069610-12071817	K562	blood:	n/a	n/a
10	RAD21	chr16:12071569-12071815	Hela-S3	cervix:	n/a	n/a
11	POLR2A	chr16:12071160-12071628	Hela-S3	cervix:	n/a	n/a
12	JUND	chr16:12071386-12071843	K562	blood:	n/a	chr16:12071672-12071682 chr16:12071673-12071681
13	MAFK	chr16:12071349-12071824	K562	blood:	n/a	n/a
14	POLR2A	chr16:12071225-12071969	U87	brain:	n/a	n/a
15	ZNF143	chr16:12071508-12071673	K562	blood:	n/a	n/a
16	POLR2A	chr16:12071340-12071653	Gliobla	brain:	n/a	n/a
17	ZMIZ1	chr16:12071371-12071641	K562	blood:	n/a	n/a
18	WRNIP1	chr16:12070864-12072578	GM12878	blood:	n/a	n/a
19	POLR2A	chr16:12071238-12071750	GM12878	blood:	n/a	n/a
20	MAZ	chr16:12071275-12071749	K562	blood:	n/a	n/a
21	POLR2A	chr16:12069293-12072542	GM12891	blood:	n/a	n/a
22	POLR2A	chr16:12071407-12071715	ProgFib	skin:	n/a	n/a
23	RAD21	chr16:12071442-12071858	IMR90	lung:	n/a	n/a
24	CHD1	chr16:12071137-12071807	GM12878	blood:	n/a	n/a
25	FOS	chr16:12071531-12071859	MCF10A-Er-Src	breast:	n/a	chr16:12071672-12071682 chr16:12071673-12071681
26	POLR2A	chr16:12071413-12072003	SK-N-SH	brain:	n/a	n/a
27	POLR2A	chr16:12071378-12071977	U87	brain:	n/a	n/a
28	RCOR1	chr16:12071121-12071670	Hela-S3	cervix:	n/a	n/a
29	FOS	chr16:12071534-12071845	MCF10A-Er-Src	breast:	n/a	chr16:12071672-12071682 chr16:12071673-12071681
30	POLR2A	chr16:12069746-12071941	MCF10A-Er-Src	breast:	n/a	n/a
31	RFX5	chr16:12071497-12071703	Hela-S3	cervix:	n/a	n/a
32	MAFF	chr16:12071278-12071780	K562	blood:	n/a	n/a
33	IKZF1	chr16:12071241-12071666	GM12878	blood:	n/a	n/a
34	GTF2F1	chr16:12071330-12071762	Hela-S3	cervix:	n/a	n/a
35	POLR2A	chr16:12069610-12071849	GM18505	blood:	n/a	n/a
36	MXI1	chr16:12069562-12072323	SK-N-SH	brain:	n/a	n/a
37	FOS	chr16:12071527-12071823	MCF10A-Er-Src	breast:	n/a	chr16:12071672-12071682 chr16:12071673-12071681
38	POLR2A	chr16:12071483-12071607	K562	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr16:12006809..12011472-chr16:12069677..12072698,7	MCF-7	breast:
2	chr16:12070324..12072776-chr16:12897424..12899893,2	K562	blood:
3	chr16:12058363..12061770-chr16:12069205..12072370,4	MCF-7	breast:
4	chr16:12069629..12072468-chr16:12173207..12175470,2	MCF-7	breast:
5	chr16:12007711..12010113-chr16:12069770..12071913,2	MCF-7	breast:
6	chr16:12068621..12072204-chr16:12129850..12134239,5	MCF-7	breast:
7	chr16:12006532..12011371-chr16:12068460..12073371,6	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RP11-166B2.1.1-1	chr16:12071293-12071707	ENSG00000260488.1

Variant related genes	Relation type
ENSG00000234719	TF binding region
ENSG00000103342	Chromatin interaction
ENSG00000266163	Chromatin interaction
ENSG00000048471	Chromatin interaction
ENSG00000241641	Chromatin interaction
ENSG00000103381	Chromatin interaction
ENSG00000048462	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042660	chr16:11846873-12110435	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
2	nsv571458	chr16:11925008-12087282	Weak transcription Genic enhancers Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
3	nsv905347	chr16:12010444-12243329	Genic enhancers Strong transcription Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases
4	nsv1043096	chr16:12013915-12840769	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
5	nsv482458	chr16:12014925-12145977	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
6	nsv1043959	chr16:12039346-12285269	Weak transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
7	nsv527197	chr16:12071341-12073800	Weak transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
8	nsv974757	chr16:12071576-12072076	Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:116 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:12069400-12072000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr16:12069400-12072200	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr16:12069600-12071800	Active TSS	HUES64 Cell Line	embryonic stem cell
4	chr16:12069600-12071800	Flanking Active TSS	Primary hematopoietic stem cells	blood
5	chr16:12069600-12072000	Active TSS	ES-I3 Cell Line	embryonic stem cell
6	chr16:12069600-12072600	Active TSS	Fetal Kidney	kidney
7	chr16:12069800-12071800	Active TSS	Right Atrium	heart
8	chr16:12069800-12072000	Active TSS	Pancreatic Islets	Pancreatic Islet
9	chr16:12070000-12071800	Active TSS	HSMMtube	muscle
10	chr16:12070000-12071800	Active TSS	NHDF-Ad	bronchial
11	chr16:12070000-12072000	Active TSS	Ovary	ovary
12	chr16:12070000-12072400	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr16:12070200-12071800	Active TSS	NHLF	lung
14	chr16:12070200-12072000	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr16:12070200-12072200	Active TSS	GM12878-XiMat	blood
16	chr16:12070200-12072400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr16:12070400-12072200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr16:12070800-12071800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr16:12070800-12071800	Flanking Active TSS	Colonic Mucosa	Colon
20	chr16:12070800-12071800	Flanking Active TSS	Fetal Muscle Trunk	muscle
21	chr16:12070800-12072200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr16:12070800-12072400	Flanking Active TSS	Stomach Smooth Muscle	stomach
23	chr16:12070800-12072600	Flanking Active TSS	Primary B cells from cord blood	blood
24	chr16:12071000-12071800	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
25	chr16:12071000-12071800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr16:12071000-12071800	Flanking Active TSS	Fetal Adrenal Gland	Adrenal Gland
27	chr16:12071000-12071800	Flanking Active TSS	Fetal Muscle Leg	muscle
28	chr16:12071000-12071800	Flanking Active TSS	Fetal Thymus	thymus
29	chr16:12071000-12071800	Flanking Active TSS	HUVEC	blood vessel
30	chr16:12071000-12072000	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr16:12071000-12072000	Flanking Active TSS	Primary T cells from cord blood	blood
32	chr16:12071000-12072000	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
33	chr16:12071000-12072000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
34	chr16:12071000-12072000	Flanking Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr16:12071000-12072000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr16:12071000-12072000	Flanking Active TSS	Adipose Nuclei	Adipose
37	chr16:12071000-12072000	Flanking Active TSS	Brain Germinal Matrix	brain
38	chr16:12071000-12072000	Flanking Active TSS	Fetal Brain Female	brain
39	chr16:12071000-12072000	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
40	chr16:12071000-12072000	Flanking Active TSS	Dnd41	blood
41	chr16:12071000-12072000	Flanking Active TSS	NHEK	skin
42	chr16:12071000-12072600	Flanking Active TSS	Primary B cells from peripheral blood	blood
43	chr16:12071200-12071800	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
44	chr16:12071200-12071800	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
45	chr16:12071200-12071800	Flanking Active TSS	Brain Angular Gyrus	brain
46	chr16:12071200-12071800	Flanking Active TSS	Brain Anterior Caudate	brain
47	chr16:12071200-12071800	Flanking Active TSS	Rectal Smooth Muscle	rectum
48	chr16:12071200-12071800	Flanking Active TSS	Thymus	Thymus
49	chr16:12071200-12071800	Flanking Active TSS	Spleen	Spleen
50	chr16:12071200-12071800	Flanking Active TSS	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links