Variant report

Variant	rs7977553
Chromosome Location	chr12:104747986-104747987
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:104744585..104747269-chr12:104747658..104751523,4	K562	blood:
2	chr12:104741157..104743951-chr12:104747140..104749533,2	K562	blood:

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10778321	1.00[CHB][hapmap];0.86[JPT][hapmap];0.92[ASN][1000 genomes]
rs10861185	0.82[CHB][hapmap];0.88[CHD][hapmap];0.86[JPT][hapmap]
rs10861187	1.00[CHB][hapmap];0.93[CHD][hapmap];0.86[JPT][hapmap];0.88[MKK][hapmap];0.92[ASN][1000 genomes]
rs10861190	0.84[ASN][1000 genomes]
rs10861193	0.92[ASN][1000 genomes]
rs10861195	0.92[ASN][1000 genomes]
rs10861196	0.92[ASN][1000 genomes]
rs10861197	1.00[CHB][hapmap];0.93[CHD][hapmap];0.86[JPT][hapmap];0.92[ASN][1000 genomes]
rs10861198	0.92[ASN][1000 genomes]
rs10861199	0.92[ASN][1000 genomes]
rs10861205	0.91[AFR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10861206	0.91[AFR][1000 genomes];0.99[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10861208	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10861209	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10861210	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10861211	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11111979	1.00[CHB][hapmap];0.86[JPT][hapmap];0.91[ASN][1000 genomes]
rs11111980	1.00[CHB][hapmap];0.86[JPT][hapmap];0.92[ASN][1000 genomes]
rs11111981	0.92[ASN][1000 genomes]
rs11111984	0.92[ASN][1000 genomes]
rs11111987	0.95[CHB][hapmap];0.93[CHD][hapmap];0.86[JPT][hapmap];0.91[ASN][1000 genomes]
rs11111995	0.92[ASN][1000 genomes]
rs11111996	0.92[ASN][1000 genomes]
rs11112006	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11112007	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11609469	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12811618	0.91[ASN][1000 genomes]
rs17202060	0.95[CHB][hapmap];0.93[CHD][hapmap];0.86[JPT][hapmap];0.91[ASN][1000 genomes]
rs17202520	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28672744	0.89[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs4075411	0.92[ASN][1000 genomes]
rs4436618	0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4595619	1.00[CHB][hapmap];0.86[JPT][hapmap];0.90[YRI][hapmap];0.85[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs4601859	0.92[ASN][1000 genomes]
rs4964782	0.95[CHB][hapmap];0.93[CHD][hapmap];0.91[JPT][hapmap];0.83[MKK][hapmap];0.83[YRI][hapmap];0.92[ASN][1000 genomes]
rs4964783	0.85[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs4964785	0.91[ASN][1000 genomes]
rs4964788	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs5018287	1.00[CHB][hapmap];0.93[CHD][hapmap];0.86[JPT][hapmap];0.92[ASN][1000 genomes]
rs7132675	0.85[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs7294778	1.00[CHB][hapmap];0.93[CHD][hapmap];0.86[JPT][hapmap];0.81[YRI][hapmap];0.92[ASN][1000 genomes]
rs7298739	0.92[ASN][1000 genomes]
rs7488680	1.00[CHB][hapmap];0.93[CHD][hapmap];0.86[JPT][hapmap];0.80[YRI][hapmap];0.92[ASN][1000 genomes]
rs7953266	0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7977410	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7978051	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv899494	chr12:104561521-104806232	Flanking Active TSS Weak transcription Genic enhancers Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv1046606	chr12:104606617-104763734	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv1038609	chr12:104613847-104764981	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Genic enhancers 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	32 gene(s)	inside rSNPs	diseases
4	nsv541587	chr12:104613847-104764981	Strong transcription Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
5	nsv1048075	chr12:104694799-104751460	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
6	nsv541588	chr12:104694799-104751460	ZNF genes & repeats Strong transcription Weak transcription Genic enhancers Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:104703000-104749200	Strong transcription	Monocytes-CD14+_RO01746	blood
2	chr12:104709800-104749200	Strong transcription	HUVEC	blood vessel
3	chr12:104717800-104748000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr12:104721800-104760000	Weak transcription	Stomach Mucosa	stomach
5	chr12:104725000-104749400	Strong transcription	Primary neutrophils fromperipheralblood	blood
6	chr12:104727200-104748600	Strong transcription	Primary monocytes fromperipheralblood	blood
7	chr12:104727400-104748600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
8	chr12:104727400-104749000	Strong transcription	HMEC	breast
9	chr12:104728800-104755000	Weak transcription	Fetal Heart	heart
10	chr12:104732800-104748200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr12:104734000-104750400	Weak transcription	Fetal Brain Male	brain
12	chr12:104735200-104749000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
13	chr12:104738800-104748600	Strong transcription	NH-A	brain
14	chr12:104739400-104749600	Strong transcription	HSMM	muscle
15	chr12:104739600-104749000	Strong transcription	Thymus	Thymus
16	chr12:104740200-104749000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
17	chr12:104740200-104749200	Strong transcription	HSMMtube	muscle
18	chr12:104741000-104749200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr12:104741000-104749200	Strong transcription	NHLF	lung
20	chr12:104741200-104749000	Strong transcription	Primary T cells from cord blood	blood
21	chr12:104741200-104749200	Strong transcription	Left Ventricle	heart
22	chr12:104741600-104749000	Strong transcription	Fetal Muscle Leg	muscle
23	chr12:104741800-104750000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
24	chr12:104742800-104750000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
25	chr12:104742800-104750400	Weak transcription	Brain Cingulate Gyrus	brain
26	chr12:104743000-104749000	Strong transcription	Skeletal Muscle Female	skeletal muscle
27	chr12:104743600-104751200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr12:104744000-104748400	Weak transcription	Brain Germinal Matrix	brain
29	chr12:104744800-104749200	Weak transcription	Colonic Mucosa	Colon
30	chr12:104744800-104752000	Weak transcription	Primary T helper cells PMA-I stimulated	--
31	chr12:104745000-104749600	Weak transcription	Right Atrium	heart
32	chr12:104745000-104749800	Weak transcription	Fetal Kidney	kidney
33	chr12:104745000-104750400	Weak transcription	Brain Anterior Caudate	brain
34	chr12:104745000-104750800	Weak transcription	Brain Hippocampus Middle	brain
35	chr12:104745000-104752200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
36	chr12:104745000-104761400	Weak transcription	Psoas Muscle	Psoas
37	chr12:104745200-104748200	Weak transcription	Primary B cells from peripheral blood	blood
38	chr12:104745200-104748200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr12:104745200-104748600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr12:104745200-104749200	Weak transcription	Fetal Intestine Large	intestine
41	chr12:104745200-104750400	Weak transcription	Esophagus	oesophagus
42	chr12:104745200-104750800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr12:104745400-104750600	Weak transcription	Brain Substantia Nigra	brain
44	chr12:104745400-104754000	Weak transcription	Skeletal Muscle Male	skeletal muscle
45	chr12:104745600-104750000	Weak transcription	Fetal Brain Female	brain
46	chr12:104745800-104748200	Weak transcription	Spleen	Spleen
47	chr12:104745800-104754000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
48	chr12:104746000-104748600	Weak transcription	Fetal Lung	lung
49	chr12:104746000-104749200	Strong transcription	HUES64 Cell Line	embryonic stem cell
50	chr12:104746000-104750000	Weak transcription	Duodenum Mucosa	Duodenum

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