Variant report

Variant	rs4744112
Chromosome Location	chr9:94648911-94648912
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:94646595..94649139-chr9:94708273..94710120,2	K562	blood:
2	chr9:94647061..94649202-chr9:94659654..94661828,2	MCF-7	breast:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10116962	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10761132	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10761133	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10761134	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10761135	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10820910	0.92[CEU][hapmap];0.88[CHB][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10820911	0.85[CEU][hapmap]
rs10820914	0.85[CEU][hapmap]
rs10992135	0.81[CEU][hapmap]
rs10992145	0.81[CEU][hapmap]
rs10992149	0.88[CEU][hapmap]
rs10992151	0.88[CEU][hapmap]
rs10992154	0.83[CHB][hapmap]
rs11789973	0.84[CEU][hapmap]
rs12555334	0.82[CEU][hapmap]
rs12683797	0.92[CEU][hapmap]
rs12684524	0.88[CEU][hapmap];0.82[CHB][hapmap];0.81[JPT][hapmap];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12684533	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1528363	0.88[CEU][hapmap];0.87[CHB][hapmap];0.83[JPT][hapmap];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1528364	0.88[CEU][hapmap];0.88[CHB][hapmap];0.83[JPT][hapmap];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1534533	0.92[CEU][hapmap];0.87[CHB][hapmap];0.83[JPT][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1881391	0.83[CHB][hapmap];0.91[JPT][hapmap]
rs2312732	0.81[CEU][hapmap]
rs3905385	0.81[CEU][hapmap]
rs4430151	0.80[CEU][hapmap]
rs4517189	0.85[CEU][hapmap]
rs4744109	0.84[CEU][hapmap]
rs4744111	0.92[CEU][hapmap];0.88[CHB][hapmap];0.83[JPT][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4744113	0.92[CEU][hapmap]
rs4744114	0.83[CHB][hapmap]
rs62565675	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6479377	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6479379	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6479383	0.81[CEU][hapmap]
rs6479387	0.82[CHB][hapmap];0.90[JPT][hapmap]
rs7047587	0.85[ASN][1000 genomes]
rs7048756	0.81[CEU][hapmap]
rs7850118	0.81[CEU][hapmap]
rs7858435	0.95[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7867567	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7870049	0.88[CEU][hapmap];0.87[CHB][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045332	chr9:94352661-94656016	Active TSS Bivalent Enhancer Enhancers Strong transcription Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
2	nsv1047426	chr9:94363211-94758114	Weak transcription Bivalent Enhancer Active TSS Enhancers Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
3	nsv949008	chr9:94500776-95182133	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
4	nsv530946	chr9:94633154-94715023	Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:52 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:94627000-94650800	Weak transcription	Gastric	stomach
2	chr9:94643200-94650400	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr9:94644400-94650800	Weak transcription	Right Atrium	heart
4	chr9:94646000-94649800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr9:94646000-94651600	Enhancers	K562	blood
6	chr9:94646000-94652600	Enhancers	Ovary	ovary
7	chr9:94646000-94654800	Enhancers	Fetal Lung	lung
8	chr9:94646200-94650800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
9	chr9:94646600-94651000	Enhancers	Placenta	Placenta
10	chr9:94646600-94654600	Enhancers	Fetal Stomach	stomach
11	chr9:94646600-94658200	Weak transcription	Fetal Heart	heart
12	chr9:94647200-94650000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
13	chr9:94647200-94650000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr9:94647200-94652600	Enhancers	Fetal Intestine Large	intestine
15	chr9:94647400-94649200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr9:94647600-94649000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr9:94647600-94649000	Weak transcription	NHLF	lung
18	chr9:94647600-94649400	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
19	chr9:94647600-94650000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr9:94647800-94649000	Weak transcription	Osteobl	bone
21	chr9:94647800-94649800	Weak transcription	Stomach Smooth Muscle	stomach
22	chr9:94647800-94652200	Weak transcription	Brain Substantia Nigra	brain
23	chr9:94648000-94649000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr9:94648000-94649000	Weak transcription	Fetal Intestine Small	intestine
25	chr9:94648000-94649200	Genic enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr9:94648000-94649200	Weak transcription	Colon Smooth Muscle	Colon
27	chr9:94648000-94650800	Weak transcription	Brain Hippocampus Middle	brain
28	chr9:94648400-94649200	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
29	chr9:94648400-94651000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr9:94648600-94649000	Flanking Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr9:94648600-94649200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
32	chr9:94648600-94649200	Active TSS	iPS-15b Cell Line	embryonic stem cell
33	chr9:94648600-94649400	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
34	chr9:94648600-94649400	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
35	chr9:94648600-94650000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr9:94648600-94650000	Enhancers	Fetal Kidney	kidney
37	chr9:94648600-94650000	Enhancers	Placenta Amnion	Placenta Amnion
38	chr9:94648600-94650000	Enhancers	NH-A	brain
39	chr9:94648800-94649000	Bivalent Enhancer	H1 Cell Line	embryonic stem cell
40	chr9:94648800-94649000	Active TSS	HUES6 Cell Line	embryonic stem cell
41	chr9:94648800-94649000	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
42	chr9:94648800-94649000	Bivalent/Poised TSS	iPS DF 6.9 Cell Line	embryonic stem cell
43	chr9:94648800-94649000	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
44	chr9:94648800-94649000	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
45	chr9:94648800-94649200	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
46	chr9:94648800-94649400	Active TSS	ES-I3 Cell Line	embryonic stem cell
47	chr9:94648800-94649400	Flanking Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr9:94648800-94649400	Bivalent Enhancer	Fetal Muscle Leg	muscle
49	chr9:94648800-94649600	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
50	chr9:94648800-94653200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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