Variant report

Variant	rs2431505
Chromosome Location	chr5:112140772-112140773
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs11953943	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11960216	0.84[EUR][1000 genomes]
rs1644239	0.93[EUR][1000 genomes]
rs1644240	0.84[EUR][1000 genomes]
rs1644241	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1644242	0.89[CEU][hapmap];0.81[EUR][1000 genomes]
rs1661032	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1661034	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1697914	0.89[CEU][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1697916	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17134960	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1734245	0.90[CEU][hapmap];0.93[EUR][1000 genomes]
rs1734246	0.89[CEU][hapmap];0.84[EUR][1000 genomes]
rs1734247	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2229994	1.00[YRI][hapmap]
rs2431507	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2431508	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2431509	0.89[CEU][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2431511	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2439590	0.89[CEU][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2439592	0.89[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2439593	0.89[CEU][hapmap];0.85[EUR][1000 genomes]
rs2439594	0.89[CEU][hapmap];0.84[EUR][1000 genomes]
rs2455294	0.89[CEU][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2455296	0.89[CEU][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2464801	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2464802	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2464808	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2464810	0.89[CEU][hapmap];0.85[EUR][1000 genomes]
rs2909784	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2909961	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2909962	1.00[CEU][hapmap];0.92[EUR][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	nsv1032464	chr5:112076061-112192380	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
2	nsv537862	chr5:112076061-112192380	Weak transcription Genic enhancers Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
3	esv33290	chr5:112110808-112238295	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
4	nsv1029271	chr5:112113308-112325943	Strong transcription Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:112093400-112183800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr5:112100000-112152200	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr5:112103000-112173200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr5:112104600-112155400	Weak transcription	Psoas Muscle	Psoas
5	chr5:112115800-112151200	Weak transcription	NHEK	skin
6	chr5:112118200-112151200	Weak transcription	Gastric	stomach
7	chr5:112118200-112155600	Weak transcription	Right Ventricle	heart
8	chr5:112118200-112177000	Weak transcription	Colonic Mucosa	Colon
9	chr5:112123600-112141800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr5:112124000-112144800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
11	chr5:112126800-112142000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr5:112129000-112144200	Weak transcription	Esophagus	oesophagus
13	chr5:112129000-112149800	Weak transcription	Left Ventricle	heart
14	chr5:112129000-112151600	Weak transcription	Hela-S3	cervix
15	chr5:112129000-112154600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
16	chr5:112129000-112157400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr5:112129400-112163800	Weak transcription	Small Intestine	intestine
18	chr5:112129600-112163600	Weak transcription	Placenta Amnion	Placenta Amnion
19	chr5:112129800-112154800	Weak transcription	NH-A	brain
20	chr5:112130400-112145800	Weak transcription	Placenta	Placenta
21	chr5:112130600-112144000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr5:112130600-112150000	Weak transcription	Rectal Mucosa Donor 31	rectum
23	chr5:112130600-112150200	Weak transcription	NHLF	lung
24	chr5:112130600-112154800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr5:112130600-112155400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr5:112130600-112155600	Weak transcription	Fetal Heart	heart
27	chr5:112130800-112143800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr5:112130800-112146600	Weak transcription	HSMMtube	muscle
29	chr5:112130800-112149800	Weak transcription	Lung	lung
30	chr5:112130800-112150000	Weak transcription	Spleen	Spleen
31	chr5:112130800-112150200	Weak transcription	Aorta	Aorta
32	chr5:112130800-112151200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
33	chr5:112130800-112151400	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr5:112130800-112154800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr5:112130800-112155400	Weak transcription	Rectal Smooth Muscle	rectum
36	chr5:112131000-112140800	Weak transcription	Osteobl	bone
37	chr5:112131000-112142400	Weak transcription	Fetal Intestine Small	intestine
38	chr5:112131000-112144200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr5:112131200-112146400	Weak transcription	H9 Cell Line	embryonic stem cell
40	chr5:112131200-112151200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr5:112131200-112151200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr5:112131400-112146600	Weak transcription	Ovary	ovary
43	chr5:112131400-112151200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
44	chr5:112131800-112157800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr5:112131800-112164000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
46	chr5:112132000-112141600	Weak transcription	GM12878-XiMat	blood
47	chr5:112132000-112150800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
48	chr5:112132000-112154800	Weak transcription	Skeletal Muscle Male	skeletal muscle
49	chr5:112132000-112174000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
50	chr5:112132200-112146800	Weak transcription	Muscle Satellite Cultured Cells	--

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