Variant report

Variant	rs2431508
Chromosome Location	chr5:112147099-112147100
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 1 )

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	1.00[CEU][hapmap];0.81[EUR][1000 genomes]
rs1661032	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1661034	0.85[CEU][hapmap];0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1697914	1.00[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	0.85[CEU][hapmap];0.93[EUR][1000 genomes]
rs1734246	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs1734247	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2229994	1.00[YRI][hapmap]
rs2431505	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2431507	1.00[CEU][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2431509	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2431511	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2439590	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2439592	1.00[CEU][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2439593	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs2439594	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs2455294	1.00[CEU][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2455296	1.00[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[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2464810	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs2909784	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2909961	0.94[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

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2431508	DCP2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:123 , 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	chr5:112129000-112149800	Weak transcription	Left Ventricle	heart
10	chr5:112129000-112151600	Weak transcription	Hela-S3	cervix
11	chr5:112129000-112154600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr5:112129000-112157400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr5:112129400-112163800	Weak transcription	Small Intestine	intestine
14	chr5:112129600-112163600	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr5:112129800-112154800	Weak transcription	NH-A	brain
16	chr5:112130600-112150000	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr5:112130600-112150200	Weak transcription	NHLF	lung
18	chr5:112130600-112154800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr5:112130600-112155400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr5:112130600-112155600	Weak transcription	Fetal Heart	heart
21	chr5:112130800-112149800	Weak transcription	Lung	lung
22	chr5:112130800-112150000	Weak transcription	Spleen	Spleen
23	chr5:112130800-112150200	Weak transcription	Aorta	Aorta
24	chr5:112130800-112151200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr5:112130800-112151400	Weak transcription	H1 Cell Line	embryonic stem cell
26	chr5:112130800-112154800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr5:112130800-112155400	Weak transcription	Rectal Smooth Muscle	rectum
28	chr5:112131200-112151200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
29	chr5:112131200-112151200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr5:112131400-112151200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr5:112131800-112157800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
32	chr5:112131800-112164000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
33	chr5:112132000-112150800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr5:112132000-112154800	Weak transcription	Skeletal Muscle Male	skeletal muscle
35	chr5:112132000-112174000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
36	chr5:112132200-112151200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr5:112132200-112155200	Weak transcription	Fetal Brain Male	brain
38	chr5:112132800-112179800	Strong transcription	Cortex derived primary cultured neurospheres	brain
39	chr5:112133400-112150400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
40	chr5:112133400-112151200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr5:112133400-112154800	Weak transcription	HepG2	liver
42	chr5:112133600-112150000	Weak transcription	Skeletal Muscle Female	skeletal muscle
43	chr5:112133600-112160800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
44	chr5:112133600-112161400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
45	chr5:112134000-112153600	Weak transcription	NHDF-Ad	bronchial
46	chr5:112134000-112162800	Weak transcription	Colon Smooth Muscle	Colon
47	chr5:112136600-112176200	Strong transcription	Primary monocytes fromperipheralblood	blood
48	chr5:112137000-112150000	Weak transcription	Brain Substantia Nigra	brain
49	chr5:112137000-112151200	Weak transcription	Pancreas	Pancrea
50	chr5:112137000-112154800	Weak transcription	HUVEC	blood vessel

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