Variant report

Variant	rs7677757
Chromosome Location	chr4:142149096-142149097
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	chr4:142147670..142151486-chr4:142153035..142157398,7	K562	blood:

Extended variants
information (count: 23 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10005409	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10005476	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10020128	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13105932	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1435128	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];0.96[MEX][hapmap];1.00[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1550056	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17349862	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs28700051	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4645293	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6537037	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6822047	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6822261	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6827471	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6855160	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6855552	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6856508	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs732624	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7672861	1.00[CEU][hapmap];0.88[CHB][hapmap];0.96[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7692424	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs920039	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9996068	0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2757959	chr4:142065661-142367951	Enhancers Weak transcription Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	esv2759287	chr4:142065661-142367951	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7677757	IL15	cis	cerebellum	SCAN
rs7677757	SCOC	cis	parietal	SCAN

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:142142600-142159400	Weak transcription	Spleen	Spleen
2	chr4:142142800-142150400	Weak transcription	Ovary	ovary
3	chr4:142142800-142150600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr4:142142800-142150600	Weak transcription	Esophagus	oesophagus
5	chr4:142142800-142150600	Weak transcription	Gastric	stomach
6	chr4:142142800-142150600	Weak transcription	Lung	lung
7	chr4:142142800-142150600	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr4:142142800-142150800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr4:142142800-142151000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr4:142142800-142154800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr4:142142800-142154800	Weak transcription	Pancreas	Pancrea
12	chr4:142143000-142149400	Weak transcription	Fetal Muscle Trunk	muscle
13	chr4:142143000-142150600	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr4:142143000-142150600	Weak transcription	Thymus	Thymus
15	chr4:142143000-142151800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr4:142143000-142152800	Weak transcription	Brain Germinal Matrix	brain
17	chr4:142143000-142154600	Weak transcription	Colonic Mucosa	Colon
18	chr4:142143200-142150800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
19	chr4:142143200-142153000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr4:142143200-142153200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr4:142143200-142154800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr4:142143200-142157000	Weak transcription	Placenta Amnion	Placenta Amnion
23	chr4:142143400-142150600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
24	chr4:142143400-142150600	Weak transcription	Aorta	Aorta
25	chr4:142143400-142154800	Weak transcription	Fetal Stomach	stomach
26	chr4:142143400-142155000	Weak transcription	Fetal Brain Female	brain
27	chr4:142143400-142156400	Weak transcription	Stomach Mucosa	stomach
28	chr4:142143600-142149600	Weak transcription	A549	lung
29	chr4:142143600-142150600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr4:142143600-142154400	Weak transcription	HSMMtube	muscle
31	chr4:142143600-142154800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr4:142143600-142154800	Weak transcription	Fetal Intestine Small	intestine
33	chr4:142143600-142156400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr4:142143600-142156400	Strong transcription	HUES64 Cell Line	embryonic stem cell
35	chr4:142143800-142150600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr4:142143800-142150600	Weak transcription	Brain Anterior Caudate	brain
37	chr4:142143800-142150600	Weak transcription	Colon Smooth Muscle	Colon
38	chr4:142143800-142150600	Weak transcription	Fetal Brain Male	brain
39	chr4:142143800-142156600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
40	chr4:142143800-142156800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr4:142143800-142157000	Strong transcription	Primary B cells from peripheral blood	blood
42	chr4:142143800-142158800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
43	chr4:142144000-142150600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr4:142144000-142155400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
45	chr4:142144000-142156400	Strong transcription	HUES48 Cell Line	embryonic stem cell
46	chr4:142144000-142156800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
47	chr4:142144000-142156800	Weak transcription	Pancreatic Islets	Pancreatic Islet
48	chr4:142144000-142157000	Strong transcription	Fetal Thymus	thymus
49	chr4:142144000-142157200	Strong transcription	Primary T cells fromperipheralblood	blood
50	chr4:142144000-142158000	Strong transcription	HSMM	muscle

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