Variant report

Variant	rs17679141
Chromosome Location	chr9:97842479-97842480
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:97842032..97844284-chr9:97846678..97849140,2	K562	blood:
2	chr9:97831860..97833913-chr9:97840782..97843429,2	K562	blood:
3	chr9:97841541..97843172-chr9:97847391..97849131,2	MCF-7	breast:
4	chr9:97840591..97843019-chr9:97853758..97855499,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000207617	Chromatin interaction
ENSG00000207563	Chromatin interaction
ENSG00000207864	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10283758	0.96[CEU][hapmap];0.96[GIH][hapmap];0.82[MEX][hapmap];1.00[MKK][hapmap];0.90[TSI][hapmap];0.82[EUR][1000 genomes]
rs10993390	1.00[JPT][hapmap]
rs10993391	1.00[CHD][hapmap]
rs10993475	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10993479	0.85[EUR][1000 genomes]
rs10993483	0.85[EUR][1000 genomes]
rs12338907	0.96[CEU][hapmap];1.00[CHB][hapmap];0.82[EUR][1000 genomes]
rs12342782	0.82[EUR][1000 genomes]
rs12344052	1.00[CHD][hapmap]
rs12344626	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12350646	0.96[CEU][hapmap];1.00[CHB][hapmap];0.82[EUR][1000 genomes]
rs12352586	0.96[CEU][hapmap];1.00[CHB][hapmap];0.82[EUR][1000 genomes]
rs12377946	0.84[EUR][1000 genomes]
rs1889241	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.97[TSI][hapmap];1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28626189	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4237226	0.82[EUR][1000 genomes]
rs4647404	0.96[CEU][hapmap];0.96[GIH][hapmap];0.88[MEX][hapmap];1.00[MKK][hapmap];0.90[TSI][hapmap]
rs4647421	0.96[CEU][hapmap];1.00[CHB][hapmap];0.96[GIH][hapmap];0.88[MEX][hapmap];1.00[MKK][hapmap];0.88[TSI][hapmap];0.82[EUR][1000 genomes]
rs4647432	0.96[CEU][hapmap];0.96[GIH][hapmap];0.83[MEX][hapmap];1.00[MKK][hapmap];0.90[TSI][hapmap];0.82[EUR][1000 genomes]
rs4647441	0.82[EUR][1000 genomes]
rs4743990	0.89[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs4744443	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4744444	0.89[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs4744445	0.96[CEU][hapmap];1.00[CHB][hapmap];0.82[EUR][1000 genomes]
rs62560523	0.81[EUR][1000 genomes]
rs640628	0.83[TSI][hapmap]
rs879559	0.88[CEU][hapmap];0.89[AFR][1000 genomes];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases
2	nsv1038106	chr9:97793038-97881416	Weak transcription Strong transcription Bivalent/Poised TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases
3	nsv1038523	chr9:97797032-97923774	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases
4	nsv540175	chr9:97797032-97923774	Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases
5	nsv831656	chr9:97831551-97989980	Weak transcription Strong transcription Active TSS Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97813000-97873000	Weak transcription	K562	blood
2	chr9:97820000-97854200	Weak transcription	Fetal Brain Male	brain
3	chr9:97820400-97843000	Weak transcription	Primary T cells from cord blood	blood
4	chr9:97820600-97875000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr9:97821400-97843200	Weak transcription	Fetal Brain Female	brain
6	chr9:97822800-97845400	Weak transcription	Primary B cells from cord blood	blood
7	chr9:97823600-97845000	Weak transcription	Primary T helper cells PMA-I stimulated	--
8	chr9:97824800-97844600	Weak transcription	Fetal Thymus	thymus
9	chr9:97825400-97854400	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr9:97825800-97843400	Weak transcription	Thymus	Thymus
11	chr9:97825800-97852600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr9:97826000-97842800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
13	chr9:97826200-97843200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr9:97826200-97847400	Weak transcription	HUVEC	blood vessel
15	chr9:97826400-97842800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr9:97826400-97844200	Weak transcription	GM12878-XiMat	blood
17	chr9:97830600-97843200	Weak transcription	Primary hematopoietic stem cells	blood
18	chr9:97830600-97844800	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr9:97835400-97845200	Weak transcription	HMEC	breast
20	chr9:97836800-97844600	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr9:97837400-97843000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr9:97837400-97843200	Enhancers	Brain Substantia Nigra	brain
23	chr9:97838000-97871200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
24	chr9:97838200-97843200	Enhancers	Brain Cingulate Gyrus	brain
25	chr9:97838600-97843200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr9:97838600-97844400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr9:97838800-97843200	Enhancers	Brain Angular Gyrus	brain
28	chr9:97838800-97844400	Genic enhancers	Fetal Stomach	stomach
29	chr9:97839200-97843000	Weak transcription	Pancreatic Islets	Pancreatic Islet
30	chr9:97839200-97843600	Genic enhancers	Ovary	ovary
31	chr9:97839200-97844600	Enhancers	Cortex derived primary cultured neurospheres	brain
32	chr9:97839200-97845800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr9:97839600-97842600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr9:97839600-97845800	Genic enhancers	HSMM	muscle
35	chr9:97839600-97850400	Strong transcription	HepG2	liver
36	chr9:97839600-97851000	Genic enhancers	A549	lung
37	chr9:97839800-97842600	Transcr. at gene 5' and 3'	Stomach Smooth Muscle	stomach
38	chr9:97839800-97843000	Weak transcription	Adipose Nuclei	Adipose
39	chr9:97840000-97842600	Enhancers	Colon Smooth Muscle	Colon
40	chr9:97840000-97843200	Enhancers	Brain Anterior Caudate	brain
41	chr9:97840000-97850000	Strong transcription	Osteobl	bone
42	chr9:97840200-97842800	Weak transcription	NHDF-Ad	bronchial
43	chr9:97840200-97843400	Weak transcription	Hela-S3	cervix
44	chr9:97840200-97846000	Genic enhancers	Left Ventricle	heart
45	chr9:97840800-97851800	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr9:97841000-97843000	Enhancers	iPS-18 Cell Line	embryonic stem cell
47	chr9:97841000-97843000	Enhancers	Brain Inferior Temporal Lobe	brain
48	chr9:97841000-97845000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr9:97841200-97842600	Enhancers	Fetal Heart	heart
50	chr9:97841200-97842800	Weak transcription	Esophagus	oesophagus

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