Variant report

Variant	rs6906090
Chromosome Location	chr6:37619520-37619521
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:2)
CpG islands
(count:0)
Chromatin interactive
region (count:5)
LncRNA
region (count:2)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:2 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	STAT3	chr6:37619416-37619549	MCF10A-Er-Src	breast:	n/a	n/a
2	MAX	chr6:37619437-37620114	K562	blood:	n/a	chr6:37619652-37619662

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:37601234..37603729-chr6:37618295..37621074,2	MCF-7	breast:
2	chr6:37618601..37620441-chr6:37621823..37624720,2	K562	blood:
3	chr6:37618357..37620078-chr6:37641465..37644399,2	K562	blood:
4	chr6:37618578..37621552-chr6:37642899..37645409,2	K562	blood:
5	chr6:37614974..37617013-chr6:37618850..37621278,2	MCF-7	breast:

(count:2 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CCDC167-4	chr6:37619307-37619660	NONHSAT112280
2	lnc-CCDC167-4	chr6:37618994-37619648	NONHSAT112279

No data

Variant related genes	Relation type
MDGA1	TF binding region
ENSG00000112139	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10807186	0.96[ASN][1000 genomes]
rs13198513	0.96[ASN][1000 genomes]
rs13199974	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13203140	0.92[ASN][1000 genomes]
rs13204070	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13212859	0.96[ASN][1000 genomes]
rs1738456	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1883899	0.92[ASN][1000 genomes]
rs1883900	0.92[ASN][1000 genomes]
rs2273109	0.96[ASN][1000 genomes]
rs2273110	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3846873	0.98[ASN][1000 genomes]
rs3846874	0.96[ASN][1000 genomes]
rs3846876	0.96[ASN][1000 genomes]
rs3846879	0.92[ASN][1000 genomes]
rs3857567	0.88[ASN][1000 genomes]
rs3857568	0.96[ASN][1000 genomes]
rs3857571	0.92[ASN][1000 genomes]
rs4236056	0.96[ASN][1000 genomes]
rs4357132	0.92[ASN][1000 genomes]
rs4711509	0.94[ASN][1000 genomes]
rs6930085	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs708020	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs708021	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs708022	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7452633	0.96[ASN][1000 genomes]
rs7452676	0.96[ASN][1000 genomes]
rs7452692	0.96[ASN][1000 genomes]
rs761413	0.83[ASN][1000 genomes]
rs7775837	0.96[ASN][1000 genomes]
rs804816	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs804817	0.99[ASN][1000 genomes]
rs813079	0.99[ASN][1000 genomes]
rs9366945	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9369015	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9394447	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9462343	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2752124	chr6:37416219-37680622	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
2	nsv1028825	chr6:37495154-38278320	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv1024016	chr6:37567651-37981590	Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37599200-37621800	Weak transcription	NHLF	lung
2	chr6:37612600-37619800	Weak transcription	Brain Cingulate Gyrus	brain
3	chr6:37614200-37621800	Weak transcription	Aorta	Aorta
4	chr6:37616800-37619600	Weak transcription	Brain Substantia Nigra	brain
5	chr6:37617000-37620200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr6:37617200-37619600	Weak transcription	Brain Anterior Caudate	brain
7	chr6:37617200-37619600	Weak transcription	Ovary	ovary
8	chr6:37617200-37619600	Weak transcription	Right Atrium	heart
9	chr6:37617200-37621600	Weak transcription	Esophagus	oesophagus
10	chr6:37617200-37622400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr6:37618000-37621800	Weak transcription	Colon Smooth Muscle	Colon
12	chr6:37618200-37619600	Weak transcription	Left Ventricle	heart
13	chr6:37618200-37621800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr6:37618200-37631600	Weak transcription	Gastric	stomach
15	chr6:37618400-37622000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr6:37618600-37619600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr6:37618800-37621800	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr6:37618800-37622000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr6:37618800-37622000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr6:37619000-37620400	Weak transcription	Brain Hippocampus Middle	brain
21	chr6:37619200-37620000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr6:37619200-37620200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung

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