Variant report

Variant	rs7668673
Chromosome Location	chr4:6919674-6919675
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:14)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr4:6848060..6850922-chr4:6918531..6921192,2	K562	blood:
2	chr4:6918420..6921735-chr4:6987729..6990156,3	MCF-7	breast:
3	chr4:6918931..6921040-chr4:6988107..6990008,2	MCF-7	breast:
4	chr4:6917607..6919968-chr4:7075757..7078476,3	K562	blood:
5	chr4:6918951..6920987-chr4:6946551..6948090,2	K562	blood:
6	chr4:6918829..6920609-chr4:6923833..6926676,3	MCF-7	breast:
7	chr4:6918904..6922027-chr4:6935797..6939427,3	K562	blood:
8	chr4:6918088..6920742-chr4:6973003..6977658,4	MCF-7	breast:
9	chr4:6919019..6922027-chr4:6936429..6940367,3	K562	blood:
10	chr4:6750069..6752754-chr4:6918064..6920984,3	MCF-7	breast:
11	chr4:6918816..6920459-chr4:6968873..6971872,2	MCF-7	breast:
12	chr4:6918292..6921152-chr4:7071780..7074246,2	MCF-7	breast:
13	chr4:6917201..6921579-chr4:6924492..6930074,6	MCF-7	breast:
14	chr4:6917668..6920987-chr4:6945472..6948090,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000132405	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10013211	0.85[JPT][hapmap]
rs10015163	0.85[JPT][hapmap]
rs10019900	0.84[CHB][hapmap];0.85[JPT][hapmap]
rs10804990	0.81[JPT][hapmap]
rs10937762	0.81[JPT][hapmap]
rs10937763	0.81[JPT][hapmap]
rs10937768	0.88[CHB][hapmap];0.81[JPT][hapmap]
rs11728984	0.89[CHB][hapmap];0.85[JPT][hapmap]
rs11732389	0.89[CHB][hapmap];0.85[JPT][hapmap]
rs41516949	0.89[CHB][hapmap];0.85[JPT][hapmap]
rs4315786	0.85[JPT][hapmap]
rs4346651	0.84[CHB][hapmap];0.81[JPT][hapmap]
rs4484301	0.85[JPT][hapmap]
rs4608812	0.88[JPT][hapmap]
rs4689558	0.81[JPT][hapmap]
rs4689562	0.85[JPT][hapmap]
rs6446550	0.83[ASN][1000 genomes]
rs6446551	0.83[ASN][1000 genomes]
rs6446552	0.89[CHB][hapmap];0.85[JPT][hapmap];0.83[ASN][1000 genomes]
rs6446553	0.89[CHB][hapmap];0.85[JPT][hapmap]
rs6831368	0.84[CHB][hapmap];0.81[JPT][hapmap]
rs6848114	0.84[CHB][hapmap];0.85[JPT][hapmap]
rs7689337	0.83[ASN][1000 genomes]
rs9291121	0.85[JPT][hapmap]
rs9291123	0.85[JPT][hapmap]
rs9790586	0.81[JPT][hapmap]

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	nsv878529	chr4:6883012-6983677	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv878530	chr4:6888932-7058473	Strong transcription Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7668673	CYTL1	cis	cerebellum	SCAN

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:6912600-6920000	Weak transcription	HSMM	muscle
2	chr4:6912600-6925400	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr4:6913200-6922600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
4	chr4:6913200-6925200	Weak transcription	NHLF	lung
5	chr4:6913600-6920000	Enhancers	Liver	Liver
6	chr4:6913600-6920200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr4:6915200-6920400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr4:6915200-6920800	Enhancers	Fetal Intestine Large	intestine
9	chr4:6915800-6921200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
10	chr4:6915800-6921400	Enhancers	Primary monocytes fromperipheralblood	blood
11	chr4:6916400-6920800	Enhancers	Sigmoid Colon	Sigmoid Colon
12	chr4:6916800-6920800	Enhancers	Lung	lung
13	chr4:6916800-6923200	Enhancers	Fetal Thymus	thymus
14	chr4:6917000-6920200	Enhancers	Right Ventricle	heart
15	chr4:6917000-6920400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr4:6917000-6920400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr4:6917000-6920800	Enhancers	Primary B cells from peripheral blood	blood
18	chr4:6917000-6920800	Enhancers	Adipose Nuclei	Adipose
19	chr4:6917000-6920800	Enhancers	Placenta	Placenta
20	chr4:6917000-6920800	Enhancers	Spleen	Spleen
21	chr4:6917000-6924200	Genic enhancers	Fetal Intestine Small	intestine
22	chr4:6917200-6919800	Enhancers	Stomach Mucosa	stomach
23	chr4:6917200-6920000	Enhancers	Brain Angular Gyrus	brain
24	chr4:6917200-6920400	Enhancers	Pancreas	Pancrea
25	chr4:6917200-6920400	Enhancers	Skeletal Muscle Male	skeletal muscle
26	chr4:6917200-6920800	Enhancers	Fetal Muscle Leg	muscle
27	chr4:6917200-6920800	Enhancers	Small Intestine	intestine
28	chr4:6917200-6921000	Enhancers	Gastric	stomach
29	chr4:6917200-6922400	Enhancers	Fetal Stomach	stomach
30	chr4:6917200-6922600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
31	chr4:6917400-6920400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
32	chr4:6917400-6920800	Enhancers	Cortex derived primary cultured neurospheres	brain
33	chr4:6917800-6920000	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
34	chr4:6917800-6920200	Enhancers	Brain Inferior Temporal Lobe	brain
35	chr4:6917800-6920400	Enhancers	Breast Myoepithelial Primary Cells	Breast
36	chr4:6917800-6920400	Enhancers	Left Ventricle	heart
37	chr4:6917800-6921400	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
38	chr4:6918000-6920000	Enhancers	HMEC	breast
39	chr4:6918000-6920200	Enhancers	HUVEC	blood vessel
40	chr4:6918000-6920400	Enhancers	ES-I3 Cell Line	embryonic stem cell
41	chr4:6918000-6920400	Enhancers	HUES6 Cell Line	embryonic stem cell
42	chr4:6918000-6920400	Enhancers	HUES64 Cell Line	embryonic stem cell
43	chr4:6918000-6920400	Flanking Active TSS	Duodenum Mucosa	Duodenum
44	chr4:6918000-6920400	Enhancers	Psoas Muscle	Psoas
45	chr4:6918000-6920600	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
46	chr4:6918000-6920800	Enhancers	Brain Hippocampus Middle	brain
47	chr4:6918000-6920800	Enhancers	Fetal Muscle Trunk	muscle
48	chr4:6918000-6920800	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
49	chr4:6918200-6919800	Enhancers	Brain Substantia Nigra	brain
50	chr4:6918200-6920000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain

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