Variant report

Variant	rs7168964
Chromosome Location	chr15:79274691-79274692
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	WRNIP1	chr15:79274691-79274750	GM12878	blood:	n/a	n/a

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:79164464..79167320-chr15:79273608..79277179,4	K562	blood:
2	chr15:79272649..79275133-chr15:79307482..79309069,2	MCF-7	breast:
3	chr15:79264746..79267610-chr15:79273645..79276620,3	K562	blood:
4	chr15:79274591..79277278-chr15:79290967..79292503,2	K562	blood:
5	chr15:79264746..79267610-chr15:79274625..79276620,2	K562	blood:
6	chr15:79235640..79237951-chr15:79272936..79275463,2	MCF-7	breast:
7	chr15:79274407..79277285-chr15:79277913..79280154,2	K562	blood:
8	chr15:79165092..79167959-chr15:79271269..79275481,5	MCF-7	breast:

No data

Variant related genes	Relation type
RASGRF1	TF binding region
ENSG00000103811	Chromatin interaction
ENSG00000185787	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs2230518	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2278650	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs28566661	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28774671	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3743196	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3743197	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.80[YRI][hapmap];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3743198	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3743200	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3743201	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.83[YRI][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3784533	0.90[JPT][hapmap]
rs3803544	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3825928	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56057581	0.81[EUR][1000 genomes]
rs56060107	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs56378114	0.81[EUR][1000 genomes]
rs6495356	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7167720	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7167721	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7167730	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7173329	0.95[CEU][hapmap];0.84[CHD][hapmap];0.81[GIH][hapmap];0.97[TSI][hapmap];0.91[EUR][1000 genomes]
rs7174399	0.93[CHD][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap];0.84[TSI][hapmap];0.80[YRI][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7175590	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7175835	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs8026309	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs8026710	0.84[CEU][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs8033417	0.95[CEU][hapmap];0.90[EUR][1000 genomes]
rs8036107	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs894783	0.82[TSI][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	esv33573	chr15:79053484-79293881	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv904433	chr15:79243571-79310288	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7168964	MORF4L1	cis	cerebellum	SCAN
rs7168964	PSTPIP1	cis	parietal	SCAN

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:79244000-79288000	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr15:79261200-79280400	Weak transcription	Esophagus	oesophagus
3	chr15:79270000-79278400	Weak transcription	Fetal Intestine Small	intestine
4	chr15:79271400-79275600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr15:79271600-79275800	Weak transcription	Lung	lung
6	chr15:79272200-79274800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr15:79272200-79275200	Weak transcription	HSMM	muscle
8	chr15:79272200-79275600	Weak transcription	Brain Angular Gyrus	brain
9	chr15:79272200-79275600	Weak transcription	Right Ventricle	heart
10	chr15:79272200-79275800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr15:79272200-79275800	Weak transcription	Placenta	Placenta
12	chr15:79272200-79275800	Weak transcription	Right Atrium	heart
13	chr15:79272200-79276000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr15:79272200-79276000	Weak transcription	Brain Cingulate Gyrus	brain
15	chr15:79272200-79276200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr15:79272200-79280000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr15:79272200-79280000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr15:79272200-79280200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr15:79272200-79280200	Weak transcription	Pancreas	Pancrea
20	chr15:79272200-79280400	Weak transcription	Brain Substantia Nigra	brain
21	chr15:79272200-79280600	Weak transcription	Rectal Mucosa Donor 31	rectum
22	chr15:79272200-79284400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr15:79272400-79275000	Weak transcription	HepG2	liver
24	chr15:79272400-79275400	Weak transcription	Skeletal Muscle Female	skeletal muscle
25	chr15:79272400-79275400	Weak transcription	Spleen	Spleen
26	chr15:79272400-79275800	Weak transcription	Brain Inferior Temporal Lobe	brain
27	chr15:79272400-79279600	Weak transcription	Fetal Intestine Large	intestine
28	chr15:79272400-79280200	Weak transcription	Brain Hippocampus Middle	brain
29	chr15:79272400-79286400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
30	chr15:79272600-79280000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
31	chr15:79273000-79275200	Enhancers	Primary hematopoietic stem cells short term culture	blood
32	chr15:79273600-79276400	Enhancers	Primary monocytes fromperipheralblood	blood
33	chr15:79274000-79276400	Enhancers	Adipose Nuclei	Adipose
34	chr15:79274000-79279400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr15:79274200-79276400	Enhancers	Monocytes-CD14+_RO01746	blood
36	chr15:79274400-79274800	Enhancers	GM12878-XiMat	blood
37	chr15:79274400-79275400	Weak transcription	Skeletal Muscle Male	skeletal muscle
38	chr15:79274400-79275800	Enhancers	HSMMtube	muscle
39	chr15:79274600-79276000	Enhancers	Fetal Muscle Leg	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links