Variant report

Variant	rs6901938
Chromosome Location	chr6:121753874-121753875
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	chr6:121753097..121755980-chr6:121757909..121760037,2	K562	blood:

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10080593	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10080648	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17052912	0.89[AFR][1000 genomes]
rs17083560	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17083616	0.85[AFR][1000 genomes]
rs17083618	0.92[AFR][1000 genomes]
rs17647008	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1925219	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1925223	0.94[AFR][1000 genomes]
rs2071165	1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs2892767	0.89[AFR][1000 genomes]
rs57946868	1.00[ASN][1000 genomes]
rs62427606	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62427607	0.88[AFR][1000 genomes]
rs67144741	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6911179	0.89[AFR][1000 genomes]
rs6917166	1.00[ASW][hapmap];0.87[GIH][hapmap];0.86[LWK][hapmap];0.85[MKK][hapmap];0.90[TSI][hapmap];0.91[YRI][hapmap];0.88[AFR][1000 genomes]
rs6932422	0.89[AFR][1000 genomes]
rs6933586	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73532207	0.96[AFR][1000 genomes]
rs73532213	0.92[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs73532218	1.00[ASN][1000 genomes]
rs73532223	1.00[ASN][1000 genomes]
rs73532226	1.00[ASN][1000 genomes]
rs73532231	1.00[ASN][1000 genomes]
rs7738364	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7749457	0.80[AFR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9490223	0.81[EUR][1000 genomes]
rs9490227	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9490229	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9490230	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530527	chr6:121298528-121789855	ZNF genes & repeats Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6901938	PLSCR4	trans	lymphoblastoid	RTeQTL

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:121752000-121756400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr6:121752000-121757400	Weak transcription	Brain Angular Gyrus	brain
3	chr6:121752200-121755600	Weak transcription	H1 Cell Line	embryonic stem cell
4	chr6:121752200-121755600	Weak transcription	Aorta	Aorta
5	chr6:121752200-121755600	Weak transcription	Right Atrium	heart
6	chr6:121752200-121755600	Weak transcription	NHDF-Ad	bronchial
7	chr6:121752200-121756400	Weak transcription	Muscle Satellite Cultured Cells	--
8	chr6:121752200-121757400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr6:121752400-121754400	Enhancers	iPS-15b Cell Line	embryonic stem cell
10	chr6:121752400-121755600	Enhancers	iPS-18 Cell Line	embryonic stem cell
11	chr6:121752400-121755800	Weak transcription	HUVEC	blood vessel
12	chr6:121752400-121756200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
13	chr6:121752400-121756600	Weak transcription	Fetal Lung	lung
14	chr6:121752600-121755600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
15	chr6:121752600-121755600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr6:121752600-121755600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr6:121752600-121755600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr6:121752600-121755600	Weak transcription	Osteobl	bone
19	chr6:121752600-121756400	Weak transcription	Stomach Smooth Muscle	stomach
20	chr6:121752800-121754200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr6:121752800-121754200	Enhancers	HUES48 Cell Line	embryonic stem cell
22	chr6:121752800-121754200	Weak transcription	A549	lung
23	chr6:121752800-121755400	Enhancers	HUES6 Cell Line	embryonic stem cell
24	chr6:121752800-121755600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr6:121752800-121756400	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr6:121753000-121754000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
27	chr6:121753200-121755600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr6:121753400-121754400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
29	chr6:121753400-121754600	Enhancers	ES-I3 Cell Line	embryonic stem cell
30	chr6:121753400-121754800	Enhancers	Fetal Heart	heart
31	chr6:121753400-121755800	Enhancers	HUES64 Cell Line	embryonic stem cell
32	chr6:121753600-121754000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
33	chr6:121753800-121755800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links