Variant report

Variant	rs6774127
Chromosome Location	chr3:141362755-141362756
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:141361497..141363664-chr3:141364151..141366468,2	MCF-7	breast:
2	chr3:141295089..141297819-chr3:141362383..141363982,2	MCF-7	breast:
3	chr3:141362313..141364967-chr3:141594045..141596596,2	K562	blood:
4	chr3:141361664..141363556-chr3:141455269..141458105,3	K562	blood:
5	chr3:141361177..141363053-chr3:141377745..141380110,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000114125	Chromatin interaction
ENSG00000069849	Chromatin interaction
ENSG00000155903	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs2640020	1.00[CHD][hapmap]
rs3732872	1.00[JPT][hapmap]
rs62282027	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282028	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62282032	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];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	nsv949709	chr3:141295050-142178144	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs6774127	ZBTB38	cis	parietal	SCAN
rs6774127	SR140	cis	parietal	SCAN
rs6774127	CLSTN2	cis	cerebellum	SCAN

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141360600-141362800	Weak transcription	Placenta	Placenta
2	chr3:141361000-141363800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr3:141361000-141364000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr3:141361400-141363800	Weak transcription	Primary neutrophils fromperipheralblood	blood
5	chr3:141361400-141365400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
6	chr3:141361600-141363600	Weak transcription	HepG2	liver
7	chr3:141361600-141364200	Enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr3:141361800-141362800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr3:141362000-141363000	Enhancers	Osteobl	bone
10	chr3:141362000-141364000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr3:141362200-141363000	Enhancers	HSMM	muscle
12	chr3:141362200-141363200	Enhancers	HUES6 Cell Line	embryonic stem cell
13	chr3:141362200-141364200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr3:141362400-141362800	Enhancers	ES-I3 Cell Line	embryonic stem cell
15	chr3:141362400-141362800	Weak transcription	HSMMtube	muscle
16	chr3:141362400-141363200	Enhancers	iPS-20b Cell Line	embryonic stem cell
17	chr3:141362400-141363200	Enhancers	Colon Smooth Muscle	Colon
18	chr3:141362600-141363800	Enhancers	HUES48 Cell Line	embryonic stem cell
19	chr3:141362600-141363800	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr3:141362600-141366400	Weak transcription	Rectal Smooth Muscle	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links