Variant report

Variant	rs1021377
Chromosome Location	chr4:119867342-119867343
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:119199698..119202236-chr4:119865322..119867600,2	MCF-7	breast:
2	chr4:119862486..119864004-chr4:119865931..119867688,2	K562	blood:
3	chr4:119861194..119864004-chr4:119866188..119868711,2	K562	blood:

Variant related genes	Relation type
ENSG00000269893	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs1038771	0.83[ASW][hapmap];0.85[JPT][hapmap]
rs12502164	0.83[JPT][hapmap]
rs12647308	0.81[ASW][hapmap];0.83[CHD][hapmap];0.94[JPT][hapmap]
rs1994629	0.90[JPT][hapmap]
rs28463345	0.95[ASN][1000 genomes]
rs72913151	0.95[ASN][1000 genomes]

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	nsv916641	chr4:119780023-120777320	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
2	nsv948802	chr4:119844269-120208926	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	54 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs1021377	STRN	trans	parietal	SCAN
rs1021377	RRP7A	trans	lymphoblastoid	seeQTL
rs1021377	PRSS12	cis	parietal	SCAN

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:119858800-119871600	Weak transcription	Psoas Muscle	Psoas
2	chr4:119860800-119868200	Weak transcription	Fetal Heart	heart
3	chr4:119863000-119867600	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr4:119863200-119867400	Weak transcription	Fetal Stomach	stomach
5	chr4:119863400-119868200	Enhancers	Colon Smooth Muscle	Colon
6	chr4:119863400-119868400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr4:119863400-119869400	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr4:119863400-119870000	Weak transcription	HUES6 Cell Line	embryonic stem cell
9	chr4:119863400-119871600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
10	chr4:119863600-119867400	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr4:119863600-119868400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr4:119863600-119869600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr4:119863600-119871400	Weak transcription	Right Ventricle	heart
14	chr4:119864000-119867400	Weak transcription	Ovary	ovary
15	chr4:119864000-119871400	Weak transcription	Left Ventricle	heart
16	chr4:119864600-119869800	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr4:119864600-119869800	Weak transcription	Aorta	Aorta
18	chr4:119865200-119868400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr4:119866200-119867600	Weak transcription	Stomach Smooth Muscle	stomach
20	chr4:119866400-119868000	Weak transcription	Rectal Smooth Muscle	rectum
21	chr4:119867200-119871400	Weak transcription	Skeletal Muscle Male	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links