Variant report

Variant	rs609427
Chromosome Location	chr18:9638213-9638214
allele	A/G
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:6)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr18:9612700..9615548-chr18:9635464..9640356,8	MCF-7	breast:
2	chr18:9638107..9640165-chr18:9648278..9650768,2	K562	blood:
3	chr18:9630794..9635395-chr18:9635739..9640579,6	MCF-7	breast:
4	chr18:9637061..9640955-chr18:9641542..9645147,4	MCF-7	breast:
5	chr18:9631123..9633361-chr18:9636042..9638637,2	MCF-7	breast:
6	chr18:9612039..9617302-chr18:9635697..9643000,12	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-RAB31-2	chr18:9637984-9638340	l_1523_chr18:9636235-9638327_testes

No data

No data

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs12970514	0.82[CEU][hapmap]
rs4384658	0.82[JPT][hapmap]
rs663000	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3693417	chr18:9512985-9693638	Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Weak transcription Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv458024	chr18:9558240-9828448	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
3	nsv576448	chr18:9558240-9828448	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
4	nsv576449	chr18:9623052-9700382	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:9628000-9642800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr18:9630800-9638400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr18:9631000-9638800	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr18:9631200-9642000	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr18:9632400-9647600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr18:9632600-9638600	Weak transcription	HUVEC	blood vessel
7	chr18:9633000-9638400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr18:9633800-9638400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr18:9636400-9639200	Weak transcription	Spleen	Spleen
10	chr18:9637200-9638400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr18:9637600-9638800	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr18:9637800-9639000	Weak transcription	Osteobl	bone
13	chr18:9637800-9640600	Weak transcription	Placenta	Placenta
14	chr18:9638000-9641800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr18:9638200-9639200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr18:9638200-9639400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr18:9638200-9639600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr18:9638200-9639600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr18:9638200-9639600	Enhancers	NHEK	skin

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

what's new

Quick links