Variant report

Variant	rs6687429
Chromosome Location	chr1:174044276-174044277
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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

No data

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

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:174043944..174046107-chr1:174046263..174049040,3	MCF-7	breast:
2	chr1:173840096..173840820-chr1:174043690..174044494,2	MCF-7	breast:
3	chr1:173827518..173829337-chr1:174042561..174045221,2	MCF-7	breast:
4	chr1:173836233..173838520-chr1:174043395..174046203,3	K562	blood:
5	chr1:173990446..173992908-chr1:174043586..174046492,2	MCF-7	breast:
6	chr1:174037460..174040241-chr1:174043210..174045620,2	K562	blood:
7	chr1:173939340..173940107-chr1:174043783..174044572,3	MCF-7	breast:
8	chr1:173833962..173836674-chr1:174042084..174044379,2	MCF-7	breast:

No data

No data

No data

Variant related genes	Relation type
ENSG00000185278	Chromatin interaction
ENSG00000224977	Chromatin interaction
ENSG00000135870	Chromatin interaction
ENSG00000234741	Chromatin interaction
ENSG00000208317	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs16846546	0.80[LWK][hapmap]
rs16846561	0.80[LWK][hapmap]
rs16846660	0.86[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16846662	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16846669	0.87[YRI][hapmap]
rs16846681	0.95[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];0.87[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16846728	0.92[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.87[YRI][hapmap];1.00[AMR][1000 genomes]
rs16846744	0.87[YRI][hapmap];1.00[AMR][1000 genomes]
rs16846747	0.92[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.87[YRI][hapmap];1.00[AMR][1000 genomes]
rs2227617	0.92[LWK][hapmap];1.00[MEX][hapmap]
rs41511350	0.92[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.83[YRI][hapmap]
rs58024885	1.00[AMR][1000 genomes]
rs60839216	1.00[AMR][1000 genomes]
rs7339904	0.90[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.87[YRI][hapmap]
rs7550085	1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][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	nsv916960	chr1:173907804-174080248	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv831937	chr1:173949373-174131463	Weak transcription Active TSS Strong transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases
3	nsv465661	chr1:174014507-174152688	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	nsv548193	chr1:174014507-174152688	Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:174042200-174046400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr1:174042600-174044800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr1:174043000-174046800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr1:174043600-174044400	Enhancers	Liver	Liver
5	chr1:174044200-174044600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr1:174044200-174044600	Enhancers	HSMMtube	muscle
7	chr1:174044200-174044800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr1:174044200-174044800	Enhancers	K562	blood
9	chr1:174044200-174045000	Enhancers	iPS-15b Cell Line	embryonic stem cell

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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