Variant report

Variant	rs2145771
Chromosome Location	chr6:23634097-23634098
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs1407242	0.89[CEU][hapmap];0.88[CHB][hapmap];0.83[JPT][hapmap];0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4712770	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs475625	0.88[CEU][hapmap];0.87[CHB][hapmap];0.82[JPT][hapmap]
rs492593	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs500694	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs505304	0.89[CEU][hapmap];0.88[CHB][hapmap];0.92[JPT][hapmap];0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs510023	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs527469	0.88[CEU][hapmap];0.88[CHB][hapmap];0.82[JPT][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs527583	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs531565	0.80[EUR][1000 genomes]
rs541250	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs571515	0.92[ASN][1000 genomes]
rs574440	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs576816	0.96[CEU][hapmap];0.88[CHB][hapmap];0.84[JPT][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029930	chr6:23481989-24289948	Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv830608	chr6:23558655-23644405	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv883478	chr6:23615399-23659465	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
4	nsv462656	chr6:23629281-23721032	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
5	nsv601125	chr6:23629281-23721032	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:23632400-23634600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr6:23632600-23635400	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr6:23633000-23634200	Weak transcription	Fetal Brain Male	brain
4	chr6:23633000-23634400	Enhancers	Brain Inferior Temporal Lobe	brain
5	chr6:23633800-23634200	Enhancers	Brain Substantia Nigra	brain
6	chr6:23633800-23634600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr6:23634000-23634200	Enhancers	Brain Anterior Caudate	brain
8	chr6:23634000-23634200	Enhancers	Brain Hippocampus Middle	brain
9	chr6:23634000-23634800	Enhancers	Brain Cingulate Gyrus	brain
10	chr6:23634000-23635000	Enhancers	Brain Germinal Matrix	brain
11	chr6:23634000-23635200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr6:23634000-23635200	Enhancers	Brain Angular Gyrus	brain

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dbSNP/dbVar ID: rs12345 /nsv7879
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