Variant report

Variant	rs1904601
Chromosome Location	chr10:49920608-49920609
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10745282	0.91[ASN][1000 genomes]
rs11101434	0.91[ASN][1000 genomes]
rs12767182	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs17011106	0.90[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs17011115	0.90[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1871608	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1871609	0.86[YRI][hapmap];0.88[AFR][1000 genomes]
rs2377623	0.90[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2377625	0.94[ASW][hapmap];0.85[LWK][hapmap];0.87[MKK][hapmap];0.93[YRI][hapmap];0.91[AFR][1000 genomes]
rs4255465	0.90[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs4838642	0.92[YRI][hapmap];0.88[AFR][1000 genomes]
rs4838643	0.85[CHD][hapmap];0.83[JPT][hapmap];0.87[ASN][1000 genomes]
rs4838644	0.93[YRI][hapmap];0.88[AFR][1000 genomes]
rs7069001	1.00[ASW][hapmap];0.80[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.95[GIH][hapmap];0.83[JPT][hapmap];0.95[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.90[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7069023	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7896204	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7909344	0.95[CEU][hapmap];0.85[EUR][1000 genomes]
rs7912897	0.91[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	nsv895371	chr10:49492075-50232180	Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases
2	nsv895372	chr10:49576878-49933488	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	nsv1049259	chr10:49901984-49924310	Strong transcription Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv895373	chr10:49911737-49933488	Strong transcription Weak transcription Bivalent Enhancer Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv523003	chr10:49917061-49920608	Weak transcription Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Genic enhancers	TF binding region Chromatin interactive region	1 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	chr10:49908200-49922800	Weak transcription	Spleen	Spleen
2	chr10:49913000-49930600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr10:49914200-49922600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
4	chr10:49915400-49921600	Strong transcription	GM12878-XiMat	blood
5	chr10:49916800-49921600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr10:49916800-49921600	Weak transcription	Right Atrium	heart
7	chr10:49917600-49921200	Strong transcription	Monocytes-CD14+_RO01746	blood
8	chr10:49917800-49920800	Strong transcription	Primary monocytes fromperipheralblood	blood
9	chr10:49917800-49921400	Strong transcription	Primary B cells from cord blood	blood
10	chr10:49917800-49921400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
11	chr10:49917800-49921600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr10:49917800-49921800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr10:49917800-49922400	Strong transcription	Primary hematopoietic stem cells	blood
14	chr10:49918200-49922800	Strong transcription	Primary B cells from peripheral blood	blood
15	chr10:49918400-49922400	Enhancers	Left Ventricle	heart
16	chr10:49919600-49922000	Weak transcription	Right Ventricle	heart
17	chr10:49919800-49927800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr10:49920400-49922000	Enhancers	Fetal Heart	heart
19	chr10:49920600-49921800	Enhancers	Primary neutrophils fromperipheralblood	blood

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

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