Variant report

Variant	rs2025682
Chromosome Location	chr10:4001542-4001543
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:3204922..3206523-chr10:3999897..4002754,2	K562	blood:
2	chr10:3988530..3991271-chr10:4000860..4003144,2	MCF-7	breast:

Extended variants
information (count: 17 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10795104	0.84[CEU][hapmap];0.80[EUR][1000 genomes]
rs12253501	1.00[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17338734	0.97[EUR][1000 genomes]
rs4593901	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4881257	0.95[EUR][1000 genomes]
rs4881258	1.00[CEU][hapmap];1.00[GIH][hapmap];0.82[MEX][hapmap];0.93[TSI][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4881259	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.82[MEX][hapmap];0.93[MKK][hapmap];0.97[TSI][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4881260	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57306718	0.93[EUR][1000 genomes]
rs6601786	0.90[CEU][hapmap];0.87[EUR][1000 genomes]
rs7098821	0.86[CHD][hapmap]
rs7898409	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7898425	1.00[CEU][hapmap];1.00[GIH][hapmap];0.97[TSI][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7899906	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043680	chr10:3551191-4038002	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
2	nsv1051297	chr10:3908706-4277678	Enhancers Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	13 gene(s)	inside rSNPs	diseases
3	nsv894784	chr10:3985194-4051081	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription Genic enhancers	Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:3981800-4001800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:3993800-4001800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr10:3997800-4001600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr10:3998000-4002800	Weak transcription	Cortex derived primary cultured neurospheres	brain
5	chr10:3998600-4001600	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr10:3998600-4001600	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr10:3998600-4001600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr10:3998600-4001800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr10:3998600-4001800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
10	chr10:3998600-4002000	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr10:3998600-4002000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr10:3998600-4002000	Weak transcription	Fetal Muscle Leg	muscle
13	chr10:3998800-4001600	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr10:3998800-4001800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr10:3998800-4001800	Weak transcription	HUES6 Cell Line	embryonic stem cell
16	chr10:3998800-4002000	Weak transcription	Fetal Muscle Trunk	muscle
17	chr10:3998800-4003400	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr10:3999000-4002000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr10:4000200-4001600	Enhancers	Dnd41	blood
20	chr10:4000600-4001800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr10:4000600-4001800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
22	chr10:4000800-4002000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr10:4001200-4006000	Enhancers	Primary T cells fromperipheralblood	blood
24	chr10:4001200-4006200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
25	chr10:4001400-4004200	Enhancers	iPS-20b Cell Line	embryonic stem cell

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