Variant report

Variant	rs9857973
Chromosome Location	chr3:55922102-55922103
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

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

rs_ID	r²[population]
rs1350414	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1350415	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1458067	0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1458068	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1993539	0.81[AFR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4955877	0.94[CHB][hapmap]
rs4955878	0.94[CHB][hapmap]
rs72879133	0.82[AFR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7432905	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9815001	0.82[CHB][hapmap]
rs9818424	0.84[AFR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9835091	0.85[CHB][hapmap]
rs9852746	0.82[CHB][hapmap]
rs9852888	0.82[CHB][hapmap]
rs9853067	0.86[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1013063	chr3:55835413-56173713	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv876815	chr3:55895409-55979964	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:55893600-55923600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:55915400-55925800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
3	chr3:55916400-55922200	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr3:55920000-55922200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr3:55920000-55922400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr3:55920000-55922400	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr3:55920000-55931400	Weak transcription	Spleen	Spleen
8	chr3:55920200-55922200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
9	chr3:55920200-55922400	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr3:55920200-55922400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr3:55921000-55922200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
12	chr3:55921200-55927200	Weak transcription	HMEC	breast
13	chr3:55921600-55923400	Enhancers	Brain Substantia Nigra	brain
14	chr3:55921600-55923600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr3:55921600-55923600	Enhancers	Cortex derived primary cultured neurospheres	brain
16	chr3:55921600-55927000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr3:55921800-55922600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
18	chr3:55921800-55923400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr3:55921800-55923800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr3:55922000-55922600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr3:55922000-55922800	Enhancers	Brain Angular Gyrus	brain
22	chr3:55922000-55922800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
23	chr3:55922000-55923200	Enhancers	iPS-20b Cell Line	embryonic stem cell
24	chr3:55922000-55923400	Enhancers	H1 Cell Line	embryonic stem cell
25	chr3:55922000-55923800	Enhancers	Brain Hippocampus Middle	brain
26	chr3:55922000-55924000	Enhancers	Brain Anterior Caudate	brain

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