Variant report

Variant	rs7858499
Chromosome Location	chr9:107881736-107881737
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	chr9:107877326..107879899-chr9:107880763..107883128,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SLC44A1-1	chr9:107881012-107881755	XLOC_007499

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs10118618	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10820786	0.88[AMR][1000 genomes]
rs10820787	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12346762	0.84[AMR][1000 genomes]
rs7020422	0.82[ASW][hapmap];0.81[CEU][hapmap];0.95[CHB][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];0.85[MEX][hapmap];0.83[MKK][hapmap];0.86[YRI][hapmap];0.86[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7023003	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7038361	0.91[ASN][1000 genomes]
rs7851083	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]

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	nsv1046935	chr9:107414720-108028061	Weak transcription Active TSS Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
2	nsv1045108	chr9:107509553-108188550	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:107877000-107883600	Enhancers	Cortex derived primary cultured neurospheres	brain
2	chr9:107877800-107888600	Weak transcription	NH-A	brain
3	chr9:107878200-107883200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr9:107879000-107884000	Weak transcription	Primary T cells from cord blood	blood
5	chr9:107879000-107884000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr9:107879000-107884200	Weak transcription	Primary hematopoietic stem cells	blood
7	chr9:107879000-107884400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
8	chr9:107879200-107884000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr9:107879400-107883800	Weak transcription	Primary T helper cells PMA-I stimulated	--
10	chr9:107879400-107883800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr9:107879400-107884400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr9:107879600-107884200	Weak transcription	Primary T helper cells fromperipheralblood	blood
13	chr9:107879800-107884200	Weak transcription	Fetal Intestine Large	intestine
14	chr9:107879800-107888200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr9:107880000-107882600	Weak transcription	Fetal Intestine Small	intestine
16	chr9:107880000-107884200	Weak transcription	Fetal Brain Male	brain
17	chr9:107880800-107881800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr9:107880800-107881800	Enhancers	Rectal Smooth Muscle	rectum
19	chr9:107881000-107881800	Enhancers	HUES6 Cell Line	embryonic stem cell
20	chr9:107881000-107881800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr9:107881000-107881800	Enhancers	Stomach Smooth Muscle	stomach
22	chr9:107881000-107882000	Enhancers	Colon Smooth Muscle	Colon
23	chr9:107881200-107881800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr9:107881200-107881800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr9:107881200-107881800	Enhancers	HUES48 Cell Line	embryonic stem cell
26	chr9:107881200-107881800	Enhancers	HUES64 Cell Line	embryonic stem cell
27	chr9:107881200-107881800	Enhancers	Brain Cingulate Gyrus	brain
28	chr9:107881200-107881800	Enhancers	Brain Inferior Temporal Lobe	brain
29	chr9:107881200-107881800	Enhancers	Fetal Muscle Leg	muscle
30	chr9:107881200-107881800	Enhancers	Fetal Thymus	thymus
31	chr9:107881200-107881800	Enhancers	Psoas Muscle	Psoas
32	chr9:107881200-107882400	Enhancers	Brain Hippocampus Middle	brain
33	chr9:107881200-107882400	Enhancers	Skeletal Muscle Male	skeletal muscle
34	chr9:107881200-107882400	Enhancers	Skeletal Muscle Female	skeletal muscle
35	chr9:107881200-107883400	Enhancers	Adipose Nuclei	Adipose
36	chr9:107881200-107883400	Enhancers	Brain Anterior Caudate	brain
37	chr9:107881400-107881800	Enhancers	Esophagus	oesophagus
38	chr9:107881400-107882400	Weak transcription	Brain Germinal Matrix	brain
39	chr9:107881400-107884800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
40	chr9:107881600-107881800	Enhancers	Brain Substantia Nigra	brain
41	chr9:107881600-107882200	Enhancers	Fetal Muscle Trunk	muscle
42	chr9:107881600-107883400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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