Variant report

Variant	rs2404302
Chromosome Location	chr9:97778424-97778425
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs1004373	1.00[CEU][hapmap];0.89[CHB][hapmap];0.94[YRI][hapmap]
rs10119512	1.00[CEU][hapmap];0.88[CHB][hapmap];0.80[JPT][hapmap]
rs1020963	0.90[CEU][hapmap];0.94[CHB][hapmap]
rs10512253	0.91[CEU][hapmap];0.89[CHB][hapmap];0.94[YRI][hapmap]
rs10761364	0.91[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap]
rs10761368	0.90[CEU][hapmap];0.94[CHB][hapmap]
rs10761369	0.83[CEU][hapmap]
rs10993427	1.00[CHB][hapmap];0.87[JPT][hapmap]
rs10993435	0.83[CHB][hapmap]
rs10993449	0.83[CHB][hapmap]
rs1412488	0.90[CEU][hapmap];0.94[CHB][hapmap]
rs1564234	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap]
rs1571894	1.00[CEU][hapmap];0.89[CHB][hapmap]
rs1571895	1.00[CEU][hapmap];0.81[CHB][hapmap];0.80[JPT][hapmap]
rs2061800	0.89[CHB][hapmap]
rs2404295	0.83[CHB][hapmap];0.93[JPT][hapmap]
rs2404305	1.00[CEU][hapmap];0.88[CHB][hapmap];0.80[JPT][hapmap]
rs2404456	1.00[CEU][hapmap];0.89[CHB][hapmap]
rs2896816	0.83[CHB][hapmap]
rs3802454	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap]
rs3802456	0.91[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap]
rs4537362	1.00[CEU][hapmap];0.89[CHB][hapmap]
rs4743979	1.00[CEU][hapmap];0.89[CHB][hapmap];0.90[YRI][hapmap]
rs4743984	0.91[CEU][hapmap];0.88[CHB][hapmap];0.80[JPT][hapmap]
rs4744422	0.91[CEU][hapmap];0.94[CHB][hapmap]
rs4744423	0.91[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap]
rs4744424	1.00[CEU][hapmap];0.89[CHB][hapmap]
rs4744425	1.00[CEU][hapmap];0.89[CHB][hapmap]
rs4744426	1.00[CEU][hapmap];0.88[CHB][hapmap];0.80[JPT][hapmap];0.89[YRI][hapmap]
rs4744430	0.91[CEU][hapmap];0.89[CHB][hapmap]
rs4744431	0.91[CEU][hapmap];0.94[CHB][hapmap];0.94[YRI][hapmap]
rs4744432	0.91[CEU][hapmap];0.89[CHB][hapmap];0.94[YRI][hapmap]
rs4744433	0.91[CEU][hapmap];0.89[CHB][hapmap];0.94[YRI][hapmap]
rs4744435	0.84[CEU][hapmap];0.87[YRI][hapmap]
rs4744436	0.91[CEU][hapmap];0.94[YRI][hapmap]
rs6479588	0.91[CEU][hapmap];0.94[CHB][hapmap]
rs6479591	1.00[CEU][hapmap];0.88[CHB][hapmap];0.80[JPT][hapmap];0.89[YRI][hapmap]
rs6479592	1.00[CEU][hapmap];0.89[CHB][hapmap];0.90[YRI][hapmap]
rs7020709	0.84[CEU][hapmap]
rs7021351	1.00[CEU][hapmap];0.88[CHB][hapmap];0.80[JPT][hapmap]
rs7022452	1.00[CEU][hapmap];0.88[CHB][hapmap];0.80[JPT][hapmap]
rs7042271	0.81[CHB][hapmap]
rs7048786	1.00[CEU][hapmap];0.88[CHB][hapmap];0.80[JPT][hapmap];0.89[YRI][hapmap]
rs7048941	1.00[CEU][hapmap];0.88[CHB][hapmap];0.80[JPT][hapmap];0.89[YRI][hapmap]
rs7851173	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap]
rs7862156	0.91[CEU][hapmap];0.88[CHB][hapmap];0.80[JPT][hapmap]
rs7863291	1.00[CEU][hapmap];0.88[CHB][hapmap];0.80[JPT][hapmap];0.89[YRI][hapmap]
rs962229	0.89[CHB][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97768000-97781000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr9:97768000-97781000	Weak transcription	Gastric	stomach
3	chr9:97768000-97783800	Weak transcription	Primary T helper cells fromperipheralblood	blood
4	chr9:97768000-97786200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr9:97768200-97779400	Weak transcription	Fetal Brain Female	brain
6	chr9:97768200-97779800	Weak transcription	K562	blood
7	chr9:97768800-97781800	Weak transcription	Primary hematopoietic stem cells	blood
8	chr9:97768800-97785600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr9:97769000-97779400	Weak transcription	GM12878-XiMat	blood
10	chr9:97769000-97783800	Weak transcription	Fetal Brain Male	brain
11	chr9:97769000-97787600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr9:97769600-97784200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr9:97769600-97790200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
14	chr9:97770000-97781200	Weak transcription	Small Intestine	intestine
15	chr9:97770600-97780800	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr9:97770800-97781600	Weak transcription	Colonic Mucosa	Colon
17	chr9:97770800-97782000	Weak transcription	Fetal Muscle Trunk	muscle
18	chr9:97770800-97782200	Weak transcription	Lung	lung
19	chr9:97770800-97810000	Weak transcription	Primary T cells from cord blood	blood
20	chr9:97771000-97780800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr9:97771000-97781600	Weak transcription	Primary B cells from cord blood	blood
22	chr9:97772000-97782200	Weak transcription	Esophagus	oesophagus
23	chr9:97772800-97780800	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr9:97772800-97780800	Weak transcription	Right Atrium	heart
25	chr9:97773000-97782200	Weak transcription	Spleen	Spleen
26	chr9:97773200-97778800	Weak transcription	Rectal Mucosa Donor 31	rectum
27	chr9:97773200-97779400	Weak transcription	HMEC	breast
28	chr9:97773200-97793200	Weak transcription	Brain Germinal Matrix	brain
29	chr9:97773400-97778800	Weak transcription	HUVEC	blood vessel
30	chr9:97774000-97778600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr9:97774800-97780200	Genic enhancers	Skeletal Muscle Male	skeletal muscle
32	chr9:97774800-97780400	Weak transcription	Hela-S3	cervix
33	chr9:97775000-97778600	Weak transcription	Ovary	ovary
34	chr9:97775000-97780000	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr9:97775200-97779000	Weak transcription	Cortex derived primary cultured neurospheres	brain
36	chr9:97775200-97780600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr9:97775600-97780200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
38	chr9:97775800-97779600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
39	chr9:97775800-97779800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
40	chr9:97776000-97779400	Strong transcription	HSMM	muscle
41	chr9:97776000-97779600	Strong transcription	NH-A	brain
42	chr9:97776000-97780600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
43	chr9:97776000-97781000	Weak transcription	Pancreatic Islets	Pancreatic Islet
44	chr9:97776000-97784400	Strong transcription	Rectal Mucosa Donor 29	rectum
45	chr9:97776000-97784600	Strong transcription	Placenta	Placenta
46	chr9:97776200-97778600	Weak transcription	Aorta	Aorta
47	chr9:97776400-97779000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr9:97776400-97785400	Strong transcription	Fetal Intestine Large	intestine
49	chr9:97776600-97779000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
50	chr9:97776600-97779400	Strong transcription	Fetal Muscle Leg	muscle

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