Variant report

Variant	rs9554396
Chromosome Location	chr13:98115192-98115193
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1041270	0.85[ASN][1000 genomes]
rs1159278	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[YRI][hapmap];0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11616843	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12873919	1.00[YRI][hapmap]
rs1304392	0.88[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1467693	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2389908	1.00[YRI][hapmap]
rs2389909	0.95[CHB][hapmap];0.95[JPT][hapmap];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2389910	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4346086	0.80[AMR][1000 genomes]
rs4771999	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs7322222	1.00[CHB][hapmap];0.81[JPT][hapmap];0.85[ASN][1000 genomes]
rs7328713	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9300410	0.88[CEU][hapmap]
rs9513245	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9516938	0.92[ASN][1000 genomes]
rs9516959	0.81[AMR][1000 genomes]
rs9634445	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]

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	nsv832694	chr13:97930561-98137882	ZNF genes & repeats Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:98087400-98122200	Weak transcription	Gastric	stomach
2	chr13:98087600-98116400	Weak transcription	Esophagus	oesophagus
3	chr13:98087600-98124400	Weak transcription	Pancreas	Pancrea
4	chr13:98088400-98116400	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr13:98088600-98119600	Weak transcription	NH-A	brain
6	chr13:98088800-98116400	Weak transcription	Fetal Intestine Small	intestine
7	chr13:98088800-98118000	Weak transcription	HMEC	breast
8	chr13:98088800-98118400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr13:98088800-98119000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr13:98089000-98116400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr13:98089200-98116400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
12	chr13:98089200-98116400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
13	chr13:98089200-98116400	Weak transcription	NHEK	skin
14	chr13:98089200-98126600	Weak transcription	Stomach Smooth Muscle	stomach
15	chr13:98089800-98122800	Weak transcription	Small Intestine	intestine
16	chr13:98090800-98116400	Weak transcription	Aorta	Aorta
17	chr13:98091800-98116200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr13:98091800-98116400	Weak transcription	HUVEC	blood vessel
19	chr13:98091800-98123000	Weak transcription	HSMM	muscle
20	chr13:98092000-98115200	Weak transcription	HepG2	liver
21	chr13:98092000-98116400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr13:98098200-98116400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr13:98101200-98117400	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr13:98101400-98116400	Weak transcription	HUES6 Cell Line	embryonic stem cell
25	chr13:98101400-98116400	Weak transcription	Fetal Stomach	stomach
26	chr13:98101400-98116400	Weak transcription	Ovary	ovary
27	chr13:98101400-98123400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr13:98101600-98116600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr13:98101800-98116400	Weak transcription	HUES64 Cell Line	embryonic stem cell
30	chr13:98101800-98116800	Weak transcription	H1 Cell Line	embryonic stem cell
31	chr13:98102000-98116200	Weak transcription	Fetal Kidney	kidney
32	chr13:98102000-98116600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
33	chr13:98102200-98126400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr13:98105000-98116400	Weak transcription	HUES48 Cell Line	embryonic stem cell
35	chr13:98106000-98116200	Weak transcription	Monocytes-CD14+_RO01746	blood
36	chr13:98106000-98119200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr13:98106000-98124200	Weak transcription	Cortex derived primary cultured neurospheres	brain
38	chr13:98106200-98116400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
39	chr13:98106200-98116400	Weak transcription	Brain Germinal Matrix	brain
40	chr13:98108200-98116400	Weak transcription	Primary hematopoietic stem cells	blood
41	chr13:98108600-98118000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr13:98108600-98134600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
43	chr13:98108800-98116400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
44	chr13:98109200-98116200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr13:98109400-98116200	Weak transcription	Fetal Muscle Trunk	muscle
46	chr13:98111200-98116200	Weak transcription	Fetal Intestine Large	intestine
47	chr13:98111800-98115200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr13:98111800-98116400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
49	chr13:98112000-98115800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
50	chr13:98112000-98116400	Weak transcription	Lung	lung

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