Variant report

Variant	rs1376108
Chromosome Location	chr4:121838204-121838205
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:121836736..121838271-chr4:121841875..121843483,2	MCF-7	breast:
2	chr4:121832110..121834901-chr4:121836477..121839157,3	MCF-7	breast:

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10006287	1.00[YRI][hapmap]
rs10019591	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10026533	1.00[YRI][hapmap]
rs1015219	1.00[YRI][hapmap]
rs1349347	1.00[YRI][hapmap]
rs1376099	1.00[YRI][hapmap]
rs1376103	1.00[AMR][1000 genomes]
rs1450461	1.00[YRI][hapmap]
rs1450462	1.00[YRI][hapmap]
rs1511302	1.00[YRI][hapmap]
rs1584594	1.00[AMR][1000 genomes]
rs168226	1.00[YRI][hapmap]
rs17051246	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17051252	1.00[YRI][hapmap]
rs17051254	1.00[YRI][hapmap]
rs171068	1.00[YRI][hapmap]
rs1839475	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1868717	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1901134	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1912720	1.00[YRI][hapmap]
rs2136997	1.00[YRI][hapmap]
rs2597537	1.00[YRI][hapmap]
rs2597540	1.00[YRI][hapmap]
rs2597543	1.00[AMR][1000 genomes]
rs2667171	1.00[YRI][hapmap]
rs2667193	1.00[AMR][1000 genomes]
rs2667194	0.82[YRI][hapmap];1.00[AMR][1000 genomes]
rs28477468	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28879750	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3106315	1.00[AMR][1000 genomes]
rs343174	1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs343181	1.00[YRI][hapmap]
rs343182	1.00[YRI][hapmap]
rs343185	1.00[YRI][hapmap]
rs343186	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs343188	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs343189	1.00[YRI][hapmap]
rs343190	1.00[YRI][hapmap]
rs343207	1.00[AMR][1000 genomes]
rs343208	1.00[AMR][1000 genomes]
rs3789141	1.00[YRI][hapmap]
rs4833676	1.00[YRI][hapmap]
rs4833677	1.00[YRI][hapmap]
rs59072184	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6820869	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs705115	1.00[AMR][1000 genomes]
rs843558	1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs843559	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs843563	1.00[AMR][1000 genomes]
rs843578	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs896060	1.00[YRI][hapmap]
rs896063	1.00[AMR][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	nsv998094	chr4:121504565-122374203	Weak transcription Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:121798200-121842400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr4:121812000-121839400	Weak transcription	Duodenum Smooth Muscle	Duodenum
3	chr4:121812800-121839800	Weak transcription	Psoas Muscle	Psoas
4	chr4:121813400-121839400	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr4:121813400-121841600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr4:121813600-121839800	Weak transcription	Cortex derived primary cultured neurospheres	brain
7	chr4:121813800-121842400	Weak transcription	NHEK	skin
8	chr4:121814200-121839800	Weak transcription	Pancreas	Pancrea
9	chr4:121814600-121840000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr4:121814600-121842600	Weak transcription	Right Ventricle	heart
11	chr4:121815200-121839800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr4:121818000-121842400	Weak transcription	NH-A	brain
13	chr4:121821000-121839800	Weak transcription	Fetal Muscle Leg	muscle
14	chr4:121821200-121840000	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr4:121821400-121839800	Weak transcription	Fetal Stomach	stomach
16	chr4:121823800-121842400	Weak transcription	HSMM	muscle
17	chr4:121824800-121840400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
18	chr4:121825000-121839800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr4:121825000-121839800	Weak transcription	Osteobl	bone
20	chr4:121825000-121842600	Weak transcription	Fetal Muscle Trunk	muscle
21	chr4:121825200-121839200	Weak transcription	Fetal Intestine Small	intestine
22	chr4:121825200-121839800	Weak transcription	Aorta	Aorta
23	chr4:121825600-121842400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr4:121827600-121842400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr4:121828000-121839800	Weak transcription	NHDF-Ad	bronchial
26	chr4:121829600-121839400	Weak transcription	Fetal Intestine Large	intestine
27	chr4:121830600-121839400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
28	chr4:121833600-121839800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
29	chr4:121834200-121839000	Weak transcription	Pancreatic Islets	Pancreatic Islet
30	chr4:121835800-121838400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr4:121836000-121838400	Enhancers	iPS-20b Cell Line	embryonic stem cell
32	chr4:121836400-121838400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr4:121836600-121838400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr4:121836600-121838800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
35	chr4:121836800-121840000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
36	chr4:121837000-121842800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr4:121837200-121839800	Weak transcription	HUES64 Cell Line	embryonic stem cell
38	chr4:121837200-121839800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
39	chr4:121837400-121838600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr4:121837400-121842600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
41	chr4:121837800-121838400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr4:121837800-121838400	Enhancers	HUES48 Cell Line	embryonic stem cell
43	chr4:121837800-121838400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
44	chr4:121837800-121838400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
45	chr4:121837800-121838400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
46	chr4:121837800-121838400	Enhancers	Fetal Kidney	kidney
47	chr4:121837800-121838400	Enhancers	NHLF	lung
48	chr4:121838000-121838400	Enhancers	ES-I3 Cell Line	embryonic stem cell
49	chr4:121838000-121838400	Enhancers	H9 Cell Line	embryonic stem cell
50	chr4:121838000-121838400	Enhancers	Breast Myoepithelial Primary Cells	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links