Variant report

Variant	rs13415055
Chromosome Location	chr2:96923373-96923374
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:96922684..96925249-chr2:96926051..96928364,2	K562	blood:
2	chr2:96917948..96919887-chr2:96921389..96924454,3	MCF-7	breast:
3	chr2:96912447..96914443-chr2:96922787..96925264,2	MCF-7	breast:
4	chr2:96919042..96921310-chr2:96922215..96923771,2	K562	blood:
5	chr2:96872844..96875419-chr2:96922683..96924464,2	MCF-7	breast:
6	chr2:96921666..96924111-chr2:96925585..96927539,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000084090	Chromatin interaction
ENSG00000204685	Chromatin interaction
ENSG00000135956	Chromatin interaction

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10179191	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10180765	0.86[AFR][1000 genomes]
rs10192619	1.00[AMR][1000 genomes]
rs10209653	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10209990	0.86[AFR][1000 genomes]
rs12623853	1.00[GIH][hapmap];1.00[MEX][hapmap]
rs13401470	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13401784	1.00[ASW][hapmap];1.00[AMR][1000 genomes]
rs13413120	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs13416784	1.00[GIH][hapmap]
rs13422469	1.00[AMR][1000 genomes]
rs13426632	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17119410	1.00[GIH][hapmap]
rs28409425	1.00[AMR][1000 genomes]
rs28932481	0.86[AFR][1000 genomes]
rs6705228	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv933671	chr2:96739308-97652262	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
2	nsv1000780	chr2:96740430-97671395	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
3	nsv535826	chr2:96740430-97671395	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	156 gene(s)	inside rSNPs	diseases
4	nsv874677	chr2:96756547-97717345	Strong transcription Enhancers Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
5	nsv1001204	chr2:96766559-97728507	Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
6	nsv535827	chr2:96766559-97728507	Enhancers Active TSS Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	162 gene(s)	inside rSNPs	diseases
7	nsv834305	chr2:96848898-97019476	Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
8	nsv874679	chr2:96860971-97184160	Strong transcription Active TSS Flanking Active TSS Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:96914400-96924800	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr2:96914400-96929800	Strong transcription	Fetal Stomach	stomach
3	chr2:96915400-96925000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
4	chr2:96916000-96924800	Strong transcription	Fetal Thymus	thymus
5	chr2:96916000-96929400	Strong transcription	Dnd41	blood
6	chr2:96917200-96924200	Strong transcription	Sigmoid Colon	Sigmoid Colon
7	chr2:96917400-96929600	Strong transcription	Brain Germinal Matrix	brain
8	chr2:96917600-96923800	Strong transcription	Rectal Mucosa Donor 31	rectum
9	chr2:96917600-96924800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr2:96917600-96925600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr2:96917800-96925600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr2:96918000-96926000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr2:96918200-96929400	Weak transcription	Fetal Brain Male	brain
14	chr2:96918200-96929600	Strong transcription	Cortex derived primary cultured neurospheres	brain
15	chr2:96918400-96923600	Strong transcription	Osteobl	bone
16	chr2:96918400-96925600	Weak transcription	NH-A	brain
17	chr2:96919000-96923600	Strong transcription	Fetal Intestine Small	intestine
18	chr2:96919200-96925200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr2:96919800-96925800	Weak transcription	Small Intestine	intestine
20	chr2:96920200-96928000	Genic enhancers	Primary T helper cells fromperipheralblood	blood
21	chr2:96920200-96930600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr2:96920400-96924600	Weak transcription	Hela-S3	cervix
23	chr2:96920600-96927400	Weak transcription	Fetal Lung	lung
24	chr2:96920800-96923800	Weak transcription	Placenta Amnion	Placenta Amnion
25	chr2:96920800-96926000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
26	chr2:96920800-96926000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr2:96920800-96926200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
28	chr2:96921000-96923600	Weak transcription	Pancreas	Pancrea
29	chr2:96921000-96924000	Weak transcription	Ovary	ovary
30	chr2:96921000-96924200	Weak transcription	Aorta	Aorta
31	chr2:96921000-96927800	Genic enhancers	Primary mononuclear cells fromperipheralblood	Blood
32	chr2:96921000-96929800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr2:96921200-96923800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
34	chr2:96921200-96923800	Weak transcription	Colonic Mucosa	Colon
35	chr2:96921200-96923800	Weak transcription	Colon Smooth Muscle	Colon
36	chr2:96921200-96923800	Weak transcription	K562	blood
37	chr2:96921200-96924000	Weak transcription	Rectal Smooth Muscle	rectum
38	chr2:96921200-96924200	Weak transcription	A549	lung
39	chr2:96921200-96926200	Weak transcription	H1 Cell Line	embryonic stem cell
40	chr2:96921200-96929800	Weak transcription	H9 Cell Line	embryonic stem cell
41	chr2:96921200-96930200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr2:96921400-96923600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr2:96921400-96923800	Weak transcription	NHDF-Ad	bronchial
44	chr2:96921400-96924000	Weak transcription	Stomach Mucosa	stomach
45	chr2:96921400-96924000	Weak transcription	HMEC	breast
46	chr2:96921400-96924000	Weak transcription	NHLF	lung
47	chr2:96921400-96925400	Weak transcription	Fetal Kidney	kidney
48	chr2:96921600-96923600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr2:96921600-96923600	Weak transcription	HepG2	liver
50	chr2:96921600-96923600	Weak transcription	HSMMtube	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links