Variant report

Variant	rs1704404
Chromosome Location	chr15:42232308-42232309
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	chr15:42225338..42227544-chr15:42230666..42232718,2	K562	blood:

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs1648858	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1648859	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1648860	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1704402	0.91[AFR][1000 genomes]
rs17687461	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17687821	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17687870	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55971229	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73410628	0.87[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931223	chr15:41989960-42781757	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
2	nsv427958	chr15:42051317-42301283	Strong transcription Weak transcription Enhancers Active TSS Bivalent Enhancer Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
3	nsv1035998	chr15:42098896-42434254	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers 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	38 gene(s)	inside rSNPs	diseases
4	nsv1038933	chr15:42138456-42309087	Weak transcription Enhancers Genic enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	30 gene(s)	inside rSNPs	diseases
5	nsv529687	chr15:42157320-42621682	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
6	nsv1054728	chr15:42177772-42310009	Enhancers Genic enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:42221600-42232400	Weak transcription	Ovary	ovary
2	chr15:42221800-42236400	Weak transcription	Brain Angular Gyrus	brain
3	chr15:42222200-42249800	Weak transcription	Brain Inferior Temporal Lobe	brain
4	chr15:42222800-42235200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr15:42222800-42237600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
6	chr15:42223000-42236200	Weak transcription	Colon Smooth Muscle	Colon
7	chr15:42223200-42236000	Weak transcription	HepG2	liver
8	chr15:42223200-42243800	Weak transcription	Brain Substantia Nigra	brain
9	chr15:42224800-42232600	Enhancers	Fetal Heart	heart
10	chr15:42226200-42232400	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr15:42226400-42232600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr15:42226400-42233000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr15:42226800-42232400	Weak transcription	Stomach Smooth Muscle	stomach
14	chr15:42227000-42232400	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr15:42227200-42238400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
16	chr15:42227400-42232400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
17	chr15:42227400-42232400	Weak transcription	Hela-S3	cervix
18	chr15:42227400-42232400	Weak transcription	NHLF	lung
19	chr15:42227400-42243200	Weak transcription	Stomach Mucosa	stomach
20	chr15:42227600-42232400	Weak transcription	H1 Cell Line	embryonic stem cell
21	chr15:42227600-42232400	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr15:42227600-42232400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
23	chr15:42227600-42232600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
24	chr15:42227600-42236200	Weak transcription	Fetal Kidney	kidney
25	chr15:42227600-42249200	Weak transcription	Small Intestine	intestine
26	chr15:42227800-42232400	Weak transcription	HUES6 Cell Line	embryonic stem cell
27	chr15:42227800-42232400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
28	chr15:42227800-42232400	Weak transcription	Osteobl	bone
29	chr15:42228200-42233800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr15:42228200-42234000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
31	chr15:42228200-42234000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
32	chr15:42228200-42235800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr15:42228400-42232400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
34	chr15:42229200-42236200	Weak transcription	Fetal Lung	lung
35	chr15:42229400-42233600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
36	chr15:42229400-42235800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
37	chr15:42229600-42232400	Weak transcription	Colonic Mucosa	Colon
38	chr15:42229600-42232600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr15:42229600-42232600	Weak transcription	Primary neutrophils fromperipheralblood	blood
40	chr15:42229600-42236000	Weak transcription	Rectal Smooth Muscle	rectum
41	chr15:42229800-42232400	Weak transcription	Duodenum Mucosa	Duodenum
42	chr15:42229800-42232400	Weak transcription	HSMMtube	muscle
43	chr15:42229800-42232600	Weak transcription	Right Atrium	heart
44	chr15:42229800-42233400	Enhancers	Primary T helper cells PMA-I stimulated	--
45	chr15:42229800-42234000	Weak transcription	Placenta	Placenta
46	chr15:42229800-42236000	Weak transcription	Skeletal Muscle Female	skeletal muscle
47	chr15:42230000-42232400	Weak transcription	Primary B cells from peripheral blood	blood
48	chr15:42230000-42232800	Weak transcription	Skeletal Muscle Male	skeletal muscle
49	chr15:42230000-42234600	Weak transcription	Placenta Amnion	Placenta Amnion
50	chr15:42230000-42243200	Weak transcription	Brain Hippocampus Middle	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links