Variant report

Variant	rs10305297
Chromosome Location	chr17:38607341-38607342
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr17:38461615..38484404-chr17:38597525..38608992,85	MCF-7	breast:
2	chr17:38604733..38607720-chr17:38631085..38633963,2	MCF-7	breast:
3	chr17:38587889..38589952-chr17:38605595..38608184,2	MCF-7	breast:
4	chr17:38604720..38607522-chr17:38611521..38613702,2	MCF-7	breast:
5	chr17:38513402..38515252-chr17:38604684..38607579,2	K562	blood:
6	chr17:38519243..38521343-chr17:38603749..38607619,3	MCF-7	breast:
7	chr17:38606148..38608904-chr17:38656512..38658435,2	MCF-7	breast:
8	chr17:38603038..38607716-chr17:38714086..38717959,10	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000131746	Chromatin interaction
ENSG00000126353	Chromatin interaction
ENSG00000183153	Chromatin interaction
ENSG00000131759	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10305293	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10305302	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10305316	1.00[EUR][1000 genomes]
rs35464732	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35685936	0.83[AFR][1000 genomes]
rs72819623	1.00[EUR][1000 genomes]
rs72819624	1.00[EUR][1000 genomes]
rs72819626	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72819628	1.00[EUR][1000 genomes]
rs72819631	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72819632	1.00[EUR][1000 genomes]
rs72819633	1.00[EUR][1000 genomes]
rs9303287	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9895336	0.80[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833445	chr17:38466474-38637969	Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	nsv908223	chr17:38530799-38609187	Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:95 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:38600200-38609800	Transcr. at gene 5' and 3'	A549	lung
2	chr17:38600800-38613800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr17:38601800-38608200	Enhancers	Fetal Heart	heart
4	chr17:38601800-38608600	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr17:38601800-38612600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr17:38601800-38614000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr17:38602000-38608600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr17:38602000-38609200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr17:38602200-38608400	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr17:38602200-38608400	Enhancers	Stomach Mucosa	stomach
11	chr17:38602200-38608600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr17:38602200-38608800	Weak transcription	HUES64 Cell Line	embryonic stem cell
13	chr17:38602200-38609200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr17:38602200-38609600	Weak transcription	Brain Germinal Matrix	brain
15	chr17:38602200-38610400	Weak transcription	Primary B cells from cord blood	blood
16	chr17:38602200-38614000	Weak transcription	Fetal Brain Female	brain
17	chr17:38602200-38614400	Weak transcription	Brain Angular Gyrus	brain
18	chr17:38602400-38607400	Weak transcription	Cortex derived primary cultured neurospheres	brain
19	chr17:38603000-38608400	Enhancers	Placenta	Placenta
20	chr17:38603000-38608600	Enhancers	Fetal Intestine Large	intestine
21	chr17:38603200-38609400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr17:38603400-38611000	Weak transcription	Psoas Muscle	Psoas
23	chr17:38603600-38610200	Genic enhancers	Fetal Stomach	stomach
24	chr17:38603800-38608600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr17:38603800-38608600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
26	chr17:38604400-38607800	Enhancers	Fetal Intestine Small	intestine
27	chr17:38604400-38608200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
28	chr17:38604800-38610600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr17:38605000-38609200	Enhancers	Left Ventricle	heart
30	chr17:38605000-38609600	Weak transcription	Primary B cells from peripheral blood	blood
31	chr17:38605000-38610000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
32	chr17:38605000-38614800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
33	chr17:38605200-38608600	Weak transcription	Brain Substantia Nigra	brain
34	chr17:38605200-38608800	Enhancers	Ovary	ovary
35	chr17:38605200-38609000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
36	chr17:38605200-38609200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
37	chr17:38605200-38609200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
38	chr17:38605200-38609600	Enhancers	Skeletal Muscle Female	skeletal muscle
39	chr17:38605200-38611000	Genic enhancers	Muscle Satellite Cultured Cells	--
40	chr17:38605200-38614400	Weak transcription	Thymus	Thymus
41	chr17:38605400-38608400	Enhancers	Breast Myoepithelial Primary Cells	Breast
42	chr17:38605400-38608600	Weak transcription	HSMM	muscle
43	chr17:38605400-38608600	Weak transcription	HSMMtube	muscle
44	chr17:38605400-38609200	Weak transcription	HMEC	breast
45	chr17:38605400-38613200	Weak transcription	Fetal Thymus	thymus
46	chr17:38605400-38616800	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
47	chr17:38605600-38607800	Enhancers	Rectal Mucosa Donor 31	rectum
48	chr17:38605600-38608600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
49	chr17:38605600-38608600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
50	chr17:38605600-38608600	Enhancers	Rectal Smooth Muscle	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links