Variant report

Variant	rs16977624
Chromosome Location	chr15:57908316-57908317
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:57885653..57889310-chr15:57906324..57909030,3	MCF-7	breast:
2	chr15:57905952..57909167-chr15:57910237..57913863,4	K562	blood:
3	chr15:57907838..57909481-chr15:57924418..57926397,2	MCF-7	breast:
4	chr15:57851732..57852476-chr15:57907542..57908393,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000263155	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs2433202	1.00[YRI][hapmap];0.91[AFR][1000 genomes]
rs2554032	1.00[MEX][hapmap]
rs2554038	1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs2733609	1.00[MEX][hapmap]
rs2733613	1.00[MEX][hapmap]
rs4322609	0.91[YRI][hapmap]
rs7163426	1.00[AMR][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	nsv1045611	chr15:57350965-58070807	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv1054547	chr15:57600488-57977659	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57892000-57908800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr15:57894400-57938200	Weak transcription	Primary B cells from peripheral blood	blood
3	chr15:57897000-57909200	Weak transcription	Psoas Muscle	Psoas
4	chr15:57900600-57911800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr15:57900600-57941600	Weak transcription	Colonic Mucosa	Colon
6	chr15:57901800-57912000	Weak transcription	Spleen	Spleen
7	chr15:57904400-57935200	Weak transcription	Rectal Smooth Muscle	rectum
8	chr15:57904600-57910600	Weak transcription	Gastric	stomach
9	chr15:57904600-57914800	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr15:57904600-57918000	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr15:57904600-57919000	Weak transcription	Fetal Lung	lung
12	chr15:57904600-57919000	Weak transcription	Fetal Muscle Leg	muscle
13	chr15:57904600-57919200	Weak transcription	Ovary	ovary
14	chr15:57904600-57921600	Weak transcription	Fetal Stomach	stomach
15	chr15:57904600-57936400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr15:57904800-57910000	Weak transcription	Stomach Smooth Muscle	stomach
17	chr15:57904800-57910800	Weak transcription	HUVEC	blood vessel
18	chr15:57904800-57919000	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr15:57904800-57919000	Weak transcription	Fetal Kidney	kidney
20	chr15:57905000-57910000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr15:57905000-57912000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
22	chr15:57905000-57912200	Weak transcription	Hela-S3	cervix
23	chr15:57905000-57917600	Weak transcription	Colon Smooth Muscle	Colon
24	chr15:57905000-57940800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr15:57906200-57909800	Enhancers	Fetal Heart	heart
26	chr15:57906800-57911600	Weak transcription	Pancreas	Pancrea
27	chr15:57906800-57911800	Weak transcription	Duodenum Mucosa	Duodenum
28	chr15:57907200-57908600	Enhancers	Adipose Nuclei	Adipose
29	chr15:57907600-57908400	Enhancers	iPS-15b Cell Line	embryonic stem cell
30	chr15:57907600-57908400	Enhancers	iPS-18 Cell Line	embryonic stem cell
31	chr15:57907600-57908400	Enhancers	iPS-20b Cell Line	embryonic stem cell
32	chr15:57907800-57912000	Weak transcription	Lung	lung
33	chr15:57907800-57912000	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr15:57908000-57909000	Strong transcription	Fetal Intestine Small	intestine
35	chr15:57908000-57909600	Weak transcription	Right Ventricle	heart
36	chr15:57908000-57911600	Weak transcription	Stomach Mucosa	stomach
37	chr15:57908200-57909200	Weak transcription	Esophagus	oesophagus
38	chr15:57908200-57909200	Weak transcription	Right Atrium	heart
39	chr15:57908200-57909600	Weak transcription	Fetal Intestine Large	intestine
40	chr15:57908200-57909600	Weak transcription	Left Ventricle	heart
41	chr15:57908200-57911000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
42	chr15:57908200-57911600	Weak transcription	Skeletal Muscle Male	skeletal muscle
43	chr15:57908200-57912000	Weak transcription	Skeletal Muscle Female	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links