Variant report

Variant	rs766103
Chromosome Location	chr15:57843391-57843392
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:57829364..57831242-chr15:57841384..57843647,2	MCF-7	breast:
2	chr15:57837700..57840998-chr15:57842272..57845131,4	MCF-7	breast:
3	chr15:57841937..57843856-chr15:57845649..57847200,2	K562	blood:
4	chr15:57842103..57844129-chr15:57847997..57849787,2	K562	blood:
5	chr15:57842103..57844046-chr15:57847997..57849926,2	K562	blood:
6	chr15:57836929..57839560-chr15:57843156..57845372,2	K562	blood:

Variant related genes	Relation type
ENSG00000240874	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs1666583	0.95[CHB][hapmap]
rs16977593	0.94[YRI][hapmap]
rs2934423	0.94[CHB][hapmap]
rs55656430	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs55942967	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56135007	0.80[AFR][1000 genomes];0.99[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7169081	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7170116	0.96[AFR][1000 genomes];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7183861	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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
3	nsv904255	chr15:57790436-57907574	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs766103	WDR72	cis	parietal	SCAN
rs766103	GCOM1	cis	parietal	SCAN

Chromatin state (count:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:57802600-57846600	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr15:57830000-57846400	Weak transcription	Brain Substantia Nigra	brain
3	chr15:57830400-57843400	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr15:57831400-57843400	Strong transcription	H1 Cell Line	embryonic stem cell
5	chr15:57834800-57843600	Strong transcription	HUES48 Cell Line	embryonic stem cell
6	chr15:57836200-57843400	Strong transcription	H9 Cell Line	embryonic stem cell
7	chr15:57837800-57853000	Weak transcription	Colon Smooth Muscle	Colon
8	chr15:57839800-57843400	Genic enhancers	Pancreas	Pancrea
9	chr15:57839800-57847800	Enhancers	Fetal Intestine Large	intestine
10	chr15:57840000-57843400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr15:57840000-57843600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
12	chr15:57840000-57846600	Weak transcription	Ovary	ovary
13	chr15:57840200-57843400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr15:57840400-57844600	Enhancers	Stomach Mucosa	stomach
15	chr15:57840600-57843600	Enhancers	Rectal Mucosa Donor 31	rectum
16	chr15:57840600-57847400	Enhancers	Placenta Amnion	Placenta Amnion
17	chr15:57840800-57848000	Genic enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr15:57840800-57849400	Enhancers	Fetal Muscle Leg	muscle
19	chr15:57841000-57843400	Weak transcription	HepG2	liver
20	chr15:57841000-57847800	Enhancers	Right Atrium	heart
21	chr15:57841000-57848000	Enhancers	Breast Myoepithelial Primary Cells	Breast
22	chr15:57841000-57848600	Enhancers	HSMMtube	muscle
23	chr15:57841200-57843600	Enhancers	Skeletal Muscle Female	skeletal muscle
24	chr15:57841200-57847600	Enhancers	Left Ventricle	heart
25	chr15:57841400-57843400	Genic enhancers	HUES6 Cell Line	embryonic stem cell
26	chr15:57841400-57843400	Weak transcription	Spleen	Spleen
27	chr15:57841400-57843800	Enhancers	Psoas Muscle	Psoas
28	chr15:57841800-57847200	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
29	chr15:57842000-57843400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
30	chr15:57842000-57843400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr15:57842000-57847800	Enhancers	Fetal Intestine Small	intestine
32	chr15:57842200-57843400	Weak transcription	Fetal Stomach	stomach
33	chr15:57842200-57843400	Enhancers	Hela-S3	cervix
34	chr15:57842200-57843600	Enhancers	Brain Anterior Caudate	brain
35	chr15:57842200-57843800	Enhancers	Stomach Smooth Muscle	stomach
36	chr15:57842400-57844200	Enhancers	HUVEC	blood vessel
37	chr15:57842400-57846000	Weak transcription	Brain Inferior Temporal Lobe	brain
38	chr15:57842600-57843600	Enhancers	Brain Hippocampus Middle	brain
39	chr15:57842600-57845200	Enhancers	Fetal Kidney	kidney
40	chr15:57842800-57843400	Genic enhancers	ES-I3 Cell Line	embryonic stem cell
41	chr15:57842800-57843400	Genic enhancers	Liver	Liver
42	chr15:57842800-57843400	Enhancers	A549	lung
43	chr15:57842800-57843400	Enhancers	HSMM	muscle
44	chr15:57842800-57843600	Enhancers	Aorta	Aorta
45	chr15:57842800-57843600	Enhancers	Duodenum Mucosa	Duodenum
46	chr15:57842800-57843600	Flanking Active TSS	Fetal Heart	heart
47	chr15:57842800-57843800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
48	chr15:57842800-57844000	Enhancers	Right Ventricle	heart
49	chr15:57842800-57845200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr15:57842800-57845400	Enhancers	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links