Variant report

Variant	rs4924339
Chromosome Location	chr15:35185603-35185604
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 84 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10152246	0.82[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10519967	0.82[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];0.85[TSI][hapmap];0.81[YRI][hapmap];0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11633307	0.93[ASN][1000 genomes]
rs11635485	0.84[JPT][hapmap]
rs11636350	0.84[JPT][hapmap]
rs11852957	0.88[ASN][1000 genomes]
rs11855784	0.92[CHD][hapmap];0.90[JPT][hapmap];0.93[ASN][1000 genomes]
rs11857217	0.84[CHD][hapmap];0.90[JPT][hapmap];0.91[ASN][1000 genomes]
rs11858044	0.93[ASN][1000 genomes]
rs12439825	0.83[JPT][hapmap];0.88[MEX][hapmap]
rs12593379	0.96[ASN][1000 genomes]
rs12593818	0.81[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.85[TSI][hapmap];0.88[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12595318	0.86[ASN][1000 genomes]
rs12898639	0.88[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12899377	0.89[JPT][hapmap];0.93[ASN][1000 genomes]
rs12901028	0.88[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs12901457	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12901991	0.90[JPT][hapmap];0.92[ASN][1000 genomes]
rs12902633	0.88[ASN][1000 genomes]
rs12904279	0.88[ASN][1000 genomes]
rs12915493	0.82[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12917386	0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs12917597	0.93[ASN][1000 genomes]
rs1376784	0.82[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.85[MKK][hapmap];0.85[TSI][hapmap];0.81[YRI][hapmap];0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs16959966	0.82[CHD][hapmap];0.81[ASN][1000 genomes]
rs2044920	0.91[ASN][1000 genomes]
rs2060809	0.82[CHD][hapmap];0.92[MEX][hapmap]
rs2060810	0.96[MEX][hapmap]
rs2060812	0.82[JPT][hapmap]
rs2123048	0.93[ASN][1000 genomes]
rs2290320	0.90[CHD][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs2305411	0.84[JPT][hapmap]
rs2339746	0.93[ASN][1000 genomes]
rs3743121	0.90[CHD][hapmap];0.84[JPT][hapmap];0.84[ASN][1000 genomes]
rs3816447	0.82[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.93[ASN][1000 genomes]
rs3848167	0.90[CHD][hapmap];0.90[JPT][hapmap];0.93[ASN][1000 genomes]
rs4513050	0.82[CHD][hapmap];0.84[MEX][hapmap]
rs4569214	0.89[JPT][hapmap]
rs4923817	0.82[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.91[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs4923818	0.89[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4923845	0.84[JPT][hapmap]
rs4924324	0.93[ASN][1000 genomes]
rs4924325	0.90[CHD][hapmap];0.90[JPT][hapmap];0.93[ASN][1000 genomes]
rs4924344	0.82[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.81[YRI][hapmap];0.87[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4924355	0.86[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4924357	0.82[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.84[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4924369	0.82[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6495723	0.92[ASN][1000 genomes]
rs6495724	0.90[CHD][hapmap];0.89[JPT][hapmap];0.83[MEX][hapmap];0.93[ASN][1000 genomes]
rs6495726	0.84[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6495729	0.84[JPT][hapmap]
rs7164151	0.88[MEX][hapmap]
rs7164169	0.82[CHD][hapmap];0.92[MEX][hapmap]
rs7164266	0.82[CHD][hapmap];0.92[MEX][hapmap]
rs7164977	0.90[JPT][hapmap];0.92[ASN][1000 genomes]
rs7165835	0.89[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7167892	0.82[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7170737	0.88[ASN][1000 genomes]
rs7171808	0.91[ASN][1000 genomes]
rs7177962	0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs7179833	0.82[CHD][hapmap]
rs7182356	0.82[CHD][hapmap];0.84[MEX][hapmap]
rs7182492	0.92[ASN][1000 genomes]
rs7497306	0.89[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs8024212	0.81[ASN][1000 genomes]
rs8025770	0.89[CHD][hapmap];0.89[JPT][hapmap];0.84[MEX][hapmap];0.91[ASN][1000 genomes]
rs8031583	0.93[ASN][1000 genomes]
rs8031677	0.93[ASN][1000 genomes]
rs8036690	0.93[ASN][1000 genomes]
rs8040551	0.90[CHD][hapmap];0.84[JPT][hapmap];0.80[MEX][hapmap];0.91[ASN][1000 genomes]
rs959478	0.89[JPT][hapmap];0.93[ASN][1000 genomes]
rs963425	0.82[CHB][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap];0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9672656	0.82[ASN][1000 genomes]
rs9806487	0.82[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9920918	0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3350109	chr15:34668106-35534229	Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv522411	chr15:34953986-35462981	Enhancers Strong transcription Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	nsv457106	chr15:35049787-35227613	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv569153	chr15:35049787-35227613	Active TSS Strong transcription Enhancers Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	esv2761865	chr15:35101678-35271639	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	nsv832967	chr15:35110102-35267906	Strong transcription Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Genic enhancers Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
7	nsv904071	chr15:35150897-35250771	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
8	nsv904072	chr15:35150897-35259376	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
9	nsv569154	chr15:35165366-35259376	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4924339	FAM149B1	trans	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:35140400-35221600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr15:35145200-35198200	Weak transcription	Colonic Mucosa	Colon
3	chr15:35171000-35186600	Strong transcription	Adipose Nuclei	Adipose
4	chr15:35173200-35189000	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr15:35176200-35195000	Weak transcription	Brain Substantia Nigra	brain
6	chr15:35181800-35186000	Strong transcription	Primary T killer memory cells from peripheral blood	blood
7	chr15:35182000-35190800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr15:35183000-35185800	Strong transcription	Rectal Smooth Muscle	rectum
9	chr15:35184200-35185800	Strong transcription	Placenta	Placenta
10	chr15:35184200-35185800	Strong transcription	NHDF-Ad	bronchial
11	chr15:35184200-35186600	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
12	chr15:35184200-35187000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr15:35184200-35187000	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
14	chr15:35184200-35187000	ZNF genes & repeats	Primary T cells from cord blood	blood
15	chr15:35184200-35187800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr15:35184200-35190600	Strong transcription	Skeletal Muscle Female	skeletal muscle
17	chr15:35184400-35186000	Strong transcription	Stomach Smooth Muscle	stomach
18	chr15:35184400-35186200	ZNF genes & repeats	Primary T killer naive cells fromperipheralblood	blood
19	chr15:35184400-35186200	Strong transcription	Muscle Satellite Cultured Cells	--
20	chr15:35184400-35186200	Strong transcription	Fetal Brain Female	brain
21	chr15:35184400-35186400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr15:35184400-35186400	ZNF genes & repeats	Fetal Heart	heart
23	chr15:35184400-35186600	ZNF genes & repeats	iPS-15b Cell Line	embryonic stem cell
24	chr15:35184400-35186600	ZNF genes & repeats	Primary hematopoietic stem cells	blood
25	chr15:35184400-35186600	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
26	chr15:35184400-35187000	ZNF genes & repeats	A549	lung
27	chr15:35184600-35186000	ZNF genes & repeats	Rectal Mucosa Donor 31	rectum
28	chr15:35184600-35186200	Strong transcription	Brain Anterior Caudate	brain
29	chr15:35184600-35186400	ZNF genes & repeats	HMEC	breast
30	chr15:35184600-35186600	ZNF genes & repeats	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr15:35184600-35187000	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
32	chr15:35184600-35187200	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
33	chr15:35184600-35187200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr15:35184600-35189400	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr15:35184600-35193200	Strong transcription	Cortex derived primary cultured neurospheres	brain
36	chr15:35184800-35186000	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
37	chr15:35184800-35186000	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr15:35184800-35186000	ZNF genes & repeats	Primary neutrophils fromperipheralblood	blood
39	chr15:35184800-35186000	ZNF genes & repeats	Primary T helper memory cells from peripheral blood 2	blood
40	chr15:35184800-35186000	ZNF genes & repeats	Duodenum Mucosa	Duodenum
41	chr15:35184800-35186000	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
42	chr15:35184800-35186200	ZNF genes & repeats	Primary B cells from peripheral blood	blood
43	chr15:35184800-35186200	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr15:35184800-35186200	ZNF genes & repeats	Brain Germinal Matrix	brain
45	chr15:35184800-35186200	Strong transcription	Brain Hippocampus Middle	brain
46	chr15:35184800-35186200	ZNF genes & repeats	Fetal Muscle Leg	muscle
47	chr15:35184800-35186200	ZNF genes & repeats	Rectal Mucosa Donor 29	rectum
48	chr15:35184800-35186200	ZNF genes & repeats	Dnd41	blood
49	chr15:35184800-35186200	ZNF genes & repeats	HSMM	muscle
50	chr15:35184800-35186200	ZNF genes & repeats	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links