Variant report

Variant	rs4349115
Chromosome Location	chr15:77758680-77758681
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 85 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:80)

rs_ID	r²[population]
rs10519165	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10519166	0.98[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12898506	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12898522	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12901298	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12905548	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12905890	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12906093	0.97[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12906155	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12906220	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12909547	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12909771	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12910225	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12911362	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12912739	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12914885	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12917103	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12917143	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12917211	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12917347	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12917359	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16968817	0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16968829	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16968848	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16968851	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17386174	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17469938	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17471280	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17471809	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17472416	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1949269	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2036896	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2864841	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34023254	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34137991	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs34158220	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34197100	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34237392	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34344208	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34410684	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34607003	0.88[AMR][1000 genomes]
rs34660075	0.98[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34664675	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34665451	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34690222	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34772392	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34858590	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34905779	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34918566	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs35015654	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35277326	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs35347401	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35383172	0.88[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs35420345	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35450609	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs35628983	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35775156	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35778082	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35834995	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs35892909	0.92[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36103772	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4288963	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62007266	0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62007269	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62007278	0.89[ASN][1000 genomes]
rs62007303	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62007307	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62007310	0.95[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62007313	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62007316	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62007337	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62007338	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62007339	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62007340	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62007343	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62010561	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62010567	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs72742499	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs8031202	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs907399	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1040852	chr15:77160237-78137541	Enhancers Flanking Active TSS Active TSS Strong transcription Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv1045376	chr15:77354671-77801487	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv542443	chr15:77354671-77801487	Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
4	nsv916323	chr15:77485765-78121259	Enhancers Strong transcription Weak transcription Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
5	nsv1043284	chr15:77740632-77884026	Weak transcription Strong transcription Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4349115	SGK269	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:77730600-77758800	Weak transcription	Lung	lung
2	chr15:77743200-77763200	Weak transcription	Brain Germinal Matrix	brain
3	chr15:77748200-77766800	Weak transcription	Aorta	Aorta
4	chr15:77748400-77770600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr15:77749000-77770400	Weak transcription	Spleen	Spleen
6	chr15:77749600-77763400	Weak transcription	Fetal Brain Male	brain
7	chr15:77749800-77758800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr15:77750000-77758800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
9	chr15:77750000-77760600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr15:77750000-77763400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr15:77750000-77766400	Weak transcription	Psoas Muscle	Psoas
12	chr15:77750000-77770400	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr15:77750200-77759000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr15:77750200-77759000	Weak transcription	Ovary	ovary
15	chr15:77750200-77763400	Weak transcription	Rectal Smooth Muscle	rectum
16	chr15:77750200-77763800	Weak transcription	Right Ventricle	heart
17	chr15:77750200-77767000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
18	chr15:77750400-77759400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
19	chr15:77750400-77777800	Strong transcription	Primary B cells from peripheral blood	blood
20	chr15:77750600-77759000	Weak transcription	HMEC	breast
21	chr15:77750600-77759200	Weak transcription	Colon Smooth Muscle	Colon
22	chr15:77750600-77759400	Weak transcription	NHEK	skin
23	chr15:77750600-77777800	Strong transcription	Monocytes-CD14+_RO01746	blood
24	chr15:77750600-77779200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr15:77750600-77779600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr15:77750800-77758800	Strong transcription	HUES64 Cell Line	embryonic stem cell
27	chr15:77750800-77758800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
28	chr15:77750800-77768200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr15:77750800-77768200	Strong transcription	Liver	Liver
30	chr15:77750800-77768200	Strong transcription	Fetal Intestine Large	intestine
31	chr15:77750800-77768400	Strong transcription	Primary T cells from cord blood	blood
32	chr15:77750800-77780400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
33	chr15:77751000-77759000	Weak transcription	Small Intestine	intestine
34	chr15:77751000-77762600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr15:77751000-77766200	Strong transcription	Primary T helper cells fromperipheralblood	blood
36	chr15:77751000-77768600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
37	chr15:77751000-77770600	Weak transcription	Gastric	stomach
38	chr15:77751000-77770600	Weak transcription	Right Atrium	heart
39	chr15:77751000-77773600	Weak transcription	Stomach Mucosa	stomach
40	chr15:77751200-77759600	Weak transcription	Placenta Amnion	Placenta Amnion
41	chr15:77752000-77763600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
42	chr15:77752200-77759000	Weak transcription	Brain Inferior Temporal Lobe	brain
43	chr15:77752200-77761800	Weak transcription	H1 Cell Line	embryonic stem cell
44	chr15:77752400-77759000	Weak transcription	Fetal Kidney	kidney
45	chr15:77752400-77762800	Weak transcription	HepG2	liver
46	chr15:77752800-77758800	Weak transcription	Stomach Smooth Muscle	stomach
47	chr15:77752800-77760600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
48	chr15:77753200-77759000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
49	chr15:77753400-77777600	Strong transcription	Rectal Mucosa Donor 31	rectum
50	chr15:77753600-77766600	Strong transcription	GM12878-XiMat	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links