Variant report

Variant	rs16967167
Chromosome Location	chr15:38960676-38960677
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10220877	0.81[ASN][1000 genomes]
rs10459669	0.87[CEU][hapmap]
rs17653420	1.00[CHB][hapmap];0.93[ASN][1000 genomes]
rs17653702	1.00[CHB][hapmap];0.88[ASN][1000 genomes]
rs17654449	0.82[CEU][hapmap]
rs2088133	0.81[ASN][1000 genomes]
rs4318178	0.81[ASN][1000 genomes]
rs55676440	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56094338	0.94[ASN][1000 genomes]
rs56378506	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72729347	0.88[ASN][1000 genomes]
rs72729348	0.88[ASN][1000 genomes]
rs72729349	0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72729351	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72729355	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72729356	0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs872967	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949171	chr15:38232548-39033746	Genic enhancers Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv904085	chr15:38786114-38985513	Weak transcription Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1046994	chr15:38806163-39239014	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
4	nsv525770	chr15:38816833-39084956	Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	nsv1054651	chr15:38827825-39082844	Weak transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv542358	chr15:38827825-39082844	Bivalent/Poised TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16967167	RASGRP1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:38949600-38963800	Enhancers	Primary T cells from cord blood	blood
2	chr15:38953000-38962400	Enhancers	Primary T helper cells PMA-I stimulated	--
3	chr15:38955200-38963200	Weak transcription	Primary monocytes fromperipheralblood	blood
4	chr15:38955200-38963600	Weak transcription	Monocytes-CD14+_RO01746	blood
5	chr15:38956000-38964000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
6	chr15:38956000-38964800	Enhancers	Primary T killer memory cells from peripheral blood	blood
7	chr15:38956200-38961400	Enhancers	Fetal Thymus	thymus
8	chr15:38956200-38967600	Enhancers	Primary T helper cells fromperipheralblood	blood
9	chr15:38956800-38964000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
10	chr15:38957000-38961200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
11	chr15:38957000-38961800	Enhancers	Primary hematopoietic stem cells short term culture	blood
12	chr15:38957000-38964200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
13	chr15:38958400-38960800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr15:38958400-38961400	Enhancers	Primary hematopoietic stem cells	blood
15	chr15:38958400-38961400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
16	chr15:38959000-38960800	Enhancers	Dnd41	blood
17	chr15:38959000-38961400	Enhancers	Thymus	Thymus
18	chr15:38959000-38967400	Enhancers	Primary T cells fromperipheralblood	blood
19	chr15:38959200-38960800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
20	chr15:38959200-38960800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr15:38959400-38960800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
22	chr15:38959400-38964800	Weak transcription	Primary neutrophils fromperipheralblood	blood
23	chr15:38959600-38962000	Weak transcription	GM12878-XiMat	blood
24	chr15:38959800-38961400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr15:38959800-38961400	Enhancers	Breast Myoepithelial Primary Cells	Breast
26	chr15:38959800-38961600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
27	chr15:38959800-38963600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
28	chr15:38960000-38961000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
29	chr15:38960000-38964200	Weak transcription	Spleen	Spleen
30	chr15:38960200-38961000	Enhancers	HUES6 Cell Line	embryonic stem cell
31	chr15:38960200-38962400	Enhancers	Primary T helper naive cells from peripheral blood	blood
32	chr15:38960400-38960800	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
33	chr15:38960400-38961400	Enhancers	Fetal Brain Female	brain
34	chr15:38960400-38961600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr15:38960600-38961000	Enhancers	Brain Cingulate Gyrus	brain
36	chr15:38960600-38961200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
37	chr15:38960600-38961400	Enhancers	Brain Germinal Matrix	brain
38	chr15:38960600-38962000	Weak transcription	Primary B cells from peripheral blood	blood
39	chr15:38960600-38962200	Weak transcription	Primary B cells from cord blood	blood

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