Variant report

Variant	rs9380409
Chromosome Location	chr6:34110257-34110258
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:34096880..34099579-chr6:34108497..34110851,2	K562	blood:
2	chr6:33956037..33957950-chr6:34107696..34110664,2	MCF-7	breast:

Extended variants
information (count: 18 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs11753307	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs2029457	0.80[CEU][hapmap]
rs2029461	0.82[CEU][hapmap]
rs2451330	0.82[JPT][hapmap]
rs2499729	0.80[CEU][hapmap]
rs2499730	0.82[CEU][hapmap]
rs2499732	0.80[CEU][hapmap]
rs6928019	0.88[CEU][hapmap];0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916210	chr6:33804111-34144062	Weak transcription Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	32 gene(s)	inside rSNPs	diseases
2	nsv462900	chr6:33932442-34195011	Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
3	nsv602843	chr6:33932442-34195011	Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	17 gene(s)	inside rSNPs	diseases
4	nsv432881	chr6:34026522-34213822	Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases
5	nsv885780	chr6:34050917-34131376	Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
6	nsv462902	chr6:34056726-34195011	Enhancers Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
7	nsv602862	chr6:34056726-34195011	Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
8	nsv885781	chr6:34110257-34247661	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
9	nsv462903	chr6:34110257-34263743	Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
10	nsv602863	chr6:34110257-34263743	Weak transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	56 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9380409	NUDT3	cis	parietal	SCAN
rs9380409	FKBP5	cis	cerebellum	SCAN

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:34103800-34110400	Enhancers	HUES6 Cell Line	embryonic stem cell
2	chr6:34104400-34111400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
3	chr6:34107600-34110400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr6:34107600-34111400	Weak transcription	Right Atrium	heart
5	chr6:34108200-34110400	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr6:34108400-34111400	Bivalent Enhancer	Breast Myoepithelial Primary Cells	Breast
7	chr6:34108400-34111600	Bivalent Enhancer	Fetal Muscle Leg	muscle
8	chr6:34108800-34110400	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr6:34109000-34110600	Bivalent Enhancer	ES-I3 Cell Line	embryonic stem cell
10	chr6:34109400-34110400	Enhancers	H1 Cell Line	embryonic stem cell
11	chr6:34109600-34110400	Bivalent/Poised TSS	Brain Anterior Caudate	brain
12	chr6:34109600-34110400	Bivalent Enhancer	Rectal Mucosa Donor 29	rectum
13	chr6:34109600-34110600	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr6:34109600-34111400	Enhancers	ES-WA7 Cell Line	embryonic stem cell
15	chr6:34109600-34111400	Bivalent Enhancer	Primary T helper naive cells from peripheral blood	blood
16	chr6:34109600-34111400	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
17	chr6:34109600-34111400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
18	chr6:34109600-34111600	Bivalent Enhancer	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr6:34109800-34110400	Bivalent Enhancer	HUES64 Cell Line	embryonic stem cell
20	chr6:34109800-34110600	Bivalent Enhancer	Duodenum Mucosa	Duodenum
21	chr6:34109800-34111200	Bivalent Enhancer	Primary T helper naive cells fromperipheralblood	blood
22	chr6:34109800-34111400	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
23	chr6:34109800-34111600	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
24	chr6:34110000-34111400	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
25	chr6:34110000-34111400	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
26	chr6:34110000-34111800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr6:34110000-34111800	Enhancers	Spleen	Spleen
28	chr6:34110000-34112600	Bivalent Enhancer	Fetal Brain Male	brain
29	chr6:34110000-34112600	Bivalent Enhancer	Placenta Amnion	Placenta Amnion
30	chr6:34110200-34110400	Bivalent Enhancer	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr6:34110200-34110400	Bivalent Enhancer	Fetal Intestine Small	intestine
32	chr6:34110200-34110400	Bivalent Enhancer	NHEK	skin
33	chr6:34110200-34110600	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
34	chr6:34110200-34110600	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr6:34110200-34110600	Bivalent/Poised TSS	Brain Germinal Matrix	brain
36	chr6:34110200-34110800	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
37	chr6:34110200-34111400	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr6:34110200-34111400	Bivalent Enhancer	Primary T killer naive cells fromperipheralblood	blood
39	chr6:34110200-34111400	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr6:34110200-34111400	Bivalent Enhancer	Skeletal Muscle Female	skeletal muscle
41	chr6:34110200-34111600	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 2	blood
42	chr6:34110200-34111600	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 1	blood
43	chr6:34110200-34111600	Bivalent Enhancer	Primary T helper 17 cells PMA-I stimulated	--
44	chr6:34110200-34111800	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
45	chr6:34110200-34111800	Bivalent Enhancer	Fetal Stomach	stomach
46	chr6:34110200-34113200	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
47	chr6:34110200-34114000	Bivalent Enhancer	Placenta	Placenta

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