Variant report

Variant	rs836550
Chromosome Location	chr7:6440437-6440438
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:6439968..6442839-chr7:6456172..6458248,2	MCF-7	breast:
2	chr7:6412517..6417079-chr7:6439604..6446019,8	MCF-7	breast:
3	chr7:6386514..6388780-chr7:6439968..6442713,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000164535	Chromatin interaction
ENSG00000178397	Chromatin interaction
ENSG00000136238	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs702484	0.82[ASN][1000 genomes]
rs836470	0.83[ASN][1000 genomes]
rs836516	0.81[ASN][1000 genomes]
rs836548	0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948912	chr7:5803903-6623553	Active TSS Flanking Active TSS Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	123 gene(s)	inside rSNPs	diseases
2	nsv1034060	chr7:5814823-6745710	Bivalent Enhancer Active TSS Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	138 gene(s)	inside rSNPs	diseases
3	nsv538711	chr7:5814823-6745710	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	138 gene(s)	inside rSNPs	diseases
4	nsv1028242	chr7:5819084-6645024	Flanking Active TSS Weak transcription Enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers 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	127 gene(s)	inside rSNPs	diseases
5	nsv538712	chr7:5819084-6645024	Weak transcription Active TSS Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	127 gene(s)	inside rSNPs	diseases
6	nsv949531	chr7:5949371-6753694	Strong transcription Bivalent Enhancer Bivalent/Poised TSS Enhancers Weak transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	129 gene(s)	inside rSNPs	diseases
7	nsv1020236	chr7:6248930-6690377	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
8	nsv497874	chr7:6296768-6614902	Transcr. at gene 5' and 3' Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
9	nsv605999	chr7:6396719-6472881	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
10	esv1824738	chr7:6431933-6554222	Transcr. at gene 5' and 3' Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
11	esv1825865	chr7:6431933-6554222	Strong transcription Genic enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs836550	RAC1	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:6426000-6456400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr7:6426000-6475600	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr7:6426400-6457400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr7:6433200-6441200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr7:6433600-6441200	Weak transcription	Fetal Kidney	kidney
6	chr7:6433800-6440600	Weak transcription	HSMMtube	muscle
7	chr7:6434200-6441200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr7:6434200-6441200	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr7:6434400-6440800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
10	chr7:6436000-6440800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr7:6436000-6444800	Weak transcription	Fetal Brain Male	brain
12	chr7:6436200-6440800	Weak transcription	H1 Cell Line	embryonic stem cell
13	chr7:6436200-6441000	Weak transcription	Primary T helper cells PMA-I stimulated	--
14	chr7:6436200-6441200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr7:6436200-6448200	Weak transcription	Small Intestine	intestine
16	chr7:6437200-6449000	Strong transcription	Fetal Stomach	stomach
17	chr7:6437400-6457400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
18	chr7:6437400-6457400	Strong transcription	Dnd41	blood
19	chr7:6437600-6444000	Strong transcription	K562	blood
20	chr7:6437600-6470400	Strong transcription	Fetal Brain Female	brain
21	chr7:6437800-6441000	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
22	chr7:6437800-6441400	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr7:6437800-6441400	Genic enhancers	Lung	lung
24	chr7:6437800-6450200	Strong transcription	Thymus	Thymus
25	chr7:6437800-6456400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
26	chr7:6437800-6457200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
27	chr7:6437800-6457400	Strong transcription	Primary B cells from peripheral blood	blood
28	chr7:6438000-6457400	Strong transcription	Rectal Mucosa Donor 29	rectum
29	chr7:6438000-6458000	Strong transcription	Osteobl	bone
30	chr7:6438000-6462400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr7:6438200-6445200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
32	chr7:6438200-6450600	Strong transcription	Colonic Mucosa	Colon
33	chr7:6438400-6440600	Weak transcription	Rectal Mucosa Donor 31	rectum
34	chr7:6438400-6441200	Weak transcription	Brain Germinal Matrix	brain
35	chr7:6438600-6440800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
36	chr7:6438600-6441200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
37	chr7:6438600-6444400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr7:6438600-6457200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
39	chr7:6438600-6457400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
40	chr7:6438600-6475600	Strong transcription	HUES48 Cell Line	embryonic stem cell
41	chr7:6438800-6440600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
42	chr7:6438800-6441000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr7:6438800-6441000	Weak transcription	Rectal Smooth Muscle	rectum
44	chr7:6438800-6457400	Strong transcription	Primary T cells from cord blood	blood
45	chr7:6438800-6457600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr7:6438800-6462800	Strong transcription	Primary T helper cells fromperipheralblood	blood
47	chr7:6439000-6441400	Weak transcription	Brain Substantia Nigra	brain
48	chr7:6439000-6456400	Strong transcription	HUES64 Cell Line	embryonic stem cell
49	chr7:6439200-6441400	Genic enhancers	Brain Hippocampus Middle	brain
50	chr7:6439200-6456000	Strong transcription	HUES6 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links