Variant report

Variant	rs3804765
Chromosome Location	chr3:111705992-111705993
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:111696580..111701033-chr3:111701725..111706722,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000144827	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs13068845	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13083736	0.81[EUR][1000 genomes]
rs2120094	0.86[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3762707	0.94[EUR][1000 genomes]
rs3792405	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs510549	0.81[ASW][hapmap]
rs61245364	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6770228	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs3804765	TMPRSS7	cis	cerebellum	SCAN
rs3804765	KIAA1407	cis	cerebellum	SCAN

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:111698400-111710200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr3:111698600-111717400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:111698600-111717400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr3:111698600-111717400	Weak transcription	Placenta Amnion	Placenta Amnion
5	chr3:111698800-111706200	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr3:111698800-111717400	Weak transcription	Colonic Mucosa	Colon
7	chr3:111698800-111717400	Weak transcription	Placenta	Placenta
8	chr3:111698800-111717600	Weak transcription	HSMMtube	muscle
9	chr3:111699000-111717400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr3:111699200-111717400	Weak transcription	Skeletal Muscle Male	skeletal muscle
11	chr3:111699600-111712400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr3:111700000-111706000	Weak transcription	NHDF-Ad	bronchial
13	chr3:111700000-111707600	Weak transcription	Brain Inferior Temporal Lobe	brain
14	chr3:111700000-111707800	Weak transcription	K562	blood
15	chr3:111700000-111710200	Weak transcription	Hela-S3	cervix
16	chr3:111700000-111715600	Weak transcription	Spleen	Spleen
17	chr3:111700200-111706000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr3:111700200-111707400	Weak transcription	Right Ventricle	heart
19	chr3:111700200-111710200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr3:111700200-111717400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr3:111700200-111717400	Weak transcription	Esophagus	oesophagus
22	chr3:111700200-111717400	Weak transcription	Pancreas	Pancrea
23	chr3:111700200-111717600	Weak transcription	Ovary	ovary
24	chr3:111700800-111706000	Weak transcription	Muscle Satellite Cultured Cells	--
25	chr3:111700800-111706400	Weak transcription	NHEK	skin
26	chr3:111700800-111710200	Weak transcription	Brain Angular Gyrus	brain
27	chr3:111700800-111711600	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr3:111700800-111716200	Weak transcription	Small Intestine	intestine
29	chr3:111700800-111717400	Weak transcription	Fetal Heart	heart
30	chr3:111701000-111706000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr3:111701000-111708600	Strong transcription	Primary hematopoietic stem cells	blood
32	chr3:111701000-111712000	Weak transcription	Fetal Brain Male	brain
33	chr3:111701000-111717400	Weak transcription	Rectal Smooth Muscle	rectum
34	chr3:111701000-111717400	Weak transcription	NHLF	lung
35	chr3:111701200-111710200	Weak transcription	Brain Cingulate Gyrus	brain
36	chr3:111701200-111717400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
37	chr3:111701600-111706000	Weak transcription	Brain Substantia Nigra	brain
38	chr3:111701600-111708200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr3:111702000-111708200	Strong transcription	Dnd41	blood
40	chr3:111702000-111708400	Strong transcription	Primary B cells from cord blood	blood
41	chr3:111702200-111708200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr3:111702200-111713000	Strong transcription	Monocytes-CD14+_RO01746	blood
43	chr3:111702600-111708800	Strong transcription	Primary B cells from peripheral blood	blood
44	chr3:111703000-111709400	Strong transcription	Fetal Thymus	thymus
45	chr3:111703000-111712600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
46	chr3:111703400-111707000	Weak transcription	HSMM	muscle
47	chr3:111703600-111711200	Strong transcription	HUES64 Cell Line	embryonic stem cell
48	chr3:111703800-111711800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
49	chr3:111703800-111716400	Weak transcription	Pancreatic Islets	Pancreatic Islet
50	chr3:111704200-111706200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links