Variant report

Variant	rs640273
Chromosome Location	chr3:99366192-99366193
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs1618635	0.87[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs1711553	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1818483	1.00[EUR][1000 genomes]
rs485715	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs563041	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs595273	1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.85[AMR][1000 genomes]
rs6440724	0.80[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6803793	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs684701	1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs640273	TDRD9	trans	lymphoblastoid	seeQTL

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:99358000-99369400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:99360000-99370200	Weak transcription	Right Atrium	heart
3	chr3:99361200-99366200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr3:99361200-99366600	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr3:99361600-99366600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr3:99362600-99367600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr3:99362600-99368800	Enhancers	Colon Smooth Muscle	Colon
8	chr3:99362800-99369200	Enhancers	NHLF	lung
9	chr3:99363200-99367400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr3:99363800-99366600	Enhancers	NH-A	brain
11	chr3:99363800-99367800	Enhancers	HMEC	breast
12	chr3:99363800-99369000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr3:99364000-99367000	Enhancers	NHDF-Ad	bronchial
14	chr3:99364000-99370200	Weak transcription	Ovary	ovary
15	chr3:99364400-99366800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr3:99364400-99367000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr3:99364400-99367400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr3:99364400-99370000	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr3:99364800-99367000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr3:99364800-99368600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
21	chr3:99365000-99366600	Weak transcription	Brain Germinal Matrix	brain
22	chr3:99365000-99366600	Weak transcription	Rectal Mucosa Donor 31	rectum
23	chr3:99365000-99367000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr3:99365000-99367000	Weak transcription	Fetal Muscle Leg	muscle
25	chr3:99365000-99370200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
26	chr3:99365000-99370200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
27	chr3:99365000-99370400	Weak transcription	HUES64 Cell Line	embryonic stem cell
28	chr3:99365000-99371600	Enhancers	Breast Myoepithelial Primary Cells	Breast
29	chr3:99365200-99366400	Genic enhancers	Muscle Satellite Cultured Cells	--
30	chr3:99365200-99367000	Weak transcription	Aorta	Aorta
31	chr3:99365200-99368000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
32	chr3:99365200-99370200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
33	chr3:99365400-99366400	Strong transcription	HSMM	muscle
34	chr3:99365400-99366800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
35	chr3:99365400-99366800	Weak transcription	HSMMtube	muscle
36	chr3:99365400-99367000	Weak transcription	Stomach Mucosa	stomach
37	chr3:99365400-99367400	Weak transcription	Fetal Stomach	stomach
38	chr3:99365400-99369800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr3:99365600-99366600	Flanking Active TSS	HUVEC	blood vessel
40	chr3:99365600-99366800	Enhancers	Osteobl	bone
41	chr3:99365600-99369600	Weak transcription	Stomach Smooth Muscle	stomach
42	chr3:99365600-99369800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr3:99365800-99366200	Weak transcription	Adipose Nuclei	Adipose
44	chr3:99366000-99366600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr3:99366000-99366600	Enhancers	NHEK	skin
46	chr3:99366000-99368200	Enhancers	Rectal Smooth Muscle	rectum

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