Variant report

Variant	rs17154506
Chromosome Location	chr10:44350037-44350038
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	JUND	chr10:44349376-44350060	MCF-7	breast:	n/a	n/a
2	EP300	chr10:44349423-44350045	MCF-7	breast:	n/a	n/a
3	GATA3	chr10:44349442-44350221	T-47D	breast:	n/a	chr10:44349834-44349841
4	GATA3	chr10:44349541-44350051	T-47D	breast:	n/a	chr10:44349834-44349841
5	EP300	chr10:44349355-44350076	T-47D	breast:	n/a	n/a
6	GATA3	chr10:44349339-44350083	MCF-7	breast:	n/a	chr10:44349834-44349841
7	SIN3AK20	chr10:44349262-44350224	MCF-7	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr10:44340953..44343939-chr10:44348201..44350447,2	MCF-7	breast:
2	chr10:44349396..44350216-chr10:44669102..44669618,2	MCF-7	breast:
3	chr10:44345365..44347764-chr10:44350017..44351767,2	K562	blood:
4	chr10:44185207..44186112-chr10:44349223..44350193,2	MCF-7	breast:

Variant related genes	Relation type
LINC00840	TF binding region

Extended variants
information (count: 5 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs41531444	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs57678939	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59230148	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73275930	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7918642	0.82[MEX][hapmap]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17154506	RAB2A	trans	lymphoblastoid	RTeQTL

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:44340800-44357600	Weak transcription	Aorta	Aorta
2	chr10:44342200-44350200	Weak transcription	Right Atrium	heart
3	chr10:44343000-44352400	Weak transcription	HUVEC	blood vessel
4	chr10:44346600-44350800	Enhancers	Placenta	Placenta
5	chr10:44346600-44353000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr10:44347000-44350400	Enhancers	Breast Myoepithelial Primary Cells	Breast
7	chr10:44347200-44351800	Enhancers	Placenta Amnion	Placenta Amnion
8	chr10:44347400-44350200	Enhancers	HSMMtube	muscle
9	chr10:44348400-44352600	Weak transcription	Fetal Brain Female	brain
10	chr10:44348600-44350400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr10:44348600-44350800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr10:44348600-44351200	Weak transcription	Pancreas	Pancrea
13	chr10:44348600-44352600	Weak transcription	Fetal Brain Male	brain
14	chr10:44348800-44350200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr10:44349000-44350200	Enhancers	Muscle Satellite Cultured Cells	--
16	chr10:44349200-44350200	Enhancers	HSMM	muscle
17	chr10:44349200-44350200	Enhancers	NHEK	skin
18	chr10:44349200-44350400	Enhancers	Hela-S3	cervix
19	chr10:44349200-44352000	Enhancers	Fetal Heart	heart
20	chr10:44349400-44350200	Enhancers	Adipose Nuclei	Adipose
21	chr10:44349400-44350200	Bivalent Enhancer	NH-A	brain
22	chr10:44349400-44350400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr10:44349600-44350600	Enhancers	NHDF-Ad	bronchial
24	chr10:44349600-44352600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr10:44349600-44353000	Enhancers	Left Ventricle	heart
26	chr10:44349800-44351200	Weak transcription	Fetal Muscle Leg	muscle
27	chr10:44349800-44351400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr10:44349800-44352600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr10:44350000-44351200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
30	chr10:44350000-44352000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr10:44350000-44352400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr10:44350000-44352600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
33	chr10:44350000-44352600	Weak transcription	NHLF	lung
34	chr10:44350000-44352600	Weak transcription	Osteobl	bone

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