Variant report

Variant	rs13173077
Chromosome Location	chr5:57477898-57477899
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr5:57476926..57490322-chr5:57753628..57758155,26	MCF-7	breast:
2	chr5:57476351..57480907-chr5:57753998..57756749,5	MCF-7	breast:
3	chr5:57391599..57394381-chr5:57475722..57478619,2	MCF-7	breast:
4	chr5:57182312..57184044-chr5:57477826..57480131,3	MCF-7	breast:
5	chr5:57475683..57478861-chr5:57750004..57752974,3	MCF-7	breast:
6	chr5:57477268..57479454-chr5:57480690..57483855,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000145632	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10053377	0.80[MEX][hapmap];0.84[TSI][hapmap]
rs10940600	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10940601	1.00[ASW][hapmap];1.00[CEU][hapmap];0.83[CHB][hapmap];1.00[GIH][hapmap];0.80[LWK][hapmap];0.93[MKK][hapmap];0.95[TSI][hapmap];0.96[YRI][hapmap];0.82[AFR][1000 genomes];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11960642	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12521574	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13163245	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13173083	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13178618	1.00[CEU][hapmap];0.83[CHB][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13180583	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1473199	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1549242	0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2052545	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2112905	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];0.93[MKK][hapmap];0.95[TSI][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes];0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2194194	0.82[AFR][1000 genomes];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2910568	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2910570	0.88[ASN][1000 genomes]
rs2910597	0.81[ASW][hapmap]
rs2910608	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2962005	0.86[CHB][hapmap];0.85[JPT][hapmap];0.83[YRI][hapmap]
rs2962006	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[ASN][1000 genomes]
rs2962014	0.93[ASW][hapmap];0.86[CHD][hapmap];1.00[MEX][hapmap]
rs2964179	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2964181	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2964189	0.93[ASW][hapmap];0.84[CHD][hapmap]
rs35057576	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35133491	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6450469	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6873296	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];0.98[TSI][hapmap];0.91[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6876418	0.82[CHB][hapmap];0.91[CHD][hapmap];0.80[GIH][hapmap];0.84[TSI][hapmap]
rs6889867	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6891650	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7446005	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs764629	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7734713	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13173077	GZMA	cis	cerebellum	SCAN

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:57477200-57478000	Enhancers	Breast Myoepithelial Primary Cells	Breast
2	chr5:57477200-57479200	Enhancers	Stomach Mucosa	stomach
3	chr5:57477200-57480000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr5:57477200-57486000	Enhancers	HSMM	muscle
5	chr5:57477400-57478600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr5:57477400-57479000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr5:57477400-57479200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr5:57477400-57479200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr5:57477400-57479400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
10	chr5:57477400-57479400	Enhancers	HUVEC	blood vessel
11	chr5:57477400-57483600	Enhancers	Hela-S3	cervix
12	chr5:57477600-57478200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr5:57477600-57478200	Weak transcription	Gastric	stomach
14	chr5:57477600-57478200	Flanking Active TSS	A549	lung
15	chr5:57477600-57478800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr5:57477600-57479200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr5:57477600-57479400	Enhancers	Cortex derived primary cultured neurospheres	brain
18	chr5:57477600-57480400	Enhancers	HSMMtube	muscle
19	chr5:57477600-57483600	Enhancers	Muscle Satellite Cultured Cells	--
20	chr5:57477800-57478200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr5:57477800-57478200	Weak transcription	Ovary	ovary
22	chr5:57477800-57478600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr5:57477800-57478600	Enhancers	Fetal Lung	lung
24	chr5:57477800-57478800	Enhancers	Brain Hippocampus Middle	brain
25	chr5:57477800-57478800	Enhancers	Pancreatic Islets	Pancreatic Islet

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