Variant report

Variant	rs1128977
Chromosome Location	chr1:165389129-165389130
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 6 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs10918178	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs41424948	0.81[CEU][hapmap];0.80[CHB][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4657437	0.96[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61800587	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61800588	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6676763	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1128977	TMCO1	cis	parietal	SCAN
rs1128977	ARHGAP30	cis	parietal	SCAN

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:165362800-165392200	Weak transcription	Brain Anterior Caudate	brain
2	chr1:165373600-165392600	Weak transcription	Brain Substantia Nigra	brain
3	chr1:165376400-165393400	Weak transcription	Brain Hippocampus Middle	brain
4	chr1:165378000-165399600	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr1:165378400-165391200	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr1:165379400-165393800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr1:165380400-165394000	Weak transcription	Right Ventricle	heart
8	chr1:165381200-165389200	Strong transcription	Fetal Muscle Leg	muscle
9	chr1:165382600-165389200	Weak transcription	Adipose Nuclei	Adipose
10	chr1:165385600-165393600	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr1:165386600-165392000	Weak transcription	Fetal Lung	lung
12	chr1:165388200-165389800	Weak transcription	Duodenum Smooth Muscle	Duodenum
13	chr1:165388600-165389200	Enhancers	Left Ventricle	heart
14	chr1:165388600-165390000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
15	chr1:165388600-165390400	Enhancers	Skeletal Muscle Female	skeletal muscle
16	chr1:165388800-165389400	Enhancers	Breast Myoepithelial Primary Cells	Breast
17	chr1:165389000-165389200	Bivalent Enhancer	Aorta	Aorta
18	chr1:165389000-165389200	Enhancers	Esophagus	oesophagus
19	chr1:165389000-165389200	Enhancers	Ovary	ovary
20	chr1:165389000-165389200	Enhancers	Psoas Muscle	Psoas
21	chr1:165389000-165389200	Enhancers	Right Atrium	heart
22	chr1:165389000-165390000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr1:165389000-165390000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr1:165389000-165390200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
25	chr1:165389000-165390600	Enhancers	NHEK	skin
26	chr1:165389000-165391800	Weak transcription	Fetal Muscle Trunk	muscle

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