Variant report

Variant	rs3743098
Chromosome Location	chr15:74062144-74062145
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1038093	0.81[JPT][hapmap];0.85[YRI][hapmap]
rs12440563	1.00[CHB][hapmap];0.98[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.87[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs17187183	0.82[JPT][hapmap];0.83[AMR][1000 genomes]
rs2123208	0.86[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs28485305	0.91[AMR][1000 genomes]
rs28688071	0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs4243087	0.83[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs4887161	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4887164	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7162423	0.82[JPT][hapmap];0.96[MEX][hapmap];0.83[AMR][1000 genomes]
rs7171779	1.00[CHB][hapmap];0.91[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs7172656	1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv471252	chr15:74006691-74089793	Bivalent/Poised TSS Weak transcription Flanking Active TSS Enhancers Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs3743098	THAP10	cis	cerebellum	SCAN
rs3743098	COMMD4	cis	cerebellum	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:74053000-74067000	Weak transcription	Fetal Brain Male	brain
2	chr15:74057200-74066000	Weak transcription	Right Atrium	heart
3	chr15:74057400-74066400	Weak transcription	Right Ventricle	heart
4	chr15:74059400-74062200	Weak transcription	Gastric	stomach
5	chr15:74060400-74067200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr15:74060600-74062400	Weak transcription	Left Ventricle	heart
7	chr15:74060600-74066000	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr15:74060800-74062200	Weak transcription	Esophagus	oesophagus
9	chr15:74060800-74063800	Weak transcription	HUES6 Cell Line	embryonic stem cell
10	chr15:74060800-74065800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr15:74060800-74073000	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr15:74061000-74066000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr15:74061000-74076600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr15:74061800-74062200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr15:74061800-74062600	Enhancers	Fetal Lung	lung
16	chr15:74062000-74062400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
17	chr15:74062000-74064400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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