Variant report

Variant	rs1535948
Chromosome Location	chr6:33783883-33783884
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs1535949	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1555691	0.85[YRI][hapmap];0.81[AFR][1000 genomes]
rs1886354	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2281816	0.82[JPT][hapmap]
rs3763260	0.82[JPT][hapmap]
rs4607416	0.85[JPT][hapmap]
rs4713686	0.82[JPT][hapmap]
rs4713689	0.86[JPT][hapmap]
rs62397561	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs749795	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs767896	0.92[ASW][hapmap];0.96[YRI][hapmap];0.82[AMR][1000 genomes]
rs942497	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885773	chr6:33778964-33813043	Enhancers Weak transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Flanking Bivalent TSS/Enh	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv885774	chr6:33778964-33840121	Weak transcription Enhancers Genic enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats	Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1535948	NUDT3	cis	lymphoblastoid	seeQTL
rs1535948	HLA-DMA	cis	lymphoblastoid	seeQTL

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33776400-33792400	Weak transcription	Right Atrium	heart
2	chr6:33778600-33784000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
3	chr6:33781600-33784000	Enhancers	ES-I3 Cell Line	embryonic stem cell
4	chr6:33781800-33784800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr6:33781800-33792400	Weak transcription	HUES48 Cell Line	embryonic stem cell
6	chr6:33782200-33790600	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr6:33782800-33784800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr6:33782800-33790600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr6:33783800-33784600	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr6:33783800-33787000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr6:33783800-33788200	Weak transcription	H1 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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