Variant report

Variant	rs1873298
Chromosome Location	chr1:212376453-212376454
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10779576	0.87[CHB][hapmap];0.81[JPT][hapmap];0.87[MKK][hapmap];0.85[ASN][1000 genomes]
rs10863949	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10863950	0.85[EUR][1000 genomes]
rs11119881	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1472225	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1962127	0.97[ASN][1000 genomes]
rs1967115	1.00[ASN][1000 genomes]
rs2358453	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2921128	0.82[CHB][hapmap]
rs4951578	1.00[ASN][1000 genomes]
rs4951584	0.87[CHB][hapmap]
rs6678627	0.91[ASN][1000 genomes]
rs7516619	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7548606	0.99[ASN][1000 genomes]
rs7549707	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs792433	0.82[CHB][hapmap]
rs792443	0.82[CHB][hapmap]
rs903123	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv999738	chr1:212218618-212513690	Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv1009376	chr1:212292357-212680320	Weak transcription Strong transcription Enhancers Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
3	nsv549139	chr1:212332294-212876902	Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	114 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1873298	LOC148696	cis	parietal	SCAN
rs1873298	IL24	cis	cerebellum	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:212368800-212391000	Weak transcription	Thymus	Thymus
2	chr1:212375200-212379600	Enhancers	Placenta	Placenta
3	chr1:212375800-212376800	Enhancers	HepG2	liver
4	chr1:212375800-212376800	Enhancers	K562	blood
5	chr1:212376000-212376800	Enhancers	Sigmoid Colon	Sigmoid Colon
6	chr1:212376000-212377000	Enhancers	Lung	lung
7	chr1:212376000-212377200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr1:212376000-212382400	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr1:212376200-212377000	Weak transcription	Fetal Lung	lung
10	chr1:212376200-212378000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr1:212376200-212380000	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr1:212376200-212380600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr1:212376400-212380600	Weak transcription	Left Ventricle	heart

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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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