Variant report

Variant	rs2025949
Chromosome Location	chr13:93944277-93944278
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs1323998	0.85[CHB][hapmap];0.83[CHD][hapmap];0.84[JPT][hapmap];0.85[ASN][1000 genomes]
rs1475449	0.94[CEU][hapmap]
rs4142598	0.89[CEU][hapmap];0.85[CHB][hapmap];0.84[JPT][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7338831	0.84[CEU][hapmap];0.80[CHB][hapmap];0.95[CHD][hapmap];0.84[JPT][hapmap];0.91[MEX][hapmap];0.86[TSI][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9523990	0.83[CEU][hapmap];0.80[CHB][hapmap];0.90[JPT][hapmap];0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9523991	0.87[CEU][hapmap];0.90[JPT][hapmap];0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9523998	0.94[ASW][hapmap];0.94[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];0.91[MEX][hapmap];0.80[MKK][hapmap];0.91[TSI][hapmap];0.94[YRI][hapmap];0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs956036	0.89[CEU][hapmap]
rs9561304	0.94[CEU][hapmap];0.81[GIH][hapmap];0.80[EUR][1000 genomes]
rs9589698	0.89[CEU][hapmap];0.80[CHB][hapmap];0.84[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869070	chr13:93347616-94286933	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1053035	chr13:93842576-94229732	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv541880	chr13:93842576-94229732	Active TSS Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	esv2751156	chr13:93912999-93988638	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:93929000-93953800	Weak transcription	Right Atrium	heart
2	chr13:93932400-93952200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr13:93934800-93945800	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr13:93938800-93946000	Weak transcription	HUES6 Cell Line	embryonic stem cell
5	chr13:93939000-93945800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
6	chr13:93939200-93945600	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr13:93941600-93945600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr13:93942600-93945400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr13:93942800-93955400	Weak transcription	A549	lung
10	chr13:93943400-93947200	Weak transcription	HSMM	muscle
11	chr13:93943600-93962200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr13:93943800-93952400	Weak transcription	Fetal Intestine Small	intestine

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

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