Variant report

Variant	rs4909005
Chromosome Location	chr3:18017998-18017999
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:18017415..18021031-chr3:18035820..18038949,3	K562	blood:
2	chr3:18006324..18009213-chr3:18016966..18019722,2	K562	blood:

Extended variants
information (count: 24 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs1367521	0.86[ASN][1000 genomes]
rs2337386	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4128378	0.86[ASN][1000 genomes]
rs4908954	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4908955	0.92[EUR][1000 genomes]
rs4909001	0.80[ASN][1000 genomes]
rs6577608	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6793262	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap]
rs6807199	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7374020	0.86[ASN][1000 genomes]
rs7428364	0.80[ASN][1000 genomes]
rs7430739	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7431124	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.89[MEX][hapmap];0.91[TSI][hapmap];0.85[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs7432256	0.89[CEU][hapmap];0.85[GIH][hapmap];0.84[MEX][hapmap];0.81[TSI][hapmap];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7611417	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7627212	0.82[AMR][1000 genomes];0.80[ASN][1000 genomes]
rs7641293	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7644630	0.88[CEU][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7646613	0.90[EUR][1000 genomes]
rs7649870	0.84[AMR][1000 genomes]
rs9833830	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9878816	0.89[CEU][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9880185	1.00[CHB][hapmap];1.00[JPT][hapmap]

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	esv1807571	chr3:18017246-18057347	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4909005	C3orf20	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:18009800-18019000	Weak transcription	Fetal Thymus	thymus
2	chr3:18014000-18021600	Enhancers	Dnd41	blood
3	chr3:18014400-18021400	Weak transcription	Thymus	Thymus
4	chr3:18014600-18019800	Weak transcription	Rectal Smooth Muscle	rectum
5	chr3:18015200-18020200	Weak transcription	Fetal Stomach	stomach
6	chr3:18015400-18022600	Weak transcription	Stomach Smooth Muscle	stomach
7	chr3:18015600-18021000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr3:18015800-18018200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr3:18016800-18018400	Enhancers	Primary hematopoietic stem cells short term culture	blood
10	chr3:18016800-18022000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr3:18017200-18021000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr3:18017200-18021800	Enhancers	Colon Smooth Muscle	Colon
13	chr3:18017400-18018400	Enhancers	Primary hematopoietic stem cells	blood

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