Variant report

Variant	rs1677415
Chromosome Location	chr5:115683658-115683659
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:115647669..115649812-chr5:115683571..115685304,2	K562	blood:

Extended variants
information (count: 42 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10037895	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10054441	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1090078	0.82[AFR][1000 genomes];0.80[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs12516272	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1421846	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1421847	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs149131	0.80[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs153580	0.83[ASN][1000 genomes]
rs153588	0.80[AMR][1000 genomes]
rs153593	0.82[ASN][1000 genomes]
rs153594	0.81[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs1644268	0.81[ASN][1000 genomes]
rs173813	0.86[ASN][1000 genomes]
rs185263	0.85[ASN][1000 genomes]
rs253951	0.80[ASN][1000 genomes]
rs253952	0.80[ASN][1000 genomes]
rs253961	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs254151	0.85[ASN][1000 genomes]
rs27125	0.80[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs27368	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28031	0.90[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6594966	0.81[AMR][1000 genomes]
rs6594967	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6897517	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs712591	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs712601	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7701723	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7705679	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7708765	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7719798	0.81[AMR][1000 genomes]
rs7722563	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs785373	0.83[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs785375	0.83[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs785377	0.83[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs929752	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9327000	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34146	chr5:115315944-115729919	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Strong transcription Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
2	esv2755349	chr5:115384101-115733101	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
3	nsv882746	chr5:115566026-115704566	Weak transcription Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1017983	chr5:115578765-115713688	Weak transcription ZNF genes & repeats Active TSS Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv869754	chr5:115634234-115696094	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv4968	chr5:115635771-115714856	Flanking Active TSS Strong transcription ZNF genes & repeats Weak transcription Bivalent/Poised TSS Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1677415	COMMD10	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:115649000-115692800	Weak transcription	Fetal Heart	heart
2	chr5:115678400-115684000	Weak transcription	Primary hematopoietic stem cells	blood
3	chr5:115679000-115686800	Weak transcription	Primary T cells from cord blood	blood
4	chr5:115679800-115686800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr5:115679800-115686800	Weak transcription	Left Ventricle	heart
6	chr5:115680000-115683800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
7	chr5:115680000-115684000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr5:115680000-115693200	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr5:115680200-115684000	Weak transcription	Aorta	Aorta
10	chr5:115680600-115695800	Weak transcription	Ovary	ovary
11	chr5:115683200-115684600	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
12	chr5:115683200-115689000	Weak transcription	Primary T helper cells PMA-I stimulated	--
13	chr5:115683400-115684400	ZNF genes & repeats	Primary T helper cells fromperipheralblood	blood
14	chr5:115683400-115685200	ZNF genes & repeats	Primary B cells from cord blood	blood
15	chr5:115683400-115685200	ZNF genes & repeats	Primary Natural Killer cells fromperipheralblood	blood
16	chr5:115683600-115684400	ZNF genes & repeats	Skeletal Muscle Female	skeletal muscle

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