Variant report

Variant	rs12024529
Chromosome Location	chr1:91984800-91984801
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	chr1:91984712..91986944-chr1:91994080..91996686,2	K562	blood:

Extended variants
information (count: 41 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10399689	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10399810	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10399813	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10399814	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10493849	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10493850	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10493851	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10782953	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10874758	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10874782	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11164877	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11164899	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11164913	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11164915	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12025632	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12027099	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12028436	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12029889	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12031239	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12035234	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12035345	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12036176	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12036298	0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12046667	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12057283	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12070660	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12758662	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12759236	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12759724	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13447523	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1508588	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1531232	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1876264	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2219394	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2297709	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2893175	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35504045	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4658225	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs745732	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[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	nsv949516	chr1:91644418-92109261	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv1009560	chr1:91897078-92270781	Enhancers Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12024529	CDC7	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:91967200-91989000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr1:91967400-91984800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr1:91967400-91989000	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr1:91967600-91990600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr1:91967800-92009600	Weak transcription	Thymus	Thymus
6	chr1:91968000-91991600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr1:91968200-91987400	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr1:91968400-91984800	Weak transcription	NH-A	brain
9	chr1:91968400-91992000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr1:91968600-91986400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr1:91968600-91989000	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr1:91968600-91991000	Weak transcription	Fetal Stomach	stomach
13	chr1:91968800-91989000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr1:91968800-91991200	Weak transcription	Cortex derived primary cultured neurospheres	brain
15	chr1:91969200-91989000	Weak transcription	Primary T helper cells PMA-I stimulated	--
16	chr1:91970800-91988800	Weak transcription	Fetal Brain Male	brain
17	chr1:91971000-91989000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
18	chr1:91971000-91991200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr1:91972400-91992400	Weak transcription	Fetal Muscle Trunk	muscle
20	chr1:91972800-91989000	Weak transcription	Primary T cells fromperipheralblood	blood
21	chr1:91973000-91986800	Strong transcription	HUES64 Cell Line	embryonic stem cell
22	chr1:91973400-91987000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr1:91974400-91992000	Weak transcription	HUVEC	blood vessel
24	chr1:91974800-91991000	Strong transcription	Dnd41	blood
25	chr1:91975000-91995200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr1:91975600-91991600	Weak transcription	NHLF	lung
27	chr1:91977600-91992600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr1:91977800-91995200	Weak transcription	HMEC	breast
29	chr1:91978200-91986000	Weak transcription	Left Ventricle	heart
30	chr1:91978800-91993400	Weak transcription	Osteobl	bone
31	chr1:91979600-91985200	Weak transcription	Rectal Smooth Muscle	rectum
32	chr1:91980000-91985200	Weak transcription	Colon Smooth Muscle	Colon
33	chr1:91980000-91991600	Weak transcription	Placenta	Placenta
34	chr1:91980200-91992000	Weak transcription	Fetal Kidney	kidney
35	chr1:91980400-91991600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr1:91980600-91984800	Weak transcription	Duodenum Mucosa	Duodenum
37	chr1:91980600-91986400	Weak transcription	Fetal Heart	heart
38	chr1:91980600-91992400	Weak transcription	Primary monocytes fromperipheralblood	blood
39	chr1:91980600-91995800	Weak transcription	HSMM	muscle
40	chr1:91981000-91984800	Weak transcription	Fetal Lung	lung
41	chr1:91981000-91986400	Weak transcription	NHDF-Ad	bronchial
42	chr1:91981000-91991600	Weak transcription	Brain Germinal Matrix	brain
43	chr1:91981000-91995200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr1:91982000-91985000	Strong transcription	H9 Cell Line	embryonic stem cell
45	chr1:91982600-91988000	Weak transcription	Fetal Brain Female	brain
46	chr1:91983000-92002600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
47	chr1:91983200-91985000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr1:91983200-91988400	Weak transcription	A549	lung
49	chr1:91983200-91988600	Weak transcription	Primary hematopoietic stem cells	blood
50	chr1:91983200-91989000	Weak transcription	Primary T cells from cord blood	blood

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