Variant report

Variant	rs9590354
Chromosome Location	chr13:96653662-96653663
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	TEAD4	chr13:96653241-96653668	H1-hESC	embryonic stem cell:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:96646657..96649376-chr13:96653623..96656450,2	K562	blood:
2	chr13:96645821..96648157-chr13:96652865..96656450,3	K562	blood:

Variant related genes	Relation type
UGGT2	TF binding region

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10454558	0.85[EUR][1000 genomes]
rs13378684	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28895285	0.90[AFR][1000 genomes]
rs35405829	0.95[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs3782991	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3825423	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4406928	0.92[AFR][1000 genomes]
rs58509921	0.83[AFR][1000 genomes]
rs61152555	0.98[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs61422359	0.87[EUR][1000 genomes]
rs7318577	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7327257	0.98[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs7332461	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7988464	0.89[AFR][1000 genomes]
rs7990333	0.87[EUR][1000 genomes]
rs7990743	0.87[EUR][1000 genomes]
rs9584330	0.90[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9584331	0.95[AFR][1000 genomes]
rs9584332	0.98[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9584335	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9590335	0.87[AFR][1000 genomes]
rs9590338	0.92[AFR][1000 genomes]
rs9590340	0.85[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9590341	0.88[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9590351	0.95[AFR][1000 genomes]
rs9590352	0.98[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9590353	0.89[AFR][1000 genomes]
rs9590356	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9590357	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9590359	0.96[ASN][1000 genomes]
rs9590361	0.85[EUR][1000 genomes]
rs9590362	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832691	chr13:96478098-96659823	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv1050430	chr13:96508530-97020734	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv541883	chr13:96508530-97020734	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh 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	13 gene(s)	inside rSNPs	diseases
4	nsv1041165	chr13:96522021-96966520	Enhancers Bivalent/Poised TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv1051574	chr13:96550653-96779248	Strong transcription Weak transcription Active TSS ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv1040320	chr13:96573646-96790859	Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
7	nsv869471	chr13:96622327-97223956	Weak transcription Strong transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:96612200-96655000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr13:96612200-96668600	Weak transcription	Pancreas	Pancrea
3	chr13:96613200-96694200	Weak transcription	A549	lung
4	chr13:96613600-96663600	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr13:96616200-96668600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
6	chr13:96616800-96668400	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr13:96617000-96663200	Weak transcription	NHDF-Ad	bronchial
8	chr13:96618800-96654200	Weak transcription	Fetal Lung	lung
9	chr13:96621600-96668600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr13:96622000-96668600	Weak transcription	Aorta	Aorta
11	chr13:96622200-96660400	Weak transcription	Ovary	ovary
12	chr13:96622200-96668600	Weak transcription	Fetal Kidney	kidney
13	chr13:96622200-96671400	Weak transcription	Hela-S3	cervix
14	chr13:96622200-96677200	Weak transcription	NH-A	brain
15	chr13:96622400-96668200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr13:96623600-96668200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr13:96630200-96660400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr13:96632400-96657600	Weak transcription	GM12878-XiMat	blood
19	chr13:96632800-96657800	Weak transcription	Fetal Muscle Leg	muscle
20	chr13:96634800-96668200	Weak transcription	Fetal Stomach	stomach
21	chr13:96635600-96657400	Weak transcription	Fetal Muscle Trunk	muscle
22	chr13:96635600-96657600	Weak transcription	Left Ventricle	heart
23	chr13:96635600-96659200	Weak transcription	Adipose Nuclei	Adipose
24	chr13:96635800-96655200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr13:96636400-96659000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr13:96640400-96655800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
27	chr13:96643600-96657600	Weak transcription	Gastric	stomach
28	chr13:96645400-96659000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr13:96646800-96659400	Weak transcription	Cortex derived primary cultured neurospheres	brain
30	chr13:96647400-96659200	Weak transcription	Psoas Muscle	Psoas
31	chr13:96647600-96668200	Weak transcription	Monocytes-CD14+_RO01746	blood
32	chr13:96648000-96668200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr13:96648200-96657600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr13:96648200-96668000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr13:96649800-96659200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr13:96650000-96655600	Enhancers	iPS-15b Cell Line	embryonic stem cell
37	chr13:96650200-96654400	Enhancers	ES-I3 Cell Line	embryonic stem cell
38	chr13:96651000-96671800	Weak transcription	HSMM	muscle
39	chr13:96651200-96655200	Weak transcription	H9 Cell Line	embryonic stem cell
40	chr13:96651200-96656200	Enhancers	HUES64 Cell Line	embryonic stem cell
41	chr13:96651200-96657600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr13:96651800-96655000	Weak transcription	Right Ventricle	heart
43	chr13:96652200-96655200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
44	chr13:96652600-96654600	Enhancers	iPS-18 Cell Line	embryonic stem cell
45	chr13:96652600-96668400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr13:96652800-96656000	Enhancers	HUES6 Cell Line	embryonic stem cell
47	chr13:96652800-96668000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr13:96653000-96656000	Enhancers	HUES48 Cell Line	embryonic stem cell
49	chr13:96653400-96655000	Weak transcription	H1 Cell Line	embryonic stem cell
50	chr13:96653600-96654000	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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