Variant report

Variant	rs13177875
Chromosome Location	chr5:37078328-37078329
allele	C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:37074741..37077292-chr5:37078064..37079770,2	MCF-7	breast:
2	chr5:37074333..37077289-chr5:37078175..37080893,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-NIPBL-4	chr5:37077734-37080044	NONHSAT101050

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10512664	0.87[AFR][1000 genomes]
rs12652735	0.81[AFR][1000 genomes]
rs12652882	0.87[AFR][1000 genomes]
rs12658479	0.87[AFR][1000 genomes]
rs13166829	0.93[AFR][1000 genomes]
rs13166974	0.87[AFR][1000 genomes]
rs13169211	0.87[AFR][1000 genomes]
rs13171061	0.93[AFR][1000 genomes]
rs13171414	0.81[AFR][1000 genomes]
rs13176996	0.87[AFR][1000 genomes]
rs13177573	0.93[AFR][1000 genomes]
rs13181187	0.93[AFR][1000 genomes]
rs13183090	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13184464	0.93[AFR][1000 genomes]
rs13188136	0.93[AFR][1000 genomes]
rs13189308	0.81[AFR][1000 genomes]
rs158802	0.87[EUR][1000 genomes]
rs16903459	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16903490	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16903531	0.87[AFR][1000 genomes]
rs245588	0.80[EUR][1000 genomes]
rs292186	0.82[ASN][1000 genomes]
rs293774	0.87[EUR][1000 genomes]
rs294695	0.81[ASN][1000 genomes]
rs34066351	0.89[ASN][1000 genomes]
rs34479946	0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34525350	0.93[AFR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35011787	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs35151340	0.81[AFR][1000 genomes]
rs35701604	0.81[ASN][1000 genomes]
rs468022	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56261529	0.81[ASN][1000 genomes]
rs59398009	0.93[AFR][1000 genomes]
rs61748200	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6861906	0.98[ASN][1000 genomes]
rs9632396	0.87[AFR][1000 genomes]
rs9637791	0.93[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525478	chr5:36804225-37349895	Strong transcription Transcr. at gene 5' and 3' Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	esv1793961	chr5:36866835-37361728	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	65 gene(s)	inside rSNPs	diseases
3	nsv530225	chr5:36886635-37331912	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
4	nsv1024051	chr5:36899712-37303001	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
5	nsv537725	chr5:36899712-37303001	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
6	nsv530226	chr5:36906377-37606367	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
7	nsv917880	chr5:36948778-37115342	Genic enhancers Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
8	esv1802391	chr5:36958598-37242600	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
9	nsv597822	chr5:36997953-37147152	Strong transcription Enhancers Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
10	nsv534064	chr5:37054962-37586210	Active TSS Strong transcription Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:36949600-37086800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr5:37058600-37090000	Weak transcription	Right Ventricle	heart
3	chr5:37060600-37079800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr5:37061200-37096800	Weak transcription	Psoas Muscle	Psoas
5	chr5:37061200-37103400	Weak transcription	Fetal Kidney	kidney
6	chr5:37061800-37079600	Weak transcription	Aorta	Aorta
7	chr5:37064200-37105000	Weak transcription	Fetal Brain Male	brain
8	chr5:37064600-37104000	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr5:37064800-37086800	Weak transcription	Pancreas	Pancrea
10	chr5:37064800-37087000	Weak transcription	Colonic Mucosa	Colon
11	chr5:37064800-37093600	Weak transcription	Brain Germinal Matrix	brain
12	chr5:37065000-37079600	Weak transcription	Stomach Smooth Muscle	stomach
13	chr5:37065000-37079600	Weak transcription	HSMMtube	muscle
14	chr5:37065000-37083000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr5:37065000-37083000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr5:37065000-37084400	Weak transcription	Fetal Intestine Small	intestine
17	chr5:37065000-37086800	Weak transcription	Lung	lung
18	chr5:37065000-37087000	Weak transcription	Esophagus	oesophagus
19	chr5:37065000-37092600	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr5:37065000-37092600	Weak transcription	Small Intestine	intestine
21	chr5:37065000-37097400	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr5:37065000-37099400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
23	chr5:37065000-37107600	Weak transcription	Rectal Smooth Muscle	rectum
24	chr5:37065200-37078600	Weak transcription	Primary hematopoietic stem cells	blood
25	chr5:37065200-37079600	Weak transcription	Left Ventricle	heart
26	chr5:37065200-37080400	Weak transcription	Fetal Stomach	stomach
27	chr5:37065200-37090800	Weak transcription	Primary T cells from cord blood	blood
28	chr5:37065200-37103400	Weak transcription	Skeletal Muscle Female	skeletal muscle
29	chr5:37065400-37079400	Weak transcription	Fetal Muscle Trunk	muscle
30	chr5:37065400-37080200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr5:37065600-37079200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
32	chr5:37065600-37085000	Weak transcription	Duodenum Mucosa	Duodenum
33	chr5:37065600-37086600	Weak transcription	Fetal Intestine Large	intestine
34	chr5:37065600-37089400	Weak transcription	Primary T cells fromperipheralblood	blood
35	chr5:37065600-37102400	Weak transcription	Placenta	Placenta
36	chr5:37065800-37087000	Weak transcription	Rectal Mucosa Donor 31	rectum
37	chr5:37066000-37079600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
38	chr5:37066000-37086400	Weak transcription	Primary T helper cells PMA-I stimulated	--
39	chr5:37066200-37085800	Weak transcription	Primary B cells from cord blood	blood
40	chr5:37066800-37080000	Weak transcription	Hela-S3	cervix
41	chr5:37067000-37078400	Weak transcription	Duodenum Smooth Muscle	Duodenum
42	chr5:37067000-37079600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
43	chr5:37067000-37087000	Weak transcription	Colon Smooth Muscle	Colon
44	chr5:37067000-37111400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
45	chr5:37068800-37078400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
46	chr5:37072400-37086600	Weak transcription	NHLF	lung
47	chr5:37072600-37097400	Weak transcription	Brain Angular Gyrus	brain
48	chr5:37072600-37103600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr5:37072800-37079000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr5:37072800-37079600	Weak transcription	NHDF-Ad	bronchial

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