Variant report

Variant	rs28855077
Chromosome Location	chr5:46378957-46378958
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 105 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10035839	0.82[AFR][1000 genomes]
rs10053628	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10054179	0.89[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs10054540	0.84[AFR][1000 genomes]
rs10055898	0.90[AFR][1000 genomes]
rs10058065	0.89[AFR][1000 genomes]
rs10059207	0.84[AFR][1000 genomes]
rs10060408	0.83[AFR][1000 genomes]
rs10062139	0.86[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs10071996	0.85[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs10076113	0.82[AFR][1000 genomes]
rs10080117	0.82[AFR][1000 genomes]
rs10213721	0.95[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs10214016	0.83[AFR][1000 genomes]
rs10214118	0.92[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs10214255	0.95[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs10214256	0.91[ASN][1000 genomes]
rs10462113	0.86[AFR][1000 genomes]
rs10473426	0.82[AFR][1000 genomes]
rs10941803	0.86[AFR][1000 genomes]
rs10941822	0.82[ASN][1000 genomes]
rs10941823	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11748472	0.92[AFR][1000 genomes]
rs11750244	0.82[AFR][1000 genomes]
rs12513540	0.95[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs12518422	0.84[EUR][1000 genomes]
rs12518698	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12522625	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12656991	0.81[AFR][1000 genomes]
rs12657568	0.94[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs13157277	0.94[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs13187523	0.91[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs13187720	0.91[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs13354339	0.85[AFR][1000 genomes]
rs13358908	0.90[AFR][1000 genomes]
rs28816502	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs28847123	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs34101830	0.85[AFR][1000 genomes]
rs36019653	0.86[AFR][1000 genomes]
rs36031455	0.92[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs4975899	0.87[AFR][1000 genomes]
rs4975904	0.86[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs4975927	0.82[AFR][1000 genomes]
rs4975938	0.83[AFR][1000 genomes]
rs4975940	0.96[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs4975941	0.81[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs4975942	0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4975943	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4975944	0.87[AFR][1000 genomes]
rs61351693	0.82[AFR][1000 genomes]
rs7293325	0.87[ASN][1000 genomes]
rs7293371	0.86[AFR][1000 genomes]
rs7293440	0.95[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs7293442	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7293446	0.95[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs8185006	0.83[AFR][1000 genomes]
rs8185011	0.88[AFR][1000 genomes]
rs8185088	0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8185220	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs8185247	0.82[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs8185288	0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs8185303	0.90[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs8185329	0.91[AFR][1000 genomes]
rs8185354	0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs8185356	0.87[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs8188228	0.96[AFR][1000 genomes];0.86[ASN][1000 genomes]
rs8188256	0.92[AFR][1000 genomes]
rs8188260	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:37 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1027084	chr5:45675353-46389261	ZNF genes & repeats Bivalent Enhancer Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1024533	chr5:45840303-46389261	ZNF genes & repeats Weak transcription Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS Genic enhancers Flanking Active TSS	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv1035033	chr5:45898541-46389261	ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv1020758	chr5:45899779-46389261	ZNF genes & repeats Enhancers Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv1024568	chr5:45905997-46389261	Active TSS ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Enhancers Genic enhancers Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv1028073	chr5:45906782-46389261	Active TSS ZNF genes & repeats Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv1023025	chr5:45916036-46389261	Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Transcr. at gene 5' and 3' Enhancers Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv1034474	chr5:45921127-46389261	Weak transcription ZNF genes & repeats Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv1017281	chr5:45922311-46389261	ZNF genes & repeats Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv1025907	chr5:45931038-46389261	ZNF genes & repeats Bivalent/Poised TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases
11	nsv1027296	chr5:45939287-46389261	ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv1023770	chr5:45953688-46389261	ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv1025880	chr5:46000763-46389261	ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv1017988	chr5:46035145-46389261	Bivalent/Poised TSS ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
15	nsv1034670	chr5:46101845-46389261	Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
16	nsv1028712	chr5:46106823-46389261	ZNF genes & repeats Weak transcription Bivalent/Poised TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
17	nsv1019374	chr5:46115828-46389261	ZNF genes & repeats Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Bivalent/Poised TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
18	nsv1018733	chr5:46136820-46389261	ZNF genes & repeats Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases
19	nsv1028954	chr5:46151819-46389261	Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
20	nsv1029174	chr5:46152428-46389261	ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Active TSS Enhancers Genic enhancers Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases
21	nsv1027538	chr5:46161510-46389261	ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
22	nsv1020350	chr5:46191236-46389261	ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
23	nsv1028629	chr5:46195871-46389261	Weak transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
24	nsv598016	chr5:46199395-46399274	ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
25	nsv1016871	chr5:46199422-46389261	ZNF genes & repeats Active TSS Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
26	nsv1028468	chr5:46209287-46382640	Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases
27	nsv1032169	chr5:46209287-46389261	ZNF genes & repeats Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
28	nsv1017681	chr5:46209870-46389261	ZNF genes & repeats Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
29	nsv1034011	chr5:46224012-46389261	ZNF genes & repeats Weak transcription Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
30	nsv1029514	chr5:46246501-46389261	ZNF genes & repeats Weak transcription Enhancers Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
31	nsv1019933	chr5:46251306-46389261	ZNF genes & repeats Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases
32	nsv1032372	chr5:46270996-46389261	ZNF genes & repeats Weak transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
33	esv19788	chr5:46271528-46405359	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases
34	nsv598083	chr5:46276787-46399274	ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
35	nsv1021211	chr5:46278212-46389261	ZNF genes & repeats Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Enhancers Genic enhancers Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
36	nsv1031446	chr5:46313335-46389261	ZNF genes & repeats Flanking Bivalent TSS/Enh Weak transcription Active TSS Transcr. at gene 5' and 3' Enhancers Bivalent/Poised TSS Flanking Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
37	nsv1029954	chr5:46326176-46389261	ZNF genes & repeats Weak transcription Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:46377600-46380400	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
2	chr5:46377600-46380400	ZNF genes & repeats	Primary hematopoietic stem cells	blood
3	chr5:46377600-46380600	ZNF genes & repeats	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr5:46377600-46383400	ZNF genes & repeats	iPS-18 Cell Line	embryonic stem cell
5	chr5:46377600-46383800	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
6	chr5:46377600-46385200	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell
7	chr5:46377600-46385400	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
8	chr5:46377800-46379000	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr5:46377800-46379400	Weak transcription	Psoas Muscle	Psoas
10	chr5:46377800-46379600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
11	chr5:46377800-46379600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr5:46377800-46379600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
13	chr5:46377800-46379600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
14	chr5:46377800-46379600	Weak transcription	Gastric	stomach
15	chr5:46377800-46379600	Weak transcription	Left Ventricle	heart
16	chr5:46377800-46380000	Weak transcription	Aorta	Aorta
17	chr5:46377800-46380000	Weak transcription	Stomach Mucosa	stomach
18	chr5:46377800-46380000	Weak transcription	K562	blood
19	chr5:46377800-46380200	Weak transcription	Esophagus	oesophagus
20	chr5:46377800-46381800	Weak transcription	NH-A	brain
21	chr5:46378200-46379000	Weak transcription	Colonic Mucosa	Colon
22	chr5:46378200-46379000	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr5:46378600-46381000	ZNF genes & repeats	Duodenum Smooth Muscle	Duodenum
24	chr5:46378800-46379000	ZNF genes & repeats	Muscle Satellite Cultured Cells	--

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