Variant report

Variant	rs6676373
Chromosome Location	chr1:180852489-180852490
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:0)
Chromatin interactive
region (count:7)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	USF1	chr1:180852328-180852655	HCT-116	colon:	n/a	n/a

No data

(count:7 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr1:180846972..180853051-chr1:181055773..181063614,10	MCF-7	breast:
2	chr1:180852477..180854638-chr1:181111716..181113316,2	MCF-7	breast:
3	chr1:180851999..180855713-chr1:180860478..180863788,4	K562	blood:
4	chr1:180851368..180853381-chr1:180991093..180993402,2	MCF-7	breast:
5	chr1:180852232..180854673-chr1:180866066..180867580,2	K562	blood:
6	chr1:180849682..180853088-chr1:181056991..181059628,4	K562	blood:
7	chr1:180844696..180847616-chr1:180851368..180852915,2	K562	blood:

No data

Variant related genes	Relation type
XPR1	TF binding region
ENSG00000272198	Chromatin interaction
ENSG00000162783	Chromatin interaction
ENSG00000135823	Chromatin interaction

Extended variants
information (count: 95 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:94)

rs_ID	r²[population]
rs10914071	0.84[YRI][hapmap]
rs10914072	0.81[YRI][hapmap]
rs10914081	0.83[YRI][hapmap]
rs10914085	0.89[YRI][hapmap]
rs10914087	0.81[YRI][hapmap]
rs10914088	0.84[YRI][hapmap]
rs10914090	0.84[YRI][hapmap]
rs10914091	0.82[YRI][hapmap]
rs10914093	0.81[YRI][hapmap]
rs10914106	0.81[YRI][hapmap]
rs10914119	0.81[YRI][hapmap]
rs10914120	0.84[YRI][hapmap]
rs10914125	0.94[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11484582	0.84[YRI][hapmap]
rs11484677	0.84[YRI][hapmap]
rs12058064	0.82[YRI][hapmap]
rs12058106	0.82[YRI][hapmap]
rs12059242	0.83[YRI][hapmap]
rs12059644	0.82[YRI][hapmap]
rs12059678	0.81[YRI][hapmap]
rs12059686	0.84[YRI][hapmap]
rs12063893	0.87[YRI][hapmap]
rs12067061	0.84[YRI][hapmap]
rs12067934	0.81[YRI][hapmap]
rs12068624	0.89[YRI][hapmap]
rs12068720	0.83[YRI][hapmap]
rs12070064	0.81[YRI][hapmap]
rs12070161	0.84[YRI][hapmap]
rs12070595	0.84[YRI][hapmap]
rs12071498	0.87[YRI][hapmap]
rs12073086	0.86[YRI][hapmap]
rs12075235	0.81[YRI][hapmap]
rs12075809	0.81[YRI][hapmap]
rs12077610	0.84[YRI][hapmap]
rs12078050	0.81[YRI][hapmap]
rs12079208	0.81[YRI][hapmap]
rs12080611	0.81[YRI][hapmap]
rs12081764	0.81[YRI][hapmap]
rs12082250	0.84[YRI][hapmap]
rs12082289	0.84[YRI][hapmap]
rs12084318	0.84[YRI][hapmap]
rs12084517	0.83[YRI][hapmap]
rs12086559	0.94[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12087173	0.84[YRI][hapmap]
rs12087411	0.84[YRI][hapmap]
rs12088182	0.88[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12088419	0.87[YRI][hapmap]
rs12088425	0.82[YRI][hapmap]
rs12088430	0.81[YRI][hapmap]
rs12088431	0.84[YRI][hapmap]
rs12088485	0.81[YRI][hapmap]
rs12089305	0.83[YRI][hapmap]
rs12089469	0.84[YRI][hapmap]
rs12089778	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12090251	0.88[YRI][hapmap]
rs12090937	0.85[YRI][hapmap]
rs12091686	0.89[YRI][hapmap]
rs12092161	0.81[YRI][hapmap]
rs12092594	0.84[YRI][hapmap]
rs12092920	0.94[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12093445	0.85[YRI][hapmap]
rs12093826	0.84[YRI][hapmap]
rs12094326	0.84[YRI][hapmap]
rs12095486	0.94[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12095684	0.81[YRI][hapmap]
rs12096475	0.94[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12097114	0.84[YRI][hapmap]
rs58065433	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59562665	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6659121	0.89[YRI][hapmap]
rs6668077	0.84[YRI][hapmap]
rs6668578	0.83[YRI][hapmap]
rs6672886	0.81[YRI][hapmap]
rs6672994	0.84[YRI][hapmap]
rs6675596	0.81[YRI][hapmap]
rs6681878	0.81[YRI][hapmap]
rs6682446	0.84[YRI][hapmap]
rs6686781	0.84[YRI][hapmap]
rs6686881	0.81[YRI][hapmap]
rs6691204	0.94[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6692867	0.81[YRI][hapmap]
rs6693045	0.81[YRI][hapmap]
rs6698724	0.84[YRI][hapmap]
rs73047730	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73047732	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73047734	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73047747	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73047748	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7522212	0.84[YRI][hapmap]
rs7525801	0.83[YRI][hapmap]
rs7533479	0.80[YRI][hapmap]
rs7542521	0.81[YRI][hapmap]
rs7545150	0.84[YRI][hapmap]
rs7549787	0.84[YRI][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014404	chr1:180770155-181090200	Weak transcription Active TSS Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	97 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:95 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:180773800-180853200	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr1:180805800-180881000	Weak transcription	Aorta	Aorta
3	chr1:180812200-180867000	Weak transcription	Ovary	ovary
4	chr1:180822000-180862800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr1:180822800-180862800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
6	chr1:180823000-180854600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr1:180823600-180860000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr1:180823800-180862600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr1:180824000-180867600	Weak transcription	Fetal Muscle Leg	muscle
10	chr1:180824000-180880800	Weak transcription	Right Ventricle	heart
11	chr1:180827800-180856600	Weak transcription	Primary hematopoietic stem cells	blood
12	chr1:180828000-180853200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
13	chr1:180828000-180853200	Weak transcription	NHEK	skin
14	chr1:180828600-180867800	Weak transcription	HSMM	muscle
15	chr1:180830000-180867600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
16	chr1:180831200-180858600	Weak transcription	Rectal Mucosa Donor 29	rectum
17	chr1:180831600-180852600	Weak transcription	Fetal Lung	lung
18	chr1:180832400-180853200	Weak transcription	Fetal Stomach	stomach
19	chr1:180832600-180854400	Weak transcription	Liver	Liver
20	chr1:180832800-180861800	Weak transcription	HepG2	liver
21	chr1:180834800-180855800	Weak transcription	Gastric	stomach
22	chr1:180835400-180862800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr1:180835600-180855400	Weak transcription	Skeletal Muscle Male	skeletal muscle
24	chr1:180835800-180856600	Weak transcription	Fetal Intestine Large	intestine
25	chr1:180835800-180858800	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr1:180835800-180861600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr1:180835800-180870400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr1:180841000-180867800	Weak transcription	Lung	lung
29	chr1:180841800-180855000	Weak transcription	Primary neutrophils fromperipheralblood	blood
30	chr1:180841800-180856000	Weak transcription	Fetal Muscle Trunk	muscle
31	chr1:180842200-180857200	Weak transcription	HUES48 Cell Line	embryonic stem cell
32	chr1:180842200-180857600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
33	chr1:180842200-180858600	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr1:180842400-180858000	Weak transcription	HUES64 Cell Line	embryonic stem cell
35	chr1:180843400-180853200	Weak transcription	Primary T helper cells PMA-I stimulated	--
36	chr1:180843600-180855800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
37	chr1:180843600-180856800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr1:180843600-180862800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr1:180843800-180858000	Weak transcription	Primary B cells from peripheral blood	blood
40	chr1:180843800-180858600	Weak transcription	HMEC	breast
41	chr1:180844200-180872200	Weak transcription	Esophagus	oesophagus
42	chr1:180844400-180853800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
43	chr1:180844400-180856000	Weak transcription	Duodenum Smooth Muscle	Duodenum
44	chr1:180844400-180858000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
45	chr1:180844400-180867400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
46	chr1:180845800-180856400	Weak transcription	Psoas Muscle	Psoas
47	chr1:180845800-180869000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr1:180847400-180875400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr1:180848400-180853000	Weak transcription	Primary B cells from cord blood	blood
50	chr1:180848800-180857400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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