Variant report

Variant	rs28546690
Chromosome Location	chr4:174130867-174130868
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:174088960..174091992-chr4:174129910..174133714,4	MCF-7	breast:
2	chr4:174121153..174123700-chr4:174130402..174133173,2	K562	blood:
3	chr4:174124063..174127246-chr4:174130049..174132075,3	K562	blood:

Variant related genes	Relation type
ENSG00000109586	Chromatin interaction
ENSG00000245213	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs28366929	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs28523864	0.81[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs28546457	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs28601896	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs28701034	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs6819129	0.87[ASN][1000 genomes]
rs6823312	0.86[AFR][1000 genomes];0.95[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	esv1799519	chr4:174090004-174173743	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv518900	chr4:174130503-174142874	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:86 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:174104000-174157200	Weak transcription	Ovary	ovary
2	chr4:174112600-174131200	Weak transcription	Colonic Mucosa	Colon
3	chr4:174112800-174140000	Weak transcription	Aorta	Aorta
4	chr4:174113400-174132600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr4:174113800-174138000	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr4:174114200-174157800	Weak transcription	Rectal Mucosa Donor 29	rectum
7	chr4:174114600-174155000	Weak transcription	Rectal Mucosa Donor 31	rectum
8	chr4:174116800-174135200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr4:174120400-174131200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr4:174122000-174132600	Weak transcription	Muscle Satellite Cultured Cells	--
11	chr4:174123600-174174200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
12	chr4:174124800-174131800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr4:174125600-174144800	Weak transcription	Primary B cells from cord blood	blood
14	chr4:174125800-174132400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr4:174125800-174132400	Weak transcription	Primary hematopoietic stem cells	blood
16	chr4:174125800-174139200	Weak transcription	Primary T helper cells PMA-I stimulated	--
17	chr4:174126000-174156400	Weak transcription	Brain Anterior Caudate	brain
18	chr4:174126400-174149800	Weak transcription	Esophagus	oesophagus
19	chr4:174126600-174131400	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr4:174126600-174132200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
21	chr4:174126600-174132400	Weak transcription	Fetal Intestine Large	intestine
22	chr4:174126600-174132400	Weak transcription	HSMM	muscle
23	chr4:174126600-174133400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr4:174126600-174135400	Weak transcription	Stomach Smooth Muscle	stomach
25	chr4:174126600-174135800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr4:174126600-174155200	Weak transcription	GM12878-XiMat	blood
27	chr4:174126600-174163400	Weak transcription	Primary B cells from peripheral blood	blood
28	chr4:174126800-174135600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr4:174126800-174139000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
30	chr4:174127000-174131000	Weak transcription	Fetal Muscle Leg	muscle
31	chr4:174127000-174132000	Weak transcription	Monocytes-CD14+_RO01746	blood
32	chr4:174127000-174139600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr4:174127000-174148600	Weak transcription	Primary monocytes fromperipheralblood	blood
34	chr4:174127000-174163600	Weak transcription	Primary T cells fromperipheralblood	blood
35	chr4:174127000-174163600	Weak transcription	Sigmoid Colon	Sigmoid Colon
36	chr4:174127200-174131000	Enhancers	HUES48 Cell Line	embryonic stem cell
37	chr4:174127200-174131000	Enhancers	HUES64 Cell Line	embryonic stem cell
38	chr4:174127400-174131000	Enhancers	iPS-18 Cell Line	embryonic stem cell
39	chr4:174127400-174135800	Weak transcription	Fetal Stomach	stomach
40	chr4:174127400-174138200	Weak transcription	Dnd41	blood
41	chr4:174127400-174149000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr4:174127600-174138200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr4:174128000-174131600	Weak transcription	Fetal Intestine Small	intestine
44	chr4:174128200-174138600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
45	chr4:174128200-174139000	Weak transcription	Primary T cells from cord blood	blood
46	chr4:174128200-174169200	Weak transcription	Duodenum Mucosa	Duodenum
47	chr4:174128400-174131400	Weak transcription	Fetal Thymus	thymus
48	chr4:174129000-174138400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
49	chr4:174129400-174131000	Enhancers	HUES6 Cell Line	embryonic stem cell
50	chr4:174129600-174132800	Weak transcription	HSMMtube	muscle

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