Variant report

Variant	rs59054553
Chromosome Location	chr7:105489256-105489257
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:105459523..105462171-chr7:105487556..105490003,2	K562	blood:

Variant related genes	Relation type
ENSG00000226624	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10272675	1.00[ASN][1000 genomes]
rs17152164	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58062916	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs58564118	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59864610	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs59914899	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61210960	1.00[ASN][1000 genomes]

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	nsv1027213	chr7:105438610-106022869	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Active 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	54 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	chr7:105465400-105506600	Weak transcription	Fetal Intestine Large	intestine
2	chr7:105472400-105489800	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr7:105473000-105494400	Weak transcription	Fetal Lung	lung
4	chr7:105473200-105490000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr7:105479400-105490000	Weak transcription	NHDF-Ad	bronchial
6	chr7:105479400-105494400	Weak transcription	Brain Angular Gyrus	brain
7	chr7:105479600-105489600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr7:105479600-105489600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr7:105479600-105489800	Weak transcription	HSMM	muscle
10	chr7:105479600-105494400	Weak transcription	Fetal Kidney	kidney
11	chr7:105479600-105506200	Weak transcription	Duodenum Mucosa	Duodenum
12	chr7:105479800-105489800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr7:105480000-105489600	Weak transcription	A549	lung
14	chr7:105480000-105490000	Weak transcription	Stomach Mucosa	stomach
15	chr7:105480000-105492800	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr7:105480000-105494400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr7:105480000-105494400	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr7:105480000-105494400	Weak transcription	Brain Substantia Nigra	brain
19	chr7:105480000-105494400	Weak transcription	Osteobl	bone
20	chr7:105480000-105494800	Weak transcription	Brain Anterior Caudate	brain
21	chr7:105480000-105515600	Weak transcription	Ovary	ovary
22	chr7:105480600-105494200	Weak transcription	Brain Germinal Matrix	brain
23	chr7:105481000-105494400	Weak transcription	Fetal Brain Female	brain
24	chr7:105482200-105506400	Weak transcription	Psoas Muscle	Psoas
25	chr7:105482400-105494200	Weak transcription	Placenta	Placenta
26	chr7:105482600-105489600	Weak transcription	Esophagus	oesophagus
27	chr7:105482600-105490000	Weak transcription	Stomach Smooth Muscle	stomach
28	chr7:105482600-105490600	Weak transcription	Colon Smooth Muscle	Colon
29	chr7:105482600-105492000	Weak transcription	NHLF	lung
30	chr7:105483000-105489800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr7:105483000-105494600	Weak transcription	Skeletal Muscle Male	skeletal muscle
32	chr7:105483000-105506400	Weak transcription	Monocytes-CD14+_RO01746	blood
33	chr7:105483400-105489600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr7:105483400-105489600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr7:105484200-105490600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
36	chr7:105484600-105489600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr7:105484600-105489600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr7:105484600-105489600	Weak transcription	Fetal Stomach	stomach
39	chr7:105484800-105490000	Weak transcription	Fetal Muscle Leg	muscle
40	chr7:105485200-105502400	Weak transcription	Hela-S3	cervix
41	chr7:105487000-105489600	Enhancers	Primary T killer memory cells from peripheral blood	blood
42	chr7:105487400-105489400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
43	chr7:105487800-105489800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
44	chr7:105487800-105490400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
45	chr7:105488000-105490200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
46	chr7:105488000-105493400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
47	chr7:105488000-105515600	Weak transcription	Aorta	Aorta
48	chr7:105488200-105489400	Enhancers	Primary T helper naive cells from peripheral blood	blood
49	chr7:105488200-105492400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr7:105488400-105489800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links