Variant report

Variant	rs41302825
Chromosome Location	chr1:114504860-114504861
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:114495394..114499231-chr1:114501303..114504928,5	MCF-7	breast:

Variant related genes	Relation type
ENSG00000163349	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10108	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10494162	0.91[ASN][1000 genomes]
rs10494163	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11102703	0.80[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs11102706	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11102707	0.89[ASN][1000 genomes]
rs11102708	0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11102709	0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12060750	0.84[ASN][1000 genomes]
rs12125546	0.83[ASN][1000 genomes]
rs12127377	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12129050	0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1217444	0.86[ASN][1000 genomes]
rs1503832	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1553449	0.91[ASN][1000 genomes]
rs1553450	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17852555	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1910485	0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1985435	0.92[ASN][1000 genomes]
rs1985436	0.91[ASN][1000 genomes]
rs6537800	0.87[ASN][1000 genomes]
rs6669370	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6674384	0.82[ASN][1000 genomes]
rs7364	0.85[ASN][1000 genomes]
rs7519860	0.99[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7545300	0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7546851	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs756493	0.85[ASN][1000 genomes]
rs878129	0.86[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	esv2752424	chr1:114189958-114712958	Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	96 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs41302825	DCLRE1B	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:114479000-114517600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr1:114484000-114510400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr1:114484000-114510400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr1:114484000-114511200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr1:114484200-114505600	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr1:114484400-114510400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr1:114485000-114510400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr1:114489600-114505800	Weak transcription	Gastric	stomach
9	chr1:114489800-114510400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr1:114490000-114505600	Weak transcription	Aorta	Aorta
11	chr1:114490200-114507200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
12	chr1:114490200-114510800	Weak transcription	A549	lung
13	chr1:114490400-114505000	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr1:114490600-114512000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
15	chr1:114492800-114518600	Strong transcription	Dnd41	blood
16	chr1:114493400-114517600	Strong transcription	Fetal Thymus	thymus
17	chr1:114495400-114506600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr1:114495400-114507200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr1:114495400-114517400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr1:114495600-114508600	Weak transcription	Pancreatic Islets	Pancreatic Islet
21	chr1:114495800-114516800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr1:114495800-114518200	Strong transcription	Primary B cells from peripheral blood	blood
23	chr1:114496000-114517000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
24	chr1:114496400-114516000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr1:114496400-114516400	Strong transcription	Rectal Mucosa Donor 29	rectum
26	chr1:114496400-114517000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr1:114496400-114517200	Strong transcription	Primary monocytes fromperipheralblood	blood
28	chr1:114496400-114517400	Strong transcription	Primary neutrophils fromperipheralblood	blood
29	chr1:114496400-114517600	Strong transcription	Duodenum Mucosa	Duodenum
30	chr1:114496400-114518200	Strong transcription	K562	blood
31	chr1:114496400-114519400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
32	chr1:114496600-114506200	Strong transcription	HUES48 Cell Line	embryonic stem cell
33	chr1:114496600-114518800	Strong transcription	Primary B cells from cord blood	blood
34	chr1:114496800-114508800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr1:114497000-114516400	Strong transcription	Fetal Intestine Large	intestine
36	chr1:114497000-114517000	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
37	chr1:114497200-114506600	Strong transcription	HUES64 Cell Line	embryonic stem cell
38	chr1:114497200-114516400	Strong transcription	Primary hematopoietic stem cells	blood
39	chr1:114497200-114516400	Strong transcription	GM12878-XiMat	blood
40	chr1:114497600-114517600	Strong transcription	HUES6 Cell Line	embryonic stem cell
41	chr1:114497800-114517400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
42	chr1:114498000-114507800	Strong transcription	Skeletal Muscle Female	skeletal muscle
43	chr1:114498000-114517400	Strong transcription	Primary T helper cells fromperipheralblood	blood
44	chr1:114498800-114518200	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
45	chr1:114499600-114511200	Weak transcription	Stomach Mucosa	stomach
46	chr1:114500000-114505000	Weak transcription	Placenta Amnion	Placenta Amnion
47	chr1:114500000-114505000	Weak transcription	Rectal Smooth Muscle	rectum
48	chr1:114500000-114517600	Strong transcription	Primary T helper cells PMA-I stimulated	--
49	chr1:114500200-114508400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr1:114500400-114505000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

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