Variant report

Variant	rs2646925
Chromosome Location	chr6:37425642-37425643
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	RCOR1	chr6:37423233-37425955	IMR90	lung:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:37416658..37419245-chr6:37423561..37426187,3	MCF-7	breast:
2	chr6:37417610..37419144-chr6:37423801..37425835,2	K562	blood:

Variant related genes	Relation type
CMTR1	TF binding region

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs16889785	1.00[EUR][1000 genomes]
rs1738451	1.00[MEX][hapmap];1.00[EUR][1000 genomes]
rs1969034	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2014974	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2646937	1.00[ASW][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap]
rs2776903	1.00[EUR][1000 genomes]
rs2776907	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs2776914	1.00[MKK][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs41462250	1.00[EUR][1000 genomes]
rs61541408	1.00[EUR][1000 genomes]
rs73730754	1.00[EUR][1000 genomes]
rs904249	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs931648	0.95[YRI][hapmap];0.86[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9968949	1.00[EUR][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	esv2752124	chr6:37416219-37680622	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer 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	22 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:37402200-37427800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr6:37403000-37434400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
3	chr6:37403200-37432000	Strong transcription	Primary neutrophils fromperipheralblood	blood
4	chr6:37403200-37432600	Strong transcription	Placenta	Placenta
5	chr6:37403200-37433200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
6	chr6:37403400-37432000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr6:37408800-37433400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr6:37409200-37426400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr6:37410400-37432400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr6:37410600-37434200	Strong transcription	Primary T cells from cord blood	blood
11	chr6:37411200-37428200	Weak transcription	Pancreatic Islets	Pancreatic Islet
12	chr6:37411200-37431400	Strong transcription	GM12878-XiMat	blood
13	chr6:37411200-37432800	Strong transcription	Primary B cells from cord blood	blood
14	chr6:37411200-37433200	Strong transcription	Fetal Intestine Small	intestine
15	chr6:37411400-37427600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr6:37411400-37432200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
17	chr6:37411400-37433600	Strong transcription	Dnd41	blood
18	chr6:37411400-37437200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr6:37411600-37427200	Strong transcription	Fetal Muscle Leg	muscle
20	chr6:37411600-37427800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr6:37411600-37431800	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr6:37411600-37431800	Strong transcription	Duodenum Mucosa	Duodenum
23	chr6:37411600-37432000	Strong transcription	Primary T cells fromperipheralblood	blood
24	chr6:37411600-37432000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
25	chr6:37411600-37432000	Strong transcription	Liver	Liver
26	chr6:37411600-37432000	Strong transcription	Fetal Muscle Trunk	muscle
27	chr6:37411600-37432200	Strong transcription	Thymus	Thymus
28	chr6:37411600-37432800	Strong transcription	Primary B cells from peripheral blood	blood
29	chr6:37411600-37433400	Strong transcription	Primary monocytes fromperipheralblood	blood
30	chr6:37411600-37433400	Strong transcription	Primary T helper cells fromperipheralblood	blood
31	chr6:37411600-37436400	Strong transcription	Monocytes-CD14+_RO01746	blood
32	chr6:37411800-37431800	Strong transcription	Left Ventricle	heart
33	chr6:37411800-37432200	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr6:37411800-37433000	Strong transcription	Adipose Nuclei	Adipose
35	chr6:37411800-37433800	Strong transcription	Primary T helper cells PMA-I stimulated	--
36	chr6:37411800-37434600	Strong transcription	Fetal Intestine Large	intestine
37	chr6:37412000-37432600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
38	chr6:37412600-37426400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr6:37414000-37431800	Strong transcription	Aorta	Aorta
40	chr6:37414400-37431400	Weak transcription	Psoas Muscle	Psoas
41	chr6:37415400-37427800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr6:37417400-37431000	Strong transcription	Hela-S3	cervix
43	chr6:37417600-37431600	Strong transcription	Primary T helper naive cells from peripheral blood	blood
44	chr6:37417600-37432400	Strong transcription	Spleen	Spleen
45	chr6:37418200-37426000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
46	chr6:37418400-37427200	Weak transcription	Fetal Heart	heart
47	chr6:37419200-37431800	Strong transcription	Pancreas	Pancrea
48	chr6:37420200-37432200	Strong transcription	Fetal Stomach	stomach
49	chr6:37420400-37428600	Weak transcription	Fetal Kidney	kidney
50	chr6:37421000-37427600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links