Variant report

Variant	rs3755717
Chromosome Location	chr3:69127789-69127790
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:69117703..69119694-chr3:69127250..69129349,2	MCF-7	breast:
2	chr3:69097839..69103874-chr3:69126765..69131500,7	K562	blood:
3	chr3:69102756..69104403-chr3:69126707..69129134,2	MCF-7	breast:
4	chr3:69127777..69131218-chr3:69132524..69136559,5	K562	blood:
5	chr3:69112430..69115275-chr3:69125875..69130297,4	MCF-7	breast:
6	chr3:69060995..69064606-chr3:69126717..69130405,4	K562	blood:
7	chr3:69098594..69102750-chr3:69127329..69130993,6	K562	blood:
8	chr3:69105444..69107005-chr3:69126154..69128272,2	MCF-7	breast:
9	chr3:69101388..69105202-chr3:69127247..69129843,5	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000163378	Chromatin interaction
ENSG00000144747	Chromatin interaction
ENSG00000144744	Chromatin interaction
ENSG00000265355	Chromatin interaction
ENSG00000144746	Chromatin interaction
ENSG00000244513	Chromatin interaction

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs13063094	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13090606	0.80[EUR][1000 genomes]
rs13099820	0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2009602	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2271122	0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2292198	0.81[AFR][1000 genomes]
rs2292199	0.81[ASN][1000 genomes]
rs35718539	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3755721	0.85[AFR][1000 genomes]
rs3772979	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3821562	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3853157	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs56156415	0.92[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58950441	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6549181	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6775065	0.83[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6775256	0.84[AFR][1000 genomes]
rs6777032	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6782474	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6787569	0.84[AFR][1000 genomes]
rs6807701	0.82[EUR][1000 genomes]
rs714300	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7615341	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9813514	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9826616	0.87[EUR][1000 genomes];0.92[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	nsv876933	chr3:69059023-69227379	Enhancers Strong transcription Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv876934	chr3:69111512-69166895	Enhancers Genic enhancers Strong transcription Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	11 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	chr3:69101800-69128400	Weak transcription	Aorta	Aorta
2	chr3:69102000-69128200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr3:69102000-69128400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr3:69108400-69128200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr3:69110600-69128200	Weak transcription	Right Ventricle	heart
6	chr3:69110600-69128400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr3:69110600-69128400	Weak transcription	Gastric	stomach
8	chr3:69110600-69128400	Weak transcription	Psoas Muscle	Psoas
9	chr3:69110800-69127800	Weak transcription	Rectal Smooth Muscle	rectum
10	chr3:69110800-69128600	Weak transcription	Esophagus	oesophagus
11	chr3:69110800-69128800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr3:69110800-69128800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr3:69111000-69128600	Weak transcription	Lung	lung
14	chr3:69111000-69128800	Weak transcription	Spleen	Spleen
15	chr3:69111200-69128000	Weak transcription	K562	blood
16	chr3:69111200-69128200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr3:69111200-69128200	Weak transcription	Colonic Mucosa	Colon
18	chr3:69111400-69128400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
19	chr3:69111600-69128200	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr3:69111800-69128200	Weak transcription	A549	lung
21	chr3:69112200-69128200	Weak transcription	Fetal Kidney	kidney
22	chr3:69112600-69128200	Weak transcription	Fetal Brain Female	brain
23	chr3:69112600-69128200	Weak transcription	Placenta Amnion	Placenta Amnion
24	chr3:69113000-69128200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr3:69115000-69127800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr3:69115000-69128400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr3:69115800-69128200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr3:69120400-69128200	Weak transcription	Ovary	ovary
29	chr3:69120600-69128200	Weak transcription	HSMMtube	muscle
30	chr3:69120800-69128200	Weak transcription	NHLF	lung
31	chr3:69122400-69128200	Weak transcription	Sigmoid Colon	Sigmoid Colon
32	chr3:69122600-69128200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr3:69122600-69128200	Weak transcription	Stomach Smooth Muscle	stomach
34	chr3:69122600-69128400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
35	chr3:69122800-69128200	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr3:69123000-69128200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
37	chr3:69123000-69128400	Weak transcription	H1 Cell Line	embryonic stem cell
38	chr3:69123800-69128200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
39	chr3:69124200-69128200	Weak transcription	HUES48 Cell Line	embryonic stem cell
40	chr3:69124400-69128200	Weak transcription	HMEC	breast
41	chr3:69124600-69128000	Weak transcription	Cortex derived primary cultured neurospheres	brain
42	chr3:69124800-69128000	Weak transcription	NH-A	brain
43	chr3:69125400-69128200	Weak transcription	Fetal Intestine Large	intestine
44	chr3:69125800-69128200	Weak transcription	HUES6 Cell Line	embryonic stem cell
45	chr3:69126000-69128200	Enhancers	Primary T helper cells PMA-I stimulated	--
46	chr3:69126000-69128200	Weak transcription	Fetal Stomach	stomach
47	chr3:69126000-69128400	Weak transcription	Fetal Muscle Trunk	muscle
48	chr3:69126200-69128000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr3:69126200-69128200	Weak transcription	HUES64 Cell Line	embryonic stem cell
50	chr3:69126400-69127800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links