Variant report

Variant	rs35780567
Chromosome Location	chr17:38632204-38632205
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:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr17:38604733..38607720-chr17:38631085..38633963,2	MCF-7	breast:
2	chr17:38597338..38597866-chr17:38632089..38633034,3	K562	blood:
3	chr17:38632022..38634097-chr17:38707502..38709071,2	MCF-7	breast:
4	chr17:38629230..38633367-chr17:38687189..38689523,3	MCF-7	breast:
5	chr17:38626735..38629399-chr17:38631945..38633834,3	MCF-7	breast:
6	chr17:38629814..38633387-chr17:38676751..38679736,4	MCF-7	breast:
7	chr17:38632026..38634246-chr17:38667169..38669339,2	K562	blood:
8	chr17:38600754..38602507-chr17:38629659..38632634,3	K562	blood:
9	chr17:38598950..38601865-chr17:38628888..38632301,4	MCF-7	breast:
10	chr17:38632117..38633065-chr17:38689256..38689926,2	MCF-7	breast:
11	chr17:38631712..38634059-chr17:38635172..38638034,2	K562	blood:
12	chr17:38618819..38620675-chr17:38632063..38634752,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000141753	Chromatin interaction
ENSG00000131746	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs12938382	1.00[ASW][hapmap]
rs12941974	1.00[ASW][hapmap];0.85[YRI][hapmap]
rs34656877	1.00[AFR][1000 genomes]
rs36028353	1.00[AFR][1000 genomes]
rs36106831	0.96[AFR][1000 genomes]
rs6413494	1.00[ASW][hapmap]
rs71371426	1.00[AFR][1000 genomes]
rs71371428	1.00[AFR][1000 genomes]
rs71371429	1.00[AFR][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	nsv833445	chr17:38466474-38637969	Flanking Active TSS Enhancers Bivalent/Poised TSS Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	nsv1058185	chr17:38629339-38689908	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs35780567	ZPBP2	cis	lymphoblastoid	seeQTL

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:38627000-38633000	Enhancers	Rectal Smooth Muscle	rectum
2	chr17:38627200-38632400	Enhancers	HUES6 Cell Line	embryonic stem cell
3	chr17:38627200-38633000	Enhancers	Colon Smooth Muscle	Colon
4	chr17:38627200-38633400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr17:38627200-38633400	Enhancers	Ovary	ovary
6	chr17:38627400-38633200	Enhancers	Duodenum Smooth Muscle	Duodenum
7	chr17:38627400-38646200	Weak transcription	Gastric	stomach
8	chr17:38627600-38632800	Enhancers	Liver	Liver
9	chr17:38628600-38632800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr17:38628800-38636400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr17:38629200-38632800	Enhancers	Stomach Mucosa	stomach
12	chr17:38629800-38632400	Enhancers	Fetal Intestine Large	intestine
13	chr17:38629800-38632800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr17:38629800-38632800	Weak transcription	NHEK	skin
15	chr17:38629800-38633000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
16	chr17:38630000-38632400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr17:38630000-38632400	Enhancers	HepG2	liver
18	chr17:38630200-38632400	Enhancers	H1 Cell Line	embryonic stem cell
19	chr17:38630200-38632400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr17:38630200-38632400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
21	chr17:38630200-38635800	Weak transcription	Esophagus	oesophagus
22	chr17:38630200-38636200	Weak transcription	Duodenum Mucosa	Duodenum
23	chr17:38630600-38633000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr17:38630600-38633000	Enhancers	Fetal Muscle Leg	muscle
25	chr17:38630600-38633000	Enhancers	K562	blood
26	chr17:38630600-38633400	Enhancers	Fetal Muscle Trunk	muscle
27	chr17:38630800-38632400	Enhancers	iPS-20b Cell Line	embryonic stem cell
28	chr17:38630800-38632400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
29	chr17:38630800-38632800	Enhancers	Spleen	Spleen
30	chr17:38631000-38632400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
31	chr17:38631000-38636800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr17:38631200-38636600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
33	chr17:38631400-38632800	Enhancers	Fetal Lung	lung
34	chr17:38631600-38632800	Enhancers	Fetal Intestine Small	intestine
35	chr17:38631600-38634600	Genic enhancers	A549	lung
36	chr17:38631800-38632400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr17:38631800-38632400	Enhancers	Colonic Mucosa	Colon
38	chr17:38631800-38632400	Enhancers	Pancreas	Pancrea
39	chr17:38631800-38632400	Enhancers	Placenta Amnion	Placenta Amnion
40	chr17:38631800-38632400	Enhancers	Rectal Mucosa Donor 29	rectum
41	chr17:38631800-38632400	Genic enhancers	HMEC	breast
42	chr17:38631800-38632600	Weak transcription	Hela-S3	cervix
43	chr17:38631800-38632800	Enhancers	Adipose Nuclei	Adipose
44	chr17:38631800-38632800	Enhancers	Osteobl	bone
45	chr17:38631800-38633000	Enhancers	Fetal Heart	heart
46	chr17:38631800-38633000	Enhancers	Rectal Mucosa Donor 31	rectum
47	chr17:38631800-38633000	Enhancers	NHLF	lung
48	chr17:38631800-38633400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr17:38631800-38633600	Genic enhancers	Placenta	Placenta
50	chr17:38631800-38633600	Enhancers	Fetal Thymus	thymus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links