Variant report

Variant	rs2881773
Chromosome Location	chr5:94885383-94885384
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:94869385..94872836-chr5:94884055..94887302,3	K562	blood:

Variant related genes	Relation type
ENSG00000198677	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10063417	0.93[LWK][hapmap];0.96[YRI][hapmap];0.81[AFR][1000 genomes]
rs10070711	0.84[AFR][1000 genomes]
rs10476652	0.89[YRI][hapmap]
rs10476653	0.86[AFR][1000 genomes]
rs10476654	0.86[AFR][1000 genomes]
rs10491246	0.85[YRI][hapmap]
rs11135429	0.91[LWK][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes]
rs11953160	0.91[AFR][1000 genomes]
rs12055264	1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs12189111	0.84[AFR][1000 genomes]
rs6556874	0.82[YRI][hapmap]
rs6556876	1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs6881618	0.93[LWK][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs6891486	0.89[LWK][hapmap];0.89[YRI][hapmap];0.81[AFR][1000 genomes]
rs73777201	0.85[AFR][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	nsv882388	chr5:94764006-94925849	Weak transcription Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs2881773	TTC37	cis	parietal	SCAN
rs2881773	RHOBTB3	cis	parietal	SCAN
rs2881773	MCTP1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:94811000-94889400	Weak transcription	Stomach Mucosa	stomach
2	chr5:94825000-94886200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
3	chr5:94825400-94886400	Strong transcription	Monocytes-CD14+_RO01746	blood
4	chr5:94826000-94886400	Strong transcription	Primary T helper cells fromperipheralblood	blood
5	chr5:94826800-94886400	Strong transcription	Primary monocytes fromperipheralblood	blood
6	chr5:94827200-94889600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr5:94828800-94885800	Strong transcription	Fetal Thymus	thymus
8	chr5:94841800-94886000	Strong transcription	Primary T cells fromperipheralblood	blood
9	chr5:94842200-94886000	Strong transcription	Primary B cells from peripheral blood	blood
10	chr5:94847400-94890000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr5:94849200-94890000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
12	chr5:94853800-94890000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr5:94864400-94889400	Weak transcription	Rectal Smooth Muscle	rectum
14	chr5:94865200-94889400	Weak transcription	Esophagus	oesophagus
15	chr5:94865200-94890000	Weak transcription	Aorta	Aorta
16	chr5:94867400-94886000	Strong transcription	Adipose Nuclei	Adipose
17	chr5:94868800-94886000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr5:94869400-94889000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr5:94870000-94886200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
20	chr5:94870200-94885800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
21	chr5:94870200-94889000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr5:94870400-94886000	Strong transcription	HUES64 Cell Line	embryonic stem cell
23	chr5:94870400-94886000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr5:94871400-94886000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
25	chr5:94871400-94886400	Strong transcription	HUES48 Cell Line	embryonic stem cell
26	chr5:94874400-94885800	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr5:94874400-94886000	Strong transcription	HUES6 Cell Line	embryonic stem cell
28	chr5:94874600-94885600	Strong transcription	Placenta	Placenta
29	chr5:94875600-94886000	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
30	chr5:94876200-94888800	Strong transcription	NHLF	lung
31	chr5:94877600-94889600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr5:94878400-94889400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
33	chr5:94879600-94886400	Strong transcription	HSMM	muscle
34	chr5:94879600-94886600	Strong transcription	Osteobl	bone
35	chr5:94879600-94889600	Weak transcription	Fetal Intestine Small	intestine
36	chr5:94879800-94886000	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr5:94879800-94886800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr5:94880000-94885400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr5:94880000-94885400	Strong transcription	Duodenum Mucosa	Duodenum
40	chr5:94880000-94886000	Strong transcription	Liver	Liver
41	chr5:94880000-94886000	Strong transcription	NHDF-Ad	bronchial
42	chr5:94880000-94886200	Strong transcription	Muscle Satellite Cultured Cells	--
43	chr5:94880000-94887600	Weak transcription	Small Intestine	intestine
44	chr5:94880200-94885400	Strong transcription	Colon Smooth Muscle	Colon
45	chr5:94880200-94885800	Strong transcription	HMEC	breast
46	chr5:94880200-94886000	Strong transcription	Duodenum Smooth Muscle	Duodenum
47	chr5:94880400-94886000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr5:94880600-94885400	Strong transcription	Rectal Mucosa Donor 31	rectum
49	chr5:94880600-94886200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr5:94880800-94886000	Strong transcription	Primary T helper cells PMA-I stimulated	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links