Variant report

Variant	rs4773139
Chromosome Location	chr13:110932193-110932194
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs12855875	0.93[CEU][hapmap];0.94[EUR][1000 genomes]
rs12870961	0.92[EUR][1000 genomes]
rs34097827	0.94[EUR][1000 genomes]
rs57541979	0.87[EUR][1000 genomes]
rs57931605	0.87[EUR][1000 genomes]
rs58775672	0.84[EUR][1000 genomes]
rs60185726	0.87[EUR][1000 genomes]
rs66500342	0.94[EUR][1000 genomes]
rs66553690	0.91[EUR][1000 genomes]
rs72655725	0.94[EUR][1000 genomes]
rs7984097	0.85[CEU][hapmap];0.92[CHB][hapmap];0.92[GIH][hapmap];0.82[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];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	nsv1038914	chr13:110860219-111190104	Weak transcription Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4773139	C13orf29	cis	lymphoblastoid	seeQTL

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:110915200-110936200	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
2	chr13:110915600-110935800	Weak transcription	Gastric	stomach
3	chr13:110916600-110935800	Weak transcription	Duodenum Mucosa	Duodenum
4	chr13:110917400-110939000	Weak transcription	Fetal Intestine Large	intestine
5	chr13:110918200-110935800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr13:110919600-110938600	Weak transcription	HMEC	breast
7	chr13:110919800-110937600	Weak transcription	NHEK	skin
8	chr13:110920200-110951200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr13:110920600-110934200	Weak transcription	Pancreas	Pancrea
10	chr13:110921400-110935800	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr13:110921400-110935800	Weak transcription	Esophagus	oesophagus
12	chr13:110922200-110935800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr13:110922600-110934000	Weak transcription	HSMM	muscle
14	chr13:110922600-110934200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr13:110925400-110949000	Weak transcription	Fetal Kidney	kidney
16	chr13:110925600-110936200	Weak transcription	HSMMtube	muscle
17	chr13:110925800-110932600	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr13:110925800-110934600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
19	chr13:110926200-110934200	Weak transcription	Psoas Muscle	Psoas
20	chr13:110926200-110937800	Weak transcription	HUVEC	blood vessel
21	chr13:110926600-110932600	Enhancers	Colon Smooth Muscle	Colon
22	chr13:110926600-110934800	Enhancers	Rectal Smooth Muscle	rectum
23	chr13:110927000-110934000	Enhancers	NHDF-Ad	bronchial
24	chr13:110927400-110935600	Weak transcription	Fetal Stomach	stomach
25	chr13:110927400-110939000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr13:110928000-110932200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr13:110928600-110934200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr13:110928600-110934200	Weak transcription	Skeletal Muscle Female	skeletal muscle
29	chr13:110928600-110935200	Enhancers	Adipose Nuclei	Adipose
30	chr13:110928600-110951000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr13:110928800-110932200	Weak transcription	Aorta	Aorta
32	chr13:110928800-110935800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr13:110929000-110934000	Weak transcription	Osteobl	bone
34	chr13:110929200-110932800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr13:110929200-110933400	Weak transcription	Right Atrium	heart
36	chr13:110929400-110933800	Weak transcription	Stomach Smooth Muscle	stomach
37	chr13:110929400-110934600	Enhancers	NHLF	lung
38	chr13:110929600-110934000	Weak transcription	Duodenum Smooth Muscle	Duodenum
39	chr13:110929600-110934000	Weak transcription	Fetal Heart	heart
40	chr13:110930200-110934800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
41	chr13:110930400-110933800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr13:110930400-110935800	Weak transcription	Fetal Lung	lung
43	chr13:110930600-110934200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
44	chr13:110930800-110932400	Enhancers	Right Ventricle	heart
45	chr13:110931200-110935200	Enhancers	Ovary	ovary
46	chr13:110931400-110932600	Enhancers	Skeletal Muscle Male	skeletal muscle
47	chr13:110931400-110934000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
48	chr13:110931400-110941400	Weak transcription	Fetal Intestine Small	intestine
49	chr13:110931600-110933400	Enhancers	NH-A	brain
50	chr13:110931600-110934400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links