Variant report

Variant	rs778419
Chromosome Location	chr1:56647459-56647460
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 38 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs1149646	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1149648	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1149651	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1230036	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1234587	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12564025	0.84[AMR][1000 genomes]
rs1417770	0.83[AMR][1000 genomes]
rs2246574	0.82[EUR][1000 genomes]
rs2487318	0.81[EUR][1000 genomes]
rs2792773	0.84[EUR][1000 genomes]
rs4927308	0.84[EUR][1000 genomes]
rs706356	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs706358	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs706389	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs706392	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs706396	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs778388	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs778390	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs778391	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs778392	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs778393	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs778394	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs778396	0.83[AMR][1000 genomes]
rs778399	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs778400	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs778401	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs778402	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs778403	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs778404	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs778405	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs778409	0.87[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs778411	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs778415	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs778421	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs778423	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs778427	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs801273	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs813574	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.82[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs778419	CDCP2	cis	parietal	SCAN
rs778419	C8B	cis	parietal	SCAN
rs778419	DMRTB1	cis	cerebellum	SCAN

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:56640200-56651200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr1:56645000-56647800	Enhancers	HUES48 Cell Line	embryonic stem cell
3	chr1:56645600-56647800	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr1:56645600-56654000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr1:56645800-56651200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr1:56645800-56651400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr1:56646000-56651200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr1:56646200-56647600	Enhancers	Fetal Lung	lung
9	chr1:56646200-56647800	Enhancers	HUES6 Cell Line	embryonic stem cell
10	chr1:56646400-56647800	Enhancers	HUES64 Cell Line	embryonic stem cell
11	chr1:56646800-56647800	Enhancers	iPS-20b Cell Line	embryonic stem cell
12	chr1:56646800-56653800	Weak transcription	Fetal Muscle Leg	muscle
13	chr1:56647000-56647600	Enhancers	iPS-18 Cell Line	embryonic stem cell
14	chr1:56647000-56647600	Enhancers	Liver	Liver
15	chr1:56647000-56647600	Enhancers	Rectal Smooth Muscle	rectum
16	chr1:56647000-56647600	Enhancers	HepG2	liver
17	chr1:56647000-56647600	Enhancers	NHDF-Ad	bronchial
18	chr1:56647000-56647800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
19	chr1:56647000-56655800	Weak transcription	Aorta	Aorta
20	chr1:56647200-56647600	Enhancers	H1 Cell Line	embryonic stem cell
21	chr1:56647200-56647600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
22	chr1:56647200-56647800	Enhancers	ES-I3 Cell Line	embryonic stem cell
23	chr1:56647200-56647800	Enhancers	H9 Cell Line	embryonic stem cell
24	chr1:56647200-56651200	Weak transcription	Fetal Stomach	stomach
25	chr1:56647200-56655000	Weak transcription	Fetal Kidney	kidney
26	chr1:56647400-56647600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr1:56647400-56647600	Weak transcription	Adipose Nuclei	Adipose

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links