Variant report

Variant	rs41356950
Chromosome Location	chr1:67444963-67444964
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:67436820..67439164-chr1:67443904..67446434,2	K562	blood:
2	chr1:67437520..67443940-chr1:67444772..67452250,9	K562	blood:

Extended variants
information (count: 51 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10489633	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1074265	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11208977	0.87[ASN][1000 genomes]
rs11208980	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11208986	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11208987	0.87[ASN][1000 genomes]
rs11208988	0.87[ASN][1000 genomes]
rs11208989	0.87[ASN][1000 genomes]
rs11208990	0.87[ASN][1000 genomes]
rs11208993	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12059957	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12060891	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12061148	0.87[ASN][1000 genomes]
rs12062086	0.85[AFR][1000 genomes];0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12069383	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12070382	0.95[ASN][1000 genomes]
rs12073258	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs12074407	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12078209	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12079643	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12081097	0.95[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12082330	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs12082503	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12090955	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12091194	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs17097312	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17129589	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs17129592	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs17129595	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs17129627	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2985809	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3924795	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3924796	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];0.80[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4553158	1.00[CHB][hapmap]
rs57476475	0.87[ASN][1000 genomes]
rs58083543	0.87[ASN][1000 genomes]
rs58465390	0.87[ASN][1000 genomes]
rs58717164	0.93[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6588226	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6588231	0.87[ASN][1000 genomes]
rs6588232	0.87[ASN][1000 genomes]
rs6588234	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6681625	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6689240	0.90[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6698599	0.87[ASN][1000 genomes]
rs7517647	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7524757	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7537490	1.00[ASW][hapmap];0.82[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7538922	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7547791	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7551021	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs41356950	SLC35D1	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:67396800-67458200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr1:67396800-67459000	Weak transcription	Esophagus	oesophagus
3	chr1:67397600-67457600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr1:67400600-67466600	Weak transcription	Aorta	Aorta
5	chr1:67405600-67445400	Strong transcription	Fetal Thymus	thymus
6	chr1:67406400-67455600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
7	chr1:67407000-67445400	Strong transcription	Dnd41	blood
8	chr1:67408200-67448000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr1:67408200-67450200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr1:67409400-67446400	Weak transcription	Brain Angular Gyrus	brain
11	chr1:67409400-67447600	Weak transcription	Placenta Amnion	Placenta Amnion
12	chr1:67410600-67446400	Strong transcription	Rectal Mucosa Donor 31	rectum
13	chr1:67410600-67453200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
14	chr1:67411000-67455000	Strong transcription	HUES64 Cell Line	embryonic stem cell
15	chr1:67411200-67454800	Strong transcription	HUES6 Cell Line	embryonic stem cell
16	chr1:67411200-67456200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
17	chr1:67413400-67447000	Strong transcription	Primary monocytes fromperipheralblood	blood
18	chr1:67413400-67456400	Strong transcription	Monocytes-CD14+_RO01746	blood
19	chr1:67413600-67446400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr1:67414600-67462000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
21	chr1:67416600-67446400	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr1:67417000-67462000	Weak transcription	Right Ventricle	heart
23	chr1:67417400-67446200	Strong transcription	HSMM	muscle
24	chr1:67418000-67446400	Strong transcription	Osteobl	bone
25	chr1:67418200-67447000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr1:67420600-67467000	Weak transcription	Gastric	stomach
27	chr1:67420800-67446200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr1:67420800-67446600	Weak transcription	Stomach Mucosa	stomach
29	chr1:67426800-67446000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr1:67427200-67455200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
31	chr1:67427400-67446000	Strong transcription	Primary T helper cells PMA-I stimulated	--
32	chr1:67427400-67446400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
33	chr1:67427600-67446000	Strong transcription	Primary T helper cells fromperipheralblood	blood
34	chr1:67428200-67445000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
35	chr1:67430600-67446000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr1:67430600-67459000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr1:67431800-67446400	Strong transcription	Primary T cells fromperipheralblood	blood
38	chr1:67431800-67446400	Weak transcription	Small Intestine	intestine
39	chr1:67431800-67448200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr1:67432000-67454000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr1:67432000-67465600	Weak transcription	Pancreas	Pancrea
42	chr1:67432000-67468600	Weak transcription	Lung	lung
43	chr1:67433200-67447600	Weak transcription	Fetal Brain Male	brain
44	chr1:67433200-67456600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr1:67433600-67446600	Strong transcription	Rectal Mucosa Donor 29	rectum
46	chr1:67434000-67455400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
47	chr1:67434200-67445200	Strong transcription	Duodenum Mucosa	Duodenum
48	chr1:67434600-67445200	Strong transcription	Liver	Liver
49	chr1:67435200-67445800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
50	chr1:67435600-67446000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

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