Variant report

Variant	rs171605
Chromosome Location	chr5:40741123-40741124
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:40739022..40741239-chr5:40755356..40757142,2	K562	blood:

Variant related genes	Relation type
ENSG00000113638	Chromatin interaction

Extended variants
information (count: 68 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10056345	0.85[ASN][1000 genomes]
rs10060234	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.85[ASN][1000 genomes]
rs10064175	0.81[ASN][1000 genomes]
rs1057631	0.80[CEU][hapmap]
rs1070446	0.90[CHB][hapmap];0.90[JPT][hapmap];0.85[YRI][hapmap]
rs10737963	0.82[CEU][hapmap]
rs1097546	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13355305	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs154268	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs154275	0.87[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs154280	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs154281	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs154284	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs171606	0.92[ASN][1000 genomes]
rs192219	0.90[CHB][hapmap];0.90[JPT][hapmap];0.81[YRI][hapmap]
rs193864	0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs193866	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs2008763	0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2161521	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs249413	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs249414	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs249416	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs249420	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs249422	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs249423	0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs249425	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs249428	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs249429	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs249437	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs249441	0.80[ASN][1000 genomes]
rs257009	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28569300	0.85[ASN][1000 genomes]
rs29740	0.87[AFR][1000 genomes];0.89[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29742	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29743	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29744	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs29761	0.90[CHB][hapmap];0.90[JPT][hapmap];0.85[YRI][hapmap]
rs4133101	0.88[CEU][hapmap]
rs4277957	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4285273	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4315964	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4315965	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs432071	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4345353	0.83[CEU][hapmap]
rs434778	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4383756	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs4434423	0.81[CEU][hapmap];0.86[YRI][hapmap]
rs447810	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs453037	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4546432	0.87[CEU][hapmap];0.89[YRI][hapmap]
rs4573034	0.82[EUR][1000 genomes]
rs457776	0.90[CHB][hapmap];0.90[JPT][hapmap]
rs4607392	0.85[CEU][hapmap]
rs461404	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs466108	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs466962	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4957344	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs59069340	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs59920139	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6451535	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.83[ASN][1000 genomes]
rs6451537	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6871999	0.85[ASN][1000 genomes]
rs6896993	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7708680	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7711806	0.85[CEU][hapmap];0.90[CHB][hapmap];0.89[JPT][hapmap];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7726237	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs7737044	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs837101	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs171605	TTC33	Cis_1M	lymphoblastoid	RTeQTL
rs171605	RPL37	Cis_1M	lymphoblastoid	RTeQTL
rs171605	Hs.506072	cis	multi-tissue	Pritchard
rs171605		cis	Lymphoblastoid	GTEx

Chromatin state (count:113 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:40692400-40741200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
2	chr5:40709600-40745000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr5:40712800-40741200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
4	chr5:40721400-40741400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr5:40722800-40741400	Weak transcription	Aorta	Aorta
6	chr5:40722800-40755200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr5:40723000-40741600	Weak transcription	Lung	lung
8	chr5:40728200-40745600	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr5:40728600-40741200	Weak transcription	Fetal Stomach	stomach
10	chr5:40728800-40741200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr5:40729000-40741400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr5:40729200-40741400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr5:40734200-40741600	Weak transcription	Psoas Muscle	Psoas
14	chr5:40734400-40741400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr5:40735000-40741400	Weak transcription	Rectal Smooth Muscle	rectum
16	chr5:40735400-40741400	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr5:40736000-40741600	Weak transcription	HepG2	liver
18	chr5:40736000-40747200	Weak transcription	HMEC	breast
19	chr5:40736000-40755200	Weak transcription	Pancreas	Pancrea
20	chr5:40736200-40754200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr5:40736400-40741200	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr5:40736400-40746400	Weak transcription	Muscle Satellite Cultured Cells	--
23	chr5:40736400-40747000	Weak transcription	Small Intestine	intestine
24	chr5:40736400-40753800	Weak transcription	Fetal Heart	heart
25	chr5:40736400-40754200	Weak transcription	Gastric	stomach
26	chr5:40736400-40754200	Weak transcription	NHLF	lung
27	chr5:40736600-40741200	Weak transcription	Rectal Mucosa Donor 31	rectum
28	chr5:40736600-40741200	Weak transcription	NHDF-Ad	bronchial
29	chr5:40736600-40754200	Weak transcription	Osteobl	bone
30	chr5:40738000-40754200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
31	chr5:40738400-40741200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr5:40738800-40741800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr5:40738800-40741800	Strong transcription	Brain Hippocampus Middle	brain
34	chr5:40738800-40742000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
35	chr5:40739000-40741600	ZNF genes & repeats	Fetal Lung	lung
36	chr5:40739000-40742000	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr5:40739000-40742000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
38	chr5:40739000-40742800	Strong transcription	Monocytes-CD14+_RO01746	blood
39	chr5:40739200-40741800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr5:40739200-40742000	ZNF genes & repeats	Primary T cells from cord blood	blood
41	chr5:40739200-40742000	ZNF genes & repeats	Fetal Brain Female	brain
42	chr5:40739400-40741800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
43	chr5:40739400-40741800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
44	chr5:40739400-40741800	ZNF genes & repeats	Fetal Intestine Large	intestine
45	chr5:40739400-40741800	Strong transcription	Placenta Amnion	Placenta Amnion
46	chr5:40739400-40742000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr5:40739400-40742000	Strong transcription	Duodenum Mucosa	Duodenum
48	chr5:40739400-40742000	Strong transcription	Left Ventricle	heart
49	chr5:40739400-40742000	Strong transcription	Thymus	Thymus
50	chr5:40739400-40742000	ZNF genes & repeats	GM12878-XiMat	blood

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