Variant report

Variant	rs12174823
Chromosome Location	chr6:30292083-30292084
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	MXI1	chr6:30291238-30295611	SK-N-SH	brain:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:30238145..30240956-chr6:30290362..30292756,2	MCF-7	breast:
2	chr6:30206000..30206565-chr6:30291761..30292742,2	K562	blood:

Variant related genes	Relation type
TRIM39	TF binding region
ENSG00000236475	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1579218	0.91[EUR][1000 genomes]
rs1579219	0.91[EUR][1000 genomes]
rs2187980	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2240058	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2285798	0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2394779	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2894145	0.91[EUR][1000 genomes]
rs3778626	0.90[EUR][1000 genomes]
rs5030611	0.84[EUR][1000 genomes]
rs56183729	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9295844	0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9357095	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9366755	0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9368628	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9368632	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9368633	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9380173	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9391679	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9391762	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9391806	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9391807	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9393999	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9394000	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9394002	0.91[EUR][1000 genomes]
rs9405046	0.84[ASN][1000 genomes]
rs974962	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12174823	TRIM26	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:30257600-30292800	Weak transcription	Fetal Kidney	kidney
2	chr6:30262600-30292400	Weak transcription	Pancreas	Pancrea
3	chr6:30263000-30293000	Weak transcription	Brain Substantia Nigra	brain
4	chr6:30270600-30292600	Weak transcription	Esophagus	oesophagus
5	chr6:30270800-30292200	Weak transcription	NHDF-Ad	bronchial
6	chr6:30271000-30292400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr6:30271000-30292800	Weak transcription	Rectal Smooth Muscle	rectum
8	chr6:30272200-30292200	Weak transcription	Fetal Brain Male	brain
9	chr6:30274600-30292200	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr6:30274600-30292600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr6:30275400-30293400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr6:30278200-30292400	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr6:30280400-30292800	Weak transcription	Placenta Amnion	Placenta Amnion
14	chr6:30281200-30292200	Weak transcription	Fetal Brain Female	brain
15	chr6:30281800-30292600	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr6:30282000-30292400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr6:30282200-30292200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr6:30282200-30292400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr6:30282200-30292400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr6:30282200-30292600	Weak transcription	Right Ventricle	heart
21	chr6:30282200-30292800	Weak transcription	Brain Anterior Caudate	brain
22	chr6:30282200-30292800	Weak transcription	Brain Cingulate Gyrus	brain
23	chr6:30282200-30292800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
24	chr6:30282600-30292400	Weak transcription	Psoas Muscle	Psoas
25	chr6:30284200-30292400	Weak transcription	Colonic Mucosa	Colon
26	chr6:30284400-30293000	Weak transcription	Aorta	Aorta
27	chr6:30284600-30292400	Weak transcription	Fetal Muscle Trunk	muscle
28	chr6:30284600-30292800	Weak transcription	Primary monocytes fromperipheralblood	blood
29	chr6:30284600-30292800	Weak transcription	Stomach Smooth Muscle	stomach
30	chr6:30285200-30292800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
31	chr6:30285200-30293000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
32	chr6:30285200-30293000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
33	chr6:30285400-30292800	Enhancers	Primary T helper naive cells from peripheral blood	blood
34	chr6:30286000-30292800	Weak transcription	Rectal Mucosa Donor 29	rectum
35	chr6:30286400-30292200	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr6:30286800-30292400	Weak transcription	Lung	lung
37	chr6:30287200-30292400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr6:30287200-30292400	Weak transcription	Primary hematopoietic stem cells	blood
39	chr6:30287200-30292600	Weak transcription	Fetal Muscle Leg	muscle
40	chr6:30287400-30292400	Weak transcription	Monocytes-CD14+_RO01746	blood
41	chr6:30287600-30292200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr6:30287600-30292200	Weak transcription	Sigmoid Colon	Sigmoid Colon
43	chr6:30287600-30292400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr6:30287600-30292800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
45	chr6:30288200-30292200	Weak transcription	Thymus	Thymus
46	chr6:30288200-30292800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
47	chr6:30288200-30292800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
48	chr6:30288400-30292200	Weak transcription	Fetal Stomach	stomach
49	chr6:30288400-30292200	Weak transcription	Fetal Thymus	thymus
50	chr6:30288400-30292800	Enhancers	Primary T killer memory cells from peripheral blood	blood

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