Variant report

Variant	rs1947179
Chromosome Location	chr2:33821517-33821518
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	chr2:33811527..33813581-chr2:33821139..33823062,2	MCF-7	breast:
2	chr2:33813884..33820375-chr2:33821086..33825904,10	K562	blood:

Variant related genes	Relation type
ENSG00000119812	Chromatin interaction

Extended variants
information (count: 34 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10180232	0.91[ASN][1000 genomes]
rs10185437	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10188211	0.91[ASN][1000 genomes]
rs10514775	0.86[CHB][hapmap];0.82[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs12328041	0.80[ASN][1000 genomes]
rs12471027	0.91[ASN][1000 genomes]
rs13001536	0.91[ASN][1000 genomes]
rs13030968	0.84[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.90[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs13397381	0.80[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs2004037	1.00[ASN][1000 genomes]
rs28670807	0.80[ASN][1000 genomes]
rs3213961	0.84[CEU][hapmap];0.88[ASN][1000 genomes]
rs35909307	0.97[ASN][1000 genomes]
rs4627543	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59479233	1.00[ASN][1000 genomes]
rs60739635	0.91[ASN][1000 genomes]
rs62147461	0.94[ASN][1000 genomes]
rs62147464	0.94[ASN][1000 genomes]
rs62147465	0.94[ASN][1000 genomes]
rs62149034	0.97[ASN][1000 genomes]
rs62150475	1.00[ASN][1000 genomes]
rs62150505	1.00[ASN][1000 genomes]
rs62150506	1.00[ASN][1000 genomes]
rs62150508	1.00[ASN][1000 genomes]
rs6708	1.00[JPT][hapmap]
rs6713874	0.80[ASN][1000 genomes]
rs6742257	0.84[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs6746691	0.83[ASW][hapmap];1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];0.97[TSI][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6757910	0.86[ASN][1000 genomes]
rs72785990	0.97[ASN][1000 genomes]
rs7561151	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7586013	0.89[ASN][1000 genomes]
rs7588728	0.97[ASN][1000 genomes]
rs7593383	0.94[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1947179	FAM98A	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:33802200-33823600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr2:33803800-33822200	Weak transcription	Right Atrium	heart
3	chr2:33807800-33822800	Weak transcription	Stomach Mucosa	stomach
4	chr2:33808400-33822600	Weak transcription	Fetal Heart	heart
5	chr2:33809200-33823400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
6	chr2:33810800-33822200	Weak transcription	Gastric	stomach
7	chr2:33810800-33822200	Weak transcription	Right Ventricle	heart
8	chr2:33811000-33822200	Weak transcription	Small Intestine	intestine
9	chr2:33812000-33823400	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr2:33812800-33822800	Weak transcription	Thymus	Thymus
11	chr2:33818200-33822200	Weak transcription	K562	blood
12	chr2:33818200-33822600	Weak transcription	Aorta	Aorta
13	chr2:33818400-33821800	Weak transcription	Pancreas	Pancrea
14	chr2:33818400-33822600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
15	chr2:33818400-33823200	Weak transcription	H9 Cell Line	embryonic stem cell
16	chr2:33818400-33823400	Weak transcription	Esophagus	oesophagus
17	chr2:33818600-33821800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr2:33818600-33822200	Weak transcription	Fetal Intestine Small	intestine
19	chr2:33818800-33822800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
20	chr2:33819000-33822200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr2:33819000-33822600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr2:33819000-33822600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
23	chr2:33819000-33823600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr2:33819200-33822200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
25	chr2:33819200-33822800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr2:33819400-33822200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
27	chr2:33819400-33822200	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr2:33819400-33822200	Weak transcription	Colon Smooth Muscle	Colon
29	chr2:33819400-33822200	Weak transcription	Psoas Muscle	Psoas
30	chr2:33819400-33822600	Weak transcription	Fetal Brain Female	brain
31	chr2:33819400-33822600	Weak transcription	HSMMtube	muscle
32	chr2:33819400-33823200	Weak transcription	Primary neutrophils fromperipheralblood	blood
33	chr2:33819600-33821600	Weak transcription	Spleen	Spleen
34	chr2:33819600-33822200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr2:33819600-33822600	Weak transcription	Brain Anterior Caudate	brain
36	chr2:33819600-33822800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr2:33819600-33822800	Weak transcription	Fetal Stomach	stomach
38	chr2:33819600-33823400	Weak transcription	Fetal Brain Male	brain
39	chr2:33820000-33822000	Weak transcription	NHLF	lung
40	chr2:33820000-33822200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
41	chr2:33820000-33822200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
42	chr2:33820000-33822200	Weak transcription	Fetal Muscle Leg	muscle
43	chr2:33820000-33822600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
44	chr2:33820000-33822800	Weak transcription	Rectal Smooth Muscle	rectum
45	chr2:33820000-33823400	Weak transcription	Lung	lung
46	chr2:33820200-33821600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
47	chr2:33820200-33821600	Weak transcription	Skeletal Muscle Male	skeletal muscle
48	chr2:33820200-33822200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
49	chr2:33820200-33822200	Weak transcription	Primary T cells from cord blood	blood
50	chr2:33820200-33822200	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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