Variant report

Variant	rs11207298
Chromosome Location	chr1:59167316-59167317
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:59042150..59043809-chr1:59165578..59167965,2	MCF-7	breast:
2	chr1:59145973..59148023-chr1:59165325..59167431,2	K562	blood:
3	chr1:59162606..59168890-chr1:59243728..59252069,16	K562	blood:
4	chr1:59163564..59170812-chr1:59245390..59251956,13	K562	blood:

Variant related genes	Relation type
ENSG00000234807	Chromatin interaction
ENSG00000162601	Chromatin interaction
ENSG00000184292	Chromatin interaction
ENSG00000177606	Chromatin interaction

Extended variants
information (count: 65 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs10158502	0.87[CEU][hapmap];0.91[CHB][hapmap];0.85[JPT][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10159308	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10489539	0.92[CEU][hapmap];0.81[CHB][hapmap];0.84[CHD][hapmap];0.86[JPT][hapmap];0.89[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10789070	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10889110	0.81[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10889111	0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10889112	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10889113	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11207286	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11207287	0.92[CEU][hapmap];0.81[CHB][hapmap];0.85[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11207289	0.87[EUR][1000 genomes]
rs11207292	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11207293	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11803186	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12076049	0.92[CEU][hapmap];0.81[CHB][hapmap];0.84[CHD][hapmap];0.86[JPT][hapmap];0.89[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12076717	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12082097	0.92[CEU][hapmap];0.84[CHB][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12092121	0.92[CEU][hapmap];0.81[CHB][hapmap];0.84[CHD][hapmap];0.86[JPT][hapmap];0.89[MEX][hapmap];0.82[MKK][hapmap];0.91[TSI][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12097333	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12097517	0.96[CEU][hapmap];0.81[CHB][hapmap];0.85[JPT][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12139511	0.94[ASW][hapmap];0.92[CEU][hapmap];0.81[CHB][hapmap];0.82[LWK][hapmap];0.89[MEX][hapmap];0.94[MKK][hapmap];0.98[TSI][hapmap];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12741968	0.92[CEU][hapmap];0.81[CHB][hapmap];0.84[CHD][hapmap];0.86[JPT][hapmap];0.89[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12755615	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1323280	0.84[EUR][1000 genomes]
rs2029648	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2064370	0.92[CEU][hapmap];0.81[CHB][hapmap];0.86[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2064371	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2064372	0.92[CEU][hapmap];0.81[CHB][hapmap];0.86[JPT][hapmap];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2064374	0.94[ASW][hapmap];0.92[CEU][hapmap];0.81[CHB][hapmap];0.84[CHD][hapmap];0.86[JPT][hapmap];0.87[LWK][hapmap];0.94[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2206765	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2223698	0.92[CEU][hapmap];0.86[CHD][hapmap];0.85[JPT][hapmap];0.98[TSI][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs232775	0.82[ASW][hapmap];0.92[CEU][hapmap];0.81[CHB][hapmap];0.84[CHD][hapmap];0.86[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs232776	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs232781	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs232791	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs232851	0.82[ASW][hapmap];0.92[CEU][hapmap];0.81[CHB][hapmap];0.84[CHD][hapmap];0.86[JPT][hapmap];0.94[MEX][hapmap];0.98[TSI][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs232861	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs232869	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs232872	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2406931	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2746081	0.96[CEU][hapmap];0.81[CHB][hapmap];0.85[JPT][hapmap];0.80[YRI][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2746082	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2811893	0.94[ASW][hapmap];0.92[CEU][hapmap];0.81[CHB][hapmap];0.84[CHD][hapmap];0.86[JPT][hapmap];0.87[LWK][hapmap];0.94[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4506484	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4912370	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4912373	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs506078	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs527445	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs539141	0.92[CEU][hapmap];0.80[CHB][hapmap];0.86[JPT][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs554318	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs579110	0.82[ASW][hapmap];0.92[CEU][hapmap];0.81[CHB][hapmap];0.84[CHD][hapmap];0.86[JPT][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs584284	0.92[CEU][hapmap];0.81[CHB][hapmap];0.86[JPT][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6587836	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6656037	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6656370	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6656503	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6658186	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6661709	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6664782	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6668605	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6677560	0.88[ASW][hapmap];0.92[CEU][hapmap];0.80[CHB][hapmap];0.84[CHD][hapmap];0.86[JPT][hapmap];0.87[LWK][hapmap];0.94[MEX][hapmap];0.99[MKK][hapmap];0.98[TSI][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6680626	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6680750	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6686043	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6701772	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs11207298	MYSM1	cis	parietal	SCAN
rs11207298	MYSM1	cis	cerebellum	SCAN

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:59165800-59168000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr1:59165800-59168200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr1:59165800-59168200	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr1:59165800-59168200	Weak transcription	HUES64 Cell Line	embryonic stem cell
5	chr1:59165800-59168200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr1:59165800-59168600	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr1:59165800-59169200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr1:59165800-59169200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr1:59165800-59169400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr1:59165800-59169400	Weak transcription	HepG2	liver
11	chr1:59165800-59170200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr1:59165800-59170200	Weak transcription	K562	blood
13	chr1:59166000-59176200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr1:59166200-59167400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr1:59166200-59167800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr1:59166200-59168000	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr1:59166200-59168000	Weak transcription	Fetal Brain Female	brain
18	chr1:59166200-59168400	Weak transcription	Fetal Kidney	kidney
19	chr1:59166200-59176200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr1:59166400-59168200	Weak transcription	HUES6 Cell Line	embryonic stem cell
21	chr1:59166400-59169400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr1:59166400-59186200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr1:59166600-59168400	Enhancers	Fetal Brain Male	brain

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