Variant report

Variant	rs1233373
Chromosome Location	chr6:29609063-29609064
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:29608179..29610477-chr6:29617988..29619609,2	K562	blood:
2	chr6:29598626..29603210-chr6:29607516..29611410,5	K562	blood:
3	chr6:29608179..29609839-chr6:29617502..29619488,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MOG-1	chr6:29606808-29609324	NONHSAT108534
2	lnc-MOG-1	chr6:29606808-29609323	ucscGeneNc_uc003nmn_2

Variant related genes	Relation type
ENSG00000204681	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs1233375	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1233378	1.00[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs12661228	0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12661266	0.94[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1318631	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17184549	0.89[EUR][1000 genomes]
rs17369215	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17435027	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17875376	0.82[EUR][1000 genomes]
rs2252711	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2256266	1.00[AFR][1000 genomes];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2857766	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2857781	1.00[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs34387568	0.92[AFR][1000 genomes];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34912326	0.94[AFR][1000 genomes];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35471702	0.94[AFR][1000 genomes];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4084764	0.80[EUR][1000 genomes]
rs4391284	0.90[EUR][1000 genomes]
rs4713230	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4713232	0.89[AFR][1000 genomes]
rs4713233	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4959123	0.94[AFR][1000 genomes];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7754067	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758039	chr6:29469101-29672665	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
2	esv2759411	chr6:29469101-29672665	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
3	nsv969292	chr6:29604881-29612154	Enhancers Weak transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:29602600-29609200	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr6:29602600-29609200	Weak transcription	HMEC	breast
3	chr6:29602800-29609200	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr6:29604200-29609200	Weak transcription	Primary B cells from peripheral blood	blood
5	chr6:29607400-29609200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr6:29607400-29609400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr6:29607600-29609200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
8	chr6:29607600-29609200	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr6:29607600-29609400	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr6:29607800-29609200	Weak transcription	HUES48 Cell Line	embryonic stem cell
11	chr6:29608200-29609400	Enhancers	Primary T helper cells PMA-I stimulated	--
12	chr6:29608400-29609400	Enhancers	Primary T helper naive cells from peripheral blood	blood
13	chr6:29608400-29609400	Enhancers	Primary T killer memory cells from peripheral blood	blood
14	chr6:29608400-29609600	Enhancers	Primary T cells from cord blood	blood
15	chr6:29608400-29610600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
16	chr6:29608400-29610800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
17	chr6:29608400-29611000	Enhancers	Primary T helper cells fromperipheralblood	blood
18	chr6:29608400-29611600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
19	chr6:29608400-29616400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
20	chr6:29608600-29609600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr6:29608600-29610000	Enhancers	iPS-15b Cell Line	embryonic stem cell
22	chr6:29608600-29610200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
23	chr6:29608600-29610400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
24	chr6:29608800-29609600	Enhancers	Rectal Mucosa Donor 31	rectum
25	chr6:29608800-29609600	Enhancers	K562	blood
26	chr6:29608800-29610400	Enhancers	Primary T cells fromperipheralblood	blood
27	chr6:29608800-29611200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--

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