Variant report

Variant	rs5022972
Chromosome Location	chr6:133731248-133731249
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:133720015..133722814-chr6:133729662..133731375,2	K562	blood:
2	chr6:133723447..133725781-chr6:133730528..133732240,2	K562	blood:

Extended variants
information (count: 39 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11961662	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11962647	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs11963218	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs11963948	0.87[YRI][hapmap];0.95[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs11965224	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs11966493	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs11967280	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs11969822	0.89[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs17062564	0.88[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs3777817	0.89[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs3777820	0.93[ASN][1000 genomes]
rs3777832	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3777833	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs3777835	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs3777837	0.95[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs3777839	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs3777840	0.95[ASN][1000 genomes]
rs3777842	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs3777846	0.95[ASN][1000 genomes]
rs3777859	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs3822931	0.89[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs3822932	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3822933	1.00[ASN][1000 genomes]
rs58450371	0.95[ASN][1000 genomes]
rs6912802	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs6934520	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs6940775	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs6941577	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs73544941	0.95[ASN][1000 genomes]
rs73561742	0.95[ASN][1000 genomes]
rs73561754	0.95[ASN][1000 genomes]
rs73561755	0.95[ASN][1000 genomes]
rs73561756	0.95[ASN][1000 genomes]
rs73561759	0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1025700	chr6:133726264-133748758	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv604699	chr6:133726502-133747840	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1019755	chr6:133726502-133748758	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv1020698	chr6:133726502-133751161	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv525971	chr6:133726646-133753825	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:20 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:133720200-133748400	Weak transcription	Hela-S3	cervix
2	chr6:133720400-133749600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr6:133726600-133752200	Weak transcription	Right Atrium	heart
4	chr6:133728800-133732200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr6:133729200-133731400	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr6:133729400-133731800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr6:133729400-133734000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr6:133729400-133736600	Weak transcription	Skeletal Muscle Male	skeletal muscle
9	chr6:133729600-133731400	Weak transcription	HUES48 Cell Line	embryonic stem cell
10	chr6:133729600-133731600	Weak transcription	Cortex derived primary cultured neurospheres	brain
11	chr6:133729600-133731800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr6:133729600-133731800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr6:133729600-133731800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr6:133729800-133731400	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr6:133730000-133731800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr6:133730200-133733800	Weak transcription	Psoas Muscle	Psoas
17	chr6:133730400-133731800	Weak transcription	Skeletal Muscle Female	skeletal muscle
18	chr6:133730600-133731800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
19	chr6:133731200-133732600	Enhancers	A549	lung
20	chr6:133731200-133733200	Enhancers	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links