Variant report

Variant	rs7033633
Chromosome Location	chr9:97838781-97838782
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:97830414..97832862-chr9:97837020..97839088,2	K562	blood:
2	chr9:97810039..97812419-chr9:97838552..97841239,2	MCF-7	breast:
3	chr9:97836263..97838826-chr9:97847053..97849837,2	MCF-7	breast:
4	chr9:97821527..97823304-chr9:97837475..97839849,2	MCF-7	breast:
5	chr9:97831645..97834250-chr9:97838730..97841950,3	MCF-7	breast:
6	chr9:97807151..97809032-chr9:97838332..97840072,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000148120	Chromatin interaction
ENSG00000207563	Chromatin interaction
ENSG00000207864	Chromatin interaction
ENSG00000207617	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs1045276	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10491560	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10761375	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs10761376	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10821415	0.84[YRI][hapmap]
rs10821446	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10821447	0.83[TSI][hapmap]
rs10821450	0.84[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs171417	1.00[CEU][hapmap];0.94[CHB][hapmap];0.81[CHD][hapmap];0.92[GIH][hapmap];0.90[JPT][hapmap];0.83[MEX][hapmap];0.83[MKK][hapmap];0.81[TSI][hapmap]
rs2282216	0.85[JPT][hapmap]
rs356666	1.00[CEU][hapmap];0.88[CHB][hapmap];0.81[CHD][hapmap];0.87[GIH][hapmap];0.90[JPT][hapmap];0.81[MKK][hapmap]
rs356673	1.00[CEU][hapmap];0.94[CHB][hapmap];0.81[CHD][hapmap];0.92[GIH][hapmap];0.90[JPT][hapmap];0.83[MEX][hapmap];0.83[MKK][hapmap];0.81[TSI][hapmap]
rs356675	1.00[CEU][hapmap];0.94[CHB][hapmap];0.90[JPT][hapmap]
rs356677	1.00[CEU][hapmap];0.87[CHB][hapmap];0.81[CHD][hapmap];0.92[GIH][hapmap];0.90[JPT][hapmap];0.83[MEX][hapmap];0.81[TSI][hapmap]
rs356678	1.00[CEU][hapmap];0.94[CHB][hapmap];0.81[CHD][hapmap];0.92[GIH][hapmap];0.90[JPT][hapmap];0.83[MEX][hapmap];0.81[TSI][hapmap]
rs356680	1.00[CEU][hapmap];0.94[CHB][hapmap];0.81[CHD][hapmap];0.89[GIH][hapmap];0.90[JPT][hapmap];0.83[MEX][hapmap];0.81[TSI][hapmap]
rs356682	1.00[CEU][hapmap]
rs356684	1.00[CEU][hapmap];0.94[CHB][hapmap];0.90[JPT][hapmap]
rs356689	1.00[CEU][hapmap];0.94[CHB][hapmap];0.81[CHD][hapmap];0.92[GIH][hapmap];0.90[JPT][hapmap];0.83[MEX][hapmap];0.81[MKK][hapmap];0.81[TSI][hapmap]
rs3780567	0.81[JPT][hapmap]
rs3824486	0.85[JPT][hapmap]
rs416792	1.00[CEU][hapmap];0.94[CHB][hapmap];0.90[JPT][hapmap]
rs4647534	0.81[JPT][hapmap]
rs4657	0.83[TSI][hapmap]
rs4744411	0.85[YRI][hapmap]
rs4744451	0.81[JPT][hapmap]
rs526189	0.81[ASN][1000 genomes]
rs540412	0.81[ASW][hapmap];1.00[CEU][hapmap];0.94[CHB][hapmap];0.86[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.83[MKK][hapmap];0.88[TSI][hapmap];0.84[YRI][hapmap];0.83[ASN][1000 genomes]
rs565293	1.00[CEU][hapmap];0.94[CHB][hapmap];0.81[CHD][hapmap];0.92[GIH][hapmap];0.90[JPT][hapmap];0.83[MEX][hapmap];0.88[TSI][hapmap]
rs657637	1.00[CEU][hapmap];0.92[GIH][hapmap];0.83[MEX][hapmap];0.88[TSI][hapmap]
rs7023722	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7034586	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7863582	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7865753	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs944934	0.81[ASW][hapmap];1.00[CEU][hapmap];0.94[CHB][hapmap];0.86[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.83[MEX][hapmap];0.83[MKK][hapmap];0.88[TSI][hapmap];0.84[YRI][hapmap];0.80[EUR][1000 genomes];0.85[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	nsv933919	chr9:97619512-97919344	Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases
2	nsv1038106	chr9:97793038-97881416	Weak transcription Strong transcription Bivalent/Poised TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases
3	nsv1038523	chr9:97797032-97923774	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases
4	nsv540175	chr9:97797032-97923774	Weak transcription Flanking Bivalent TSS/Enh Enhancers Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases
5	nsv831656	chr9:97831551-97989980	Weak transcription Strong transcription Active TSS Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	274 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs7033633	TDRD7	cis	cerebellum	SCAN
rs7033633	PHF2	cis	cerebellum	SCAN
rs7033633	FAM120A	cis	cerebellum	SCAN
rs7033633	NINJ1	cis	cerebellum	SCAN

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:97813000-97873000	Weak transcription	K562	blood
2	chr9:97820000-97854200	Weak transcription	Fetal Brain Male	brain
3	chr9:97820400-97840800	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr9:97820400-97843000	Weak transcription	Primary T cells from cord blood	blood
5	chr9:97820600-97875000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr9:97821200-97839000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr9:97821200-97839600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr9:97821400-97843200	Weak transcription	Fetal Brain Female	brain
9	chr9:97822800-97845400	Weak transcription	Primary B cells from cord blood	blood
10	chr9:97823600-97845000	Weak transcription	Primary T helper cells PMA-I stimulated	--
11	chr9:97824800-97844600	Weak transcription	Fetal Thymus	thymus
12	chr9:97825200-97841000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr9:97825400-97854400	Weak transcription	Primary T cells fromperipheralblood	blood
14	chr9:97825800-97839200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr9:97825800-97843400	Weak transcription	Thymus	Thymus
16	chr9:97825800-97852600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr9:97826000-97842800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr9:97826200-97843200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
19	chr9:97826200-97847400	Weak transcription	HUVEC	blood vessel
20	chr9:97826400-97842800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr9:97826400-97844200	Weak transcription	GM12878-XiMat	blood
22	chr9:97827000-97839600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
23	chr9:97827800-97841400	Genic enhancers	Liver	Liver
24	chr9:97828200-97838800	Strong transcription	Fetal Intestine Large	intestine
25	chr9:97830600-97843200	Weak transcription	Primary hematopoietic stem cells	blood
26	chr9:97830600-97844800	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr9:97830800-97840800	Strong transcription	NHEK	skin
28	chr9:97831000-97839000	Genic enhancers	Left Ventricle	heart
29	chr9:97831200-97841200	Genic enhancers	Pancreas	Pancrea
30	chr9:97832200-97840800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
31	chr9:97832200-97841000	Enhancers	Fetal Heart	heart
32	chr9:97833200-97839000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
33	chr9:97833200-97839800	Genic enhancers	Skeletal Muscle Male	skeletal muscle
34	chr9:97833200-97840600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
35	chr9:97833400-97839200	Genic enhancers	A549	lung
36	chr9:97833800-97838800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr9:97834400-97838800	Strong transcription	Fetal Stomach	stomach
38	chr9:97834600-97839200	Weak transcription	NHDF-Ad	bronchial
39	chr9:97835400-97839200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr9:97835400-97845200	Weak transcription	HMEC	breast
41	chr9:97835800-97839200	Weak transcription	Adipose Nuclei	Adipose
42	chr9:97836000-97839200	Genic enhancers	HSMM	muscle
43	chr9:97836200-97838800	Genic enhancers	Brain Angular Gyrus	brain
44	chr9:97836200-97840200	Strong transcription	Hela-S3	cervix
45	chr9:97836200-97840800	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
46	chr9:97836400-97839600	Genic enhancers	Colonic Mucosa	Colon
47	chr9:97836400-97839800	Enhancers	Psoas Muscle	Psoas
48	chr9:97836600-97839400	Enhancers	Brain Inferior Temporal Lobe	brain
49	chr9:97836600-97839600	Genic enhancers	Colon Smooth Muscle	Colon
50	chr9:97836800-97844600	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links