Variant report

Variant	rs34929372
Chromosome Location	chr7:56034559-56034560
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:56032893..56034835-chr7:56039528..56041569,2	K562	blood:
2	chr7:56034331..56037104-chr7:56116413..56119304,2	K562	blood:
3	chr7:56019540..56020074-chr7:56034140..56034740,2	MCF-7	breast:
4	chr7:56018437..56023114-chr7:56029023..56035214,11	K562	blood:

Variant related genes	Relation type
ENSG00000239789	Chromatin interaction
ENSG00000146733	Chromatin interaction
ENSG00000146729	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs10237524	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11238386	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11767454	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13245637	0.93[ASN][1000 genomes]
rs35160834	0.81[AFR][1000 genomes]
rs4255090	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2829874	chr7:55382925-56369816	Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Weak transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	nsv995105	chr7:55606107-56174888	Active TSS ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
3	esv12412	chr7:55619800-56385412	Strong transcription Flanking Active TSS Genic enhancers Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
4	nsv949574	chr7:55705566-56544711	Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases
5	nsv1019400	chr7:55709827-56094540	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
6	esv3446617	chr7:55745934-56485903	Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
7	nsv529162	chr7:55800753-56174888	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
8	esv2761334	chr7:55823581-56424739	Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
9	nsv888064	chr7:55831721-56104539	Genic enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
10	nsv1018806	chr7:55844931-56383936	Active TSS Enhancers Genic enhancers Flanking Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
11	nsv538860	chr7:55844931-56383936	Enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
12	nsv498114	chr7:55872850-56174888	Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
13	nsv1034826	chr7:55962159-56092835	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
14	nsv1033225	chr7:55962159-56094540	Genic enhancers Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs34929372	LOC146325	trans	lymphoblastoid	RTeQTL
rs34929372	CHCHD2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:56031800-56034600	Active TSS	Right Ventricle	heart
2	chr7:56032800-56035000	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
3	chr7:56033000-56034600	Weak transcription	Gastric	stomach
4	chr7:56033000-56039200	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr7:56033200-56034800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
6	chr7:56033200-56034800	Enhancers	Brain Inferior Temporal Lobe	brain
7	chr7:56033200-56034800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
8	chr7:56033200-56035400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr7:56033200-56036200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr7:56033200-56036800	Weak transcription	Ovary	ovary
11	chr7:56033200-56045400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr7:56033200-56045600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr7:56033200-56045600	Weak transcription	Aorta	Aorta
14	chr7:56033200-56045800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
15	chr7:56033200-56048600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
16	chr7:56033200-56050400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr7:56033200-56081400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
18	chr7:56033400-56034600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
19	chr7:56033400-56035000	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
20	chr7:56033400-56040400	Weak transcription	Small Intestine	intestine
21	chr7:56033400-56045200	Weak transcription	HUVEC	blood vessel
22	chr7:56033400-56045600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr7:56033400-56045600	Weak transcription	Primary B cells from peripheral blood	blood
24	chr7:56033400-56047000	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr7:56033400-56047600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr7:56033600-56034600	Weak transcription	Thymus	Thymus
27	chr7:56033600-56034800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr7:56033600-56035000	Enhancers	Brain Germinal Matrix	brain
29	chr7:56033600-56036000	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr7:56033600-56036800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
31	chr7:56033600-56037800	Weak transcription	Primary B cells from cord blood	blood
32	chr7:56033600-56045600	Weak transcription	H9 Cell Line	embryonic stem cell
33	chr7:56033800-56034600	Enhancers	Adipose Nuclei	Adipose
34	chr7:56033800-56034600	Weak transcription	Monocytes-CD14+_RO01746	blood
35	chr7:56033800-56035000	Enhancers	Cortex derived primary cultured neurospheres	brain
36	chr7:56033800-56035000	Genic enhancers	Fetal Muscle Leg	muscle
37	chr7:56033800-56035000	Genic enhancers	Fetal Stomach	stomach
38	chr7:56033800-56035200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
39	chr7:56033800-56035200	Genic enhancers	Dnd41	blood
40	chr7:56033800-56035400	Enhancers	Lung	lung
41	chr7:56033800-56036400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
42	chr7:56033800-56036400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr7:56033800-56036800	Weak transcription	Primary T cells from cord blood	blood
44	chr7:56033800-56037200	Weak transcription	Primary T cells fromperipheralblood	blood
45	chr7:56033800-56038200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
46	chr7:56033800-56038400	Weak transcription	H1 Cell Line	embryonic stem cell
47	chr7:56033800-56038400	Weak transcription	HSMMtube	muscle
48	chr7:56033800-56038600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr7:56033800-56038600	Weak transcription	HUES48 Cell Line	embryonic stem cell
50	chr7:56033800-56038600	Weak transcription	Stomach Mucosa	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links