Variant report

Variant	rs17074553
Chromosome Location	chr13:30915598-30915599
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:4)
LncRNA
region (count:7)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:4 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr13:30914167..30916233-chr13:30944919..30947715,2	K562	blood:
2	chr13:30913388..30915897-chr13:30936298..30938921,2	MCF-7	breast:
3	chr13:30914354..30916589-chr2:38153582..38155148,2	MCF-7	breast:
4	chr13:30914887..30916823-chr13:31040632..31043007,2	K562	blood:

(count:7 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-KATNAL1-3	chr13:30914409-30915605	XLOC_010556
2	lnc-KATNAL1-3	chr13:30915489-30915605	XLOC_010556
3	lnc-KATNAL1-3	chr13:30915496-30915733	XLOC_010556
4	lnc-KATNAL1-3	chr13:30915489-30915733	XLOC_010556
5	lnc-KATNAL1-3	chr13:30915567-30915733	XLOC_010556
6	lnc-KATNAL1-3	chr13:30914536-30915733	XLOC_010556
7	lnc-KATNAL1-3	chr13:30914407-30915605	ENSG00000238121

No data

Variant related genes	Relation type
ENSG00000189403	Chromatin interaction
ENSG00000238121	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs12583912	0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs200513	0.83[ASN][1000 genomes]
rs200524	0.90[ASN][1000 genomes]
rs202080	1.00[CHB][hapmap]
rs202100	0.83[ASN][1000 genomes]
rs2388537	1.00[EUR][1000 genomes];0.90[ASN][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	nsv530602	chr13:30911025-31404272	Strong transcription Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv455853	chr13:30911531-30951514	Active TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	nsv561394	chr13:30911531-30951514	Enhancers Flanking Active TSS Genic enhancers Weak transcription Bivalent Enhancer Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:30909000-30919800	Weak transcription	Primary hematopoietic stem cells	blood
2	chr13:30909800-30919000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr13:30909800-30919400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
4	chr13:30910000-30919000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr13:30910000-30920600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr13:30910600-30916400	Enhancers	Hela-S3	cervix
7	chr13:30910800-30919200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
8	chr13:30911000-30917400	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr13:30911000-30919000	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr13:30911200-30919600	Weak transcription	Primary B cells from cord blood	blood
11	chr13:30911400-30917600	Enhancers	Colon Smooth Muscle	Colon
12	chr13:30911600-30917400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr13:30912000-30917000	Enhancers	Fetal Heart	heart
14	chr13:30912000-30918400	Enhancers	Breast Myoepithelial Primary Cells	Breast
15	chr13:30912200-30917000	Enhancers	NH-A	brain
16	chr13:30912400-30916800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
17	chr13:30913400-30915600	Enhancers	Ovary	ovary
18	chr13:30913400-30916000	Weak transcription	Thymus	Thymus
19	chr13:30913400-30916800	Enhancers	Left Ventricle	heart
20	chr13:30913600-30917000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
21	chr13:30913600-30917000	Enhancers	Adipose Nuclei	Adipose
22	chr13:30913600-30917000	Enhancers	Fetal Muscle Leg	muscle
23	chr13:30913600-30917000	Enhancers	Fetal Stomach	stomach
24	chr13:30913600-30917000	Enhancers	HSMM	muscle
25	chr13:30913800-30916800	Enhancers	Duodenum Smooth Muscle	Duodenum
26	chr13:30913800-30918600	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
27	chr13:30913800-30919200	Weak transcription	Spleen	Spleen
28	chr13:30914000-30915600	Flanking Active TSS	Stomach Smooth Muscle	stomach
29	chr13:30914000-30915800	Flanking Active TSS	NHDF-Ad	bronchial
30	chr13:30914000-30916000	Enhancers	Fetal Brain Male	brain
31	chr13:30914000-30916200	Enhancers	Brain Cingulate Gyrus	brain
32	chr13:30914000-30916200	Enhancers	Brain Hippocampus Middle	brain
33	chr13:30914000-30916200	Enhancers	Fetal Lung	lung
34	chr13:30914000-30916800	Genic enhancers	Fetal Thymus	thymus
35	chr13:30914000-30917000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
36	chr13:30914000-30917000	Enhancers	Aorta	Aorta
37	chr13:30914000-30917200	Enhancers	Cortex derived primary cultured neurospheres	brain
38	chr13:30914000-30917200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
39	chr13:30914000-30917200	Enhancers	Liver	Liver
40	chr13:30914200-30915800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr13:30914200-30915800	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
42	chr13:30914200-30916000	Weak transcription	Rectal Mucosa Donor 31	rectum
43	chr13:30914200-30916200	Enhancers	HMEC	breast
44	chr13:30914200-30916600	Enhancers	NHEK	skin
45	chr13:30914200-30917200	Enhancers	Dnd41	blood
46	chr13:30914400-30915800	Strong transcription	Primary B cells from peripheral blood	blood
47	chr13:30914400-30916200	Weak transcription	Fetal Brain Female	brain
48	chr13:30914400-30916800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
49	chr13:30914600-30915600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
50	chr13:30914600-30915600	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin

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