Variant report

Variant	rs60114874
Chromosome Location	chr17:37754384-37754385
allele	C/G
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:5)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr17:37752759..37755741-chr17:37758554..37761390,2	K562	blood:
2	chr17:37753002..37755741-chr17:37759105..37761390,2	K562	blood:
3	chr17:37754053..37755569-chr17:37879843..37881401,2	K562	blood:
4	chr17:37748712..37751324-chr17:37752705..37755700,2	MCF-7	breast:
5	chr17:37753789..37756022-chr17:37842487..37844626,2	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-NEUROD2-1	chr17:37754115-37754703	XLOC_012462

No data

Variant related genes	Relation type
ENSG00000141736	Chromatin interaction
ENSG00000161395	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs12943456	1.00[AMR][1000 genomes]
rs12944298	0.83[AMR][1000 genomes]
rs12946275	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12950784	1.00[AMR][1000 genomes]
rs34079604	1.00[AMR][1000 genomes]
rs34207136	1.00[AMR][1000 genomes]
rs34518049	1.00[AMR][1000 genomes]
rs35550184	0.83[AMR][1000 genomes]
rs35598597	1.00[AMR][1000 genomes]
rs35701477	1.00[AMR][1000 genomes]
rs35929798	1.00[AMR][1000 genomes]
rs35986399	1.00[AMR][1000 genomes]
rs36025330	1.00[AMR][1000 genomes]
rs4988981	0.83[AMR][1000 genomes]
rs57059040	1.00[AMR][1000 genomes]
rs58452873	0.83[AMR][1000 genomes]
rs71369773	1.00[AMR][1000 genomes]
rs71369775	1.00[AMR][1000 genomes]
rs71369777	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7219611	1.00[AMR][1000 genomes]
rs7219683	1.00[AMR][1000 genomes]
rs7224847	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932024	chr17:37192290-37850932	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	92 gene(s)	inside rSNPs	diseases
2	nsv1066033	chr17:37333956-37795617	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	78 gene(s)	inside rSNPs	diseases
3	nsv543340	chr17:37333956-37795617	Flanking Active TSS Strong transcription Enhancers Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	78 gene(s)	inside rSNPs	diseases
4	nsv1061951	chr17:37442228-37770903	Bivalent Enhancer Strong transcription Weak transcription Active TSS ZNF genes & repeats Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	44 gene(s)	inside rSNPs	diseases
5	nsv543341	chr17:37442228-37770903	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Bivalent Enhancer 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	44 gene(s)	inside rSNPs	diseases
6	esv1825702	chr17:37487168-37876767	Genic enhancers Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	53 gene(s)	inside rSNPs	diseases
7	nsv532712	chr17:37521822-37768345	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
8	nsv833442	chr17:37692880-37861291	Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	33 gene(s)	inside rSNPs	diseases
9	nsv521294	chr17:37694709-37804858	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
10	nsv908205	chr17:37709422-37830900	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases
11	nsv908206	chr17:37709422-37866005	Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
12	nsv908207	chr17:37709422-37922259	Weak transcription Genic enhancers Strong transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
13	nsv833443	chr17:37725640-37882864	Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	23 gene(s)	inside rSNPs	diseases
14	nsv908208	chr17:37749259-37781849	Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Weak transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
15	nsv908209	chr17:37749259-37790340	Flanking Active TSS Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:37748800-37754400	Weak transcription	Pancreas	Pancrea
2	chr17:37751200-37756000	Bivalent Enhancer	Fetal Brain Male	brain
3	chr17:37751400-37755000	Bivalent Enhancer	Brain Germinal Matrix	brain
4	chr17:37752400-37754800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
5	chr17:37752800-37754400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
6	chr17:37752800-37755600	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
7	chr17:37752800-37756400	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
8	chr17:37752800-37756800	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
9	chr17:37752800-37757800	Bivalent Enhancer	Fetal Muscle Leg	muscle
10	chr17:37752800-37760200	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
11	chr17:37753200-37756400	Bivalent Enhancer	Left Ventricle	heart
12	chr17:37753400-37755000	Bivalent Enhancer	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr17:37753400-37755800	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr17:37753400-37756400	Bivalent Enhancer	Primary T killer naive cells fromperipheralblood	blood
15	chr17:37753800-37754400	Bivalent Enhancer	Brain Hippocampus Middle	brain
16	chr17:37753800-37756600	Bivalent Enhancer	Primary B cells from peripheral blood	blood
17	chr17:37753800-37756600	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
18	chr17:37754000-37754600	Bivalent Enhancer	Brain Dorsolateral Prefrontal Cortex	brain
19	chr17:37754000-37754800	Flanking Active TSS	Fetal Brain Female	brain
20	chr17:37754000-37755000	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
21	chr17:37754000-37755400	Bivalent Enhancer	Stomach Smooth Muscle	stomach
22	chr17:37754000-37756000	Bivalent Enhancer	Primary T helper 17 cells PMA-I stimulated	--
23	chr17:37754000-37756200	Bivalent Enhancer	Primary T helper memory cells from peripheral blood 2	blood
24	chr17:37754000-37756800	Bivalent Enhancer	Primary T killer memory cells from peripheral blood	blood
25	chr17:37754200-37754400	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr17:37754200-37755000	Bivalent Enhancer	Brain Cingulate Gyrus	brain
27	chr17:37754200-37755800	Bivalent Enhancer	Liver	Liver
28	chr17:37754200-37756400	Bivalent Enhancer	Primary T helper naive cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links