Variant report

Variant	rs4941883
Chromosome Location	chr13:38620007-38620008
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:14)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr13:38619772..38620317-chr13:39337583..39338487,2	MCF-7	breast:
2	chr13:38444174..38445062-chr13:38619564..38620172,4	MCF-7	breast:
3	chr13:38619645..38620169-chr13:39104518..39105098,2	MCF-7	breast:
4	chr13:38619641..38620162-chr5:178301644..178302146,3	MCF-7	breast:
5	chr13:38619821..38620466-chr13:39104363..39105281,2	MCF-7	breast:
6	chr13:38619618..38620640-chr5:178301624..178302148,7	MCF-7	breast:
7	chr13:38534293..38535195-chr13:38619787..38620669,2	MCF-7	breast:
8	chr13:38444501..38445012-chr13:38619704..38620553,2	K562	blood:
9	chr13:38341398..38342310-chr13:38619796..38620598,3	MCF-7	breast:
10	chr13:38213105..38213606-chr13:38619616..38620287,2	MCF-7	breast:
11	chr13:38343140..38343850-chr13:38619631..38620180,3	K562	blood:
12	chr13:38214466..38215276-chr13:38619175..38620143,2	MCF-7	breast:
13	chr13:38214293..38215171-chr13:38619746..38620556,2	MCF-7	breast:
14	chr13:38343183..38343822-chr13:38619567..38620143,2	MCF-7	breast:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-UFM1-12	chr13:38618088-38620549	NONHSAT033258

No data

Variant related genes	Relation type
ENSG00000133107	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1073835	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1360921	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1360922	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1360923	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1538154	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1961338	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1981172	0.80[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2323729	0.81[EUR][1000 genomes]
rs4262828	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4539457	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs56320674	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs61956980	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7326544	0.80[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs7334221	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7336538	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7336728	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7336735	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7336857	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7994309	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7994611	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9315543	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9532147	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9548172	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9566295	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9576428	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9576429	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv915901	chr13:38199035-39032633	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv869125	chr13:38550449-39132813	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv949406	chr13:38561474-39033484	Transcr. at gene 5' and 3' Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv899999	chr13:38582178-38636966	ZNF genes & repeats Enhancers Weak transcription Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv900000	chr13:38608928-38710260	Enhancers ZNF genes & repeats Weak transcription Active TSS Strong transcription	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv900001	chr13:38619750-38710260	ZNF genes & repeats Weak transcription Enhancers Strong transcription Active TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs4941883	LINC00571	cis	Thyroid	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:38606400-38621400	Weak transcription	Right Ventricle	heart
2	chr13:38616000-38621200	Weak transcription	Liver	Liver
3	chr13:38618400-38620200	ZNF genes & repeats	Aorta	Aorta
4	chr13:38619200-38620200	ZNF genes & repeats	Pancreas	Pancrea
5	chr13:38619800-38620400	Enhancers	HUES6 Cell Line	embryonic stem cell

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