Variant report

Variant	rs41291229
Chromosome Location	chr13:30059124-30059125
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SLC7A1-1	chr13:30059006-30059443	ENSG00000179141.3
2	lnc-SLC7A1-1	chr13:30059006-30059443	ENSG00000179141.5
3	lnc-SLC7A1-1	chr13:30059006-30059443	ENSG00000179141.5
4	lnc-SLC7A1-1	chr13:30059006-30059443	NONHSAT032733

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs2388076	0.93[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73154406	1.00[EUR][1000 genomes]
rs73154407	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73154410	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73154411	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73154413	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73154414	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes]
rs73154415	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73154416	1.00[EUR][1000 genomes]
rs73154417	0.89[EUR][1000 genomes]
rs7330699	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv427927	chr13:29729315-30062054	Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv983696	chr13:30034016-30090454	Enhancers Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:30047200-30081000	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr13:30055600-30070200	Weak transcription	Ovary	ovary
3	chr13:30056800-30059800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr13:30057200-30059200	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr13:30057400-30059200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
6	chr13:30057400-30059200	Enhancers	Primary B cells from peripheral blood	blood
7	chr13:30057400-30059400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
8	chr13:30057400-30062000	Weak transcription	Stomach Smooth Muscle	stomach
9	chr13:30057400-30070200	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr13:30057800-30059200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr13:30057800-30059200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr13:30057800-30059200	Enhancers	iPS-18 Cell Line	embryonic stem cell
13	chr13:30058000-30059200	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr13:30058000-30059200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
15	chr13:30058000-30059200	Strong transcription	Aorta	Aorta
16	chr13:30058200-30059200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr13:30058200-30070200	Weak transcription	Right Ventricle	heart
18	chr13:30058400-30060000	Genic enhancers	Fetal Heart	heart
19	chr13:30058400-30063200	Weak transcription	Left Ventricle	heart
20	chr13:30058800-30059400	Strong transcription	Fetal Muscle Leg	muscle
21	chr13:30058800-30068200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
22	chr13:30058800-30070200	Weak transcription	Right Atrium	heart
23	chr13:30059000-30059400	Strong transcription	Dnd41	blood
24	chr13:30059000-30061000	Weak transcription	HUES48 Cell Line	embryonic stem cell
25	chr13:30059000-30061600	Weak transcription	HUES6 Cell Line	embryonic stem cell
26	chr13:30059000-30061800	Weak transcription	H1 Cell Line	embryonic stem cell
27	chr13:30059000-30062000	Weak transcription	HUES64 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links