LncBase Experimental v.2
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Maria D. Paraskevopoulou, Ioannis S. Vlachos, Dimitra Karagkouni, Georgios Georgakilas, Ilias Kanellos, Thanasis Vergoulis, Konstantinos Zagganas, Panayiotis Tsanakas, Evangelos Floros, Theodore Dalamagas, and Artemis G. Hatzigeorgiou "DIANA-LncBase v2: indexing microRNA targets on non-coding transcripts" Nucl. Acids Res. (2016) gkv1270
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hsa-miR-28-5p


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Go to Predicted module
Filters
Gene
miRNA
Pr. score
DIANA Links
Methods
RP11-73M18.7
hsa-miR-28-5p
0.736
mTTBlnPmP
IP

Gene Details
Chromosome: 14
Transcript: ENST00000602669
Biotype: sense_intronic
Gene id: ENSG00000269940
Gene Name: RP11-73M18.7
UCSC graphic:
Expression:
  Cell Line Tissue Category
K562 Blood Cancer/Malignant
GM12878 Blood Cancer/Malignant
HUVEC Blood Vessel Normal/Primary
hMSC-BM Bone Marrow Stem/Progenitor
SK-N-SH Brain Cancer/Malignant
HeLa Cervix Cancer/Malignant
h1ESC Embryonic Stem Cells Embryonic/Fetal/Stem/Progenitor
HREpiC Kidney Normal/Primary
HepG2 Liver Cancer/Malignant
A549 Lung Cancer/Malignant
IMR90 Lung Embryonic/Fetal/Stem/Progenitor
HMEpC Mammary Gland Normal/Primary
MCF7 Mammary Gland Cancer/Malignant
LCLBACD2 - Normal/Primary
LCLBAC - Normal/Primary
LCLBACD3 - Normal/Primary
LCLBACD1 - Normal/Primary

miRNA Details
Name: hsa-miR-28-5p
Sequence: aaggagcucacagucuauugag
MirBase ID: MIMAT0000085
Related Diseases:

Publication
Tissue
Cell Type
Methods
Karginov FV et al. 2013
Kidney
293S
IP
Tested Cell Line: 293S
Category: Embryonic/Fetal
Experimental Condition: no treatment (control)
Location
Region
Method
Result
Validation Type
Source
14:103694995-103695023
exon
HITS-CLIP
DIRECT
LncBasev2
RP11-889L3.1
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 5
Transcript: ENST00000477964
Biotype: processed_pseudogene
Gene id: ENSG00000218227
Gene Name: RP11-889L3.1
UCSC graphic:
Expression:
  Cell Line Tissue Category
MCF7 Mammary Gland Cancer/Malignant
LCLBAC - Normal/Primary
LCLBACD1 - Normal/Primary

miRNA Details
Name: hsa-miR-28-5p
Sequence: aaggagcucacagucuauugag
MirBase ID: MIMAT0000085
Related Diseases:

Publication
Tissue
Cell Type
Methods
Kameswaran V et al. 2014
Pancreas
Beta cells
IP
Tested Cell Line: Beta cells
Category: -
Experimental Condition: -
Location
Region
Method
Result
Validation Type
Source
5:178056040-178056068
exon
HITS-CLIP
DIRECT
LncBasev2
RP11-890B15.3
hsa-miR-28-5p
0.478
mTTBlnPmP
IP

Gene Details
Chromosome: 11
Transcript: ENST00000525716
Biotype: lincRNA
Gene id: ENSG00000255455
Gene Name: RP11-890B15.3
UCSC graphic:
Expression:
  Cell Line Tissue Category
GM12878 Blood Cancer/Malignant
HUVEC Blood Vessel Normal/Primary
SK-N-SH Brain Cancer/Malignant
HeLa Cervix Cancer/Malignant
h1ESC Embryonic Stem Cells Embryonic/Fetal/Stem/Progenitor
HREpiC Kidney Normal/Primary
IMR90 Lung Embryonic/Fetal/Stem/Progenitor
A549 Lung Cancer/Malignant

miRNA Details
Name: hsa-miR-28-5p
Sequence: aaggagcucacagucuauugag
MirBase ID: MIMAT0000085
Related Diseases:

Publication
Tissue
Cell Type
Methods
Kameswaran V et al. 2014
Pancreas
Beta cells
IP
Tested Cell Line: Beta cells
Category: -
Experimental Condition: -
Location
Region
Method
Result
Validation Type
Source
11:130870027-130870055
exon
HITS-CLIP
DIRECT
LncBasev2
RP11-909M7.3
hsa-miR-28-5p
0.396
mTTBlnPmP
IP

Gene Details
Chromosome: 14
Transcript: NR_110178.1
Biotype: lincRNA
Gene id: NR_110178.1 (gene)
Gene Name: RP11-909M7.3
UCSC graphic: -
Expression:
  Cell Line Tissue Category
HUVEC Blood Vessel Normal/Primary
hMSC-BM Bone Marrow Stem/Progenitor
IMR90 Lung Embryonic/Fetal/Stem/Progenitor
A549 Lung Cancer/Malignant

miRNA Details
Name: hsa-miR-28-5p
Sequence: aaggagcucacagucuauugag
MirBase ID: MIMAT0000085
Related Diseases:

Publication
Tissue
Cell Type
Methods
Boudreau RL et al. 2014
Brain
-
IP
Tested Cell Line: -
Category: -
Experimental Condition: -
Location
Region
Method
Result
Validation Type
Source
14:100967781-100967809
exon
HITS-CLIP
DIRECT
LncBasev2
RP1-281H8.3
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 6
Transcript: ENST00000406807
Biotype: processed_pseudogene
Gene id: ENSG00000219553
Gene Name: RP1-281H8.3
UCSC graphic:
Expression: -

miRNA Details
Name: hsa-miR-28-5p
Sequence: aaggagcucacagucuauugag
MirBase ID: MIMAT0000085
Related Diseases:

Publication
Tissue
Cell Type
Methods
Skalsky Rebecca L. et al. 2012
LCLBACD1
IP
Tested Cell Line: LCLBACD1
Category: Normal/Primary
Experimental Condition: -
Location
Region
Method
Result
Validation Type
Source
6:149491820-149491848
exon
PAR-CLIP
DIRECT
LncBasev2
RP1-74M1.3
hsa-miR-28-5p
0.588
mTTBlnPmP
IP

Gene Details
Chromosome: 1
Transcript: ENST00000610135
Biotype: lincRNA
Gene id: ENSG00000272796
Gene Name: RP1-74M1.3
UCSC graphic:
Expression:
  Cell Line Tissue Category
SK-N-SH Brain Cancer/Malignant

miRNA Details
Name: hsa-miR-28-5p
Sequence: aaggagcucacagucuauugag
MirBase ID: MIMAT0000085
Related Diseases:

Publication
Tissue
Cell Type
Methods
Boudreau RL et al. 2014
Brain
-
IP
Tested Cell Line: -
Category: -
Experimental Condition: -
Location
Region
Method
Result
Validation Type
Source
1:22919100-22919128
exon
HITS-CLIP
DIRECT
LncBasev2
RP5-1112D6.4
hsa-miR-28-5p
0.415
mTTBlnPmP
IP

Gene Details
Chromosome: 6
Transcript: ENST00000444259
Biotype: antisense
Gene id: ENSG00000230177
Gene Name: RP5-1112D6.4
UCSC graphic:
Expression:
  Cell Line Tissue Category
- Adipose Normal/Primary
- Adrenal Normal/Primary
GM12878 Blood Cancer/Malignant
K562 Blood Cancer/Malignant
- Brain Normal/Primary
SK-N-SH Brain Cancer/Malignant
- Breast Normal/Primary
HeLa Cervix Cancer/Malignant
- Colon Normal/Primary
h1ESC Embryonic Stem Cells Embryonic/Fetal/Stem/Progenitor
- Heart Normal/Primary
- Kidney Normal/Primary
HepG2 Liver Cancer/Malignant
- Liver Normal/Primary
A549 Lung Cancer/Malignant
Fibroblasts Lung Normal/Primary
- Lung Normal/Primary
- Lymph Node Normal/Primary
MCF7 Mammary Gland Cancer/Malignant
- Ovary Normal/Primary
- Placenta Normal/Primary
- Prostate Normal/Primary
- Skeletal Muscle Normal/Primary
- Testes Normal/Primary
- Thyroid Normal/Primary
- White Blood Cell Normal/Primary

miRNA Details
Name: hsa-miR-28-5p
Sequence: aaggagcucacagucuauugag
MirBase ID: MIMAT0000085
Related Diseases:

Publication
Tissue
Cell Type
Methods
Kameswaran V et al. 2014
Pancreas
Beta cells
IP
Tested Cell Line: Beta cells
Category: -
Experimental Condition: -
Location
Region
Method
Result
Validation Type
Source
6:111278643-111278671
exon
HITS-CLIP
DIRECT
LncBasev2
RP5-857K21.7
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 1
Transcript: ENST00000427426
Biotype: unprocessed_pseudogene
Gene id: ENSG00000229344
Gene Name: RP5-857K21.7
UCSC graphic:
Expression:
  Cell Line Tissue Category
h1ESC Embryonic Stem Cells Embryonic/Fetal/Stem/Progenitor
IMR90 Lung Embryonic/Fetal/Stem/Progenitor
MCF7 Mammary Gland Cancer/Malignant

miRNA Details
Name: hsa-miR-28-5p
Sequence: aaggagcucacagucuauugag
MirBase ID: MIMAT0000085
Related Diseases:

Publication
Tissue
Cell Type
Methods
Xue Y et al. 2013
Cervix
HELA
IP
Tested Cell Line: HELA
Category: Cancer/Malignant
Experimental Condition: Hela cells were treated with control shRNA.
Location
Region
Method
Result
Validation Type
Source
1:633012-633040
exon
HITS-CLIP
DIRECT
LncBasev2
RP6-159A1.2
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: X
Transcript: ENST00000456392
Biotype: processed_pseudogene
Gene id: ENSG00000217835
Gene Name: RP6-159A1.2
UCSC graphic:
Expression: -

miRNA Details
Name: hsa-miR-28-5p
Sequence: aaggagcucacagucuauugag
MirBase ID: MIMAT0000085
Related Diseases:

Publication
Tissue
Cell Type
Methods
Boudreau RL et al. 2014
Brain
-
IP
Tested Cell Line: -
Category: -
Experimental Condition: -
Location
Region
Method
Result
Validation Type
Source
X:65956649-65956677
exon
HITS-CLIP
DIRECT
LncBasev2
RPL14P1
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 12
Transcript: ENST00000484568
Biotype: processed_pseudogene
Gene id: ENSG00000139239
Gene Name: RPL14P1
UCSC graphic:
Expression:
  Cell Line Tissue Category
GM12878 Blood Cancer/Malignant
K562 Blood Cancer/Malignant
SK-N-SH Brain Cancer/Malignant
HeLa Cervix Cancer/Malignant
HepG2 Liver Cancer/Malignant
A549 Lung Cancer/Malignant
MCF7 Mammary Gland Cancer/Malignant

miRNA Details
Name: hsa-miR-28-5p
Sequence: aaggagcucacagucuauugag
MirBase ID: MIMAT0000085
Related Diseases:

Publication
Tissue
Cell Type
Methods
Kameswaran V et al. 2014
Pancreas
Beta cells
IP
Tested Cell Line: Beta cells
Category: -
Experimental Condition: -
Location
Region
Method
Result
Validation Type
Source
12:62965346-62965374
exon
HITS-CLIP
DIRECT
LncBasev2
RPL39P5
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 3
Transcript: ENST00000273411
Biotype: processed_transcript
Gene id: ENSG00000214289
Gene Name: RPL39P5
UCSC graphic:
Expression:
  Cell Line Tissue Category
LCLBACD1 - Normal/Primary

miRNA Details
Name: hsa-miR-28-5p
Sequence: aaggagcucacagucuauugag
MirBase ID: MIMAT0000085
Related Diseases:

Publication
Tissue
Cell Type
Methods
Balakrishnan I et al. 2014
Bone Marrow
HMSC
IP
Tested Cell Line: HMSC
Category: Stem/Progenitor
Experimental Condition: -
Location
Region
Method
Result
Validation Type
Source
3:134356515-134356543
exon
HITS-CLIP
DIRECT
LncBasev2
3:134356515-134356543
exon
HITS-CLIP
DIRECT
LncBasev2
RPS19P1
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 20
Transcript: ENST00000415286
Biotype: processed_pseudogene
Gene id: ENSG00000214612
Gene Name: RPS19P1
UCSC graphic:
Expression:
  Cell Line Tissue Category
GM12878 Blood Cancer/Malignant
MCF7 Mammary Gland Cancer/Malignant
LCLBACD3 - Normal/Primary
LCLBAC - Normal/Primary
LCLBACD2 - Normal/Primary
LCLBACD1 - Normal/Primary

miRNA Details
Name: hsa-miR-28-5p
Sequence: aaggagcucacagucuauugag
MirBase ID: MIMAT0000085
Related Diseases:

Publication
Tissue
Cell Type
Methods
Haecker Irina et al. 2012
Pleura
BC3
IP
Tested Cell Line: BC3
Category: Cancer/Malignant
Experimental Condition: -
Location
Region
Method
Result
Validation Type
Source
20:18504620-18504648
exon
HITS-CLIP
DIRECT
LncBasev2
RPS19P3
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 14
Transcript: ENST00000480487
Biotype: processed_pseudogene
Gene id: ENSG00000240463
Gene Name: RPS19P3
UCSC graphic:
Expression:
  Cell Line Tissue Category
GM12878 Blood Cancer/Malignant
LCLBACD1 - Normal/Primary
LCLBACD2 - Normal/Primary
LCLBACD3 - Normal/Primary
LCLBAC - Normal/Primary

miRNA Details
Name: hsa-miR-28-5p
Sequence: aaggagcucacagucuauugag
MirBase ID: MIMAT0000085
Related Diseases:

Publication
Tissue
Cell Type
Methods
Kameswaran V et al. 2014
Pancreas
Beta cells
IP
Tested Cell Line: Beta cells
Category: -
Experimental Condition: -
Location
Region
Method
Result
Validation Type
Source
14:34568952-34568980
exon
HITS-CLIP
DIRECT
LncBasev2
RPS3P6
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 12
Transcript: ENST00000487417
Biotype: processed_pseudogene
Gene id: ENSG00000213363
Gene Name: RPS3P6
UCSC graphic:
Expression: -

miRNA Details
Name: hsa-miR-28-5p
Sequence: aaggagcucacagucuauugag
MirBase ID: MIMAT0000085
Related Diseases:

Publication
Tissue
Cell Type
Methods
Balakrishnan I et al. 2014
Bone Marrow
HS5
IP
Tested Cell Line: HS5
Category: Normal/Primary
Experimental Condition: -
Location
Region
Method
Result
Validation Type
Source
12:62021555-62021583
exon
HITS-CLIP
DIRECT
LncBasev2
SCART1
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 10
Transcript: ENST00000462252
Biotype: retained_intron
Gene id: ENSG00000214279
Gene Name: SCART1
UCSC graphic:
Expression:
  Cell Line Tissue Category
K562 Blood Cancer/Malignant
GM12878 Blood Cancer/Malignant
SK-N-SH Brain Cancer/Malignant
IMR90 Lung Embryonic/Fetal/Stem/Progenitor

miRNA Details
Name: hsa-miR-28-5p
Sequence: aaggagcucacagucuauugag
MirBase ID: MIMAT0000085
Related Diseases:

Publication
Tissue
Cell Type
Methods
Karginov FV et al. 2013
Kidney
293S
IP
Tested Cell Line: 293S
Category: Embryonic/Fetal
Experimental Condition: no treatment (control)
Location
Region
Method
Result
Validation Type
Source
10:133465177-133465205
exon
HITS-CLIP
DIRECT
LncBasev2
SCDP1
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 17
Transcript: ENST00000455244
Biotype: processed_pseudogene
Gene id: ENSG00000226549
Gene Name: SCDP1
UCSC graphic:
Expression: -

miRNA Details
Name: hsa-miR-28-5p
Sequence: aaggagcucacagucuauugag
MirBase ID: MIMAT0000085
Related Diseases:

Publication
Tissue
Cell Type
Methods
Boudreau RL et al. 2014
Brain
-
IP
Tested Cell Line: -
Category: -
Experimental Condition: -
Location
Region
Method
Result
Validation Type
Source
17:20784657-20784685
exon
HITS-CLIP
DIRECT
LncBasev2
Xue Y et al. 2013
Cervix
HELA
IP
Tested Cell Line: HELA
Category: Cancer/Malignant
Experimental Condition: Hela cells were treated with control shRNA.
Location
Region
Method
Result
Validation Type
Source
17:20784657-20784685
exon
HITS-CLIP
DIRECT
LncBasev2
SDCBP2-AS1
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 20
Transcript: ENST00000609470
Biotype: antisense
Gene id: ENSG00000234684
Gene Name: SDCBP2-AS1
UCSC graphic:
Expression:
  Cell Line Tissue Category
GM12878 Blood Cancer/Malignant
K562 Blood Cancer/Malignant
SK-N-SH Brain Cancer/Malignant
HeLa Cervix Cancer/Malignant
HepG2 Liver Cancer/Malignant
IMR90 Lung Embryonic/Fetal/Stem/Progenitor
A549 Lung Cancer/Malignant
MCF7 Mammary Gland Cancer/Malignant
LCLBAC - Normal/Primary

miRNA Details
Name: hsa-miR-28-5p
Sequence: aaggagcucacagucuauugag
MirBase ID: MIMAT0000085
Related Diseases:

Publication
Tissue
Cell Type
Methods
Karginov FV et al. 2013
Kidney
293S
IP
Tested Cell Line: 293S
Category: Embryonic/Fetal
Experimental Condition: no treatment (control)
Location
Region
Method
Result
Validation Type
Source
20:1377850-1377878
exon
HITS-CLIP
DIRECT
LncBasev2
SENP3-EIF4A1
hsa-miR-28-5p
0.519
mTTBlnPmP
IP

Gene Details
Chromosome: 17
Transcript: NR_037926.1
Biotype: sense
Gene id: NR_037926.1 (gene)
Gene Name: SENP3-EIF4A1
UCSC graphic: -
Expression:
  Cell Line Tissue Category
GM12878 Blood Cancer/Malignant
HeLa Cervix Cancer/Malignant
HEK293 Kidney Embryonic/Fetal/Stem/Progenitor
A549 Lung Cancer/Malignant
LCLBACD2 - Normal/Primary

miRNA Details
Name: hsa-miR-28-5p
Sequence: aaggagcucacagucuauugag
MirBase ID: MIMAT0000085
Related Diseases:

Publication
Tissue
Cell Type
Methods
Boudreau RL et al. 2014
Brain
-
IP
Tested Cell Line: -
Category: -
Experimental Condition: -
Location
Region
Method
Result
Validation Type
Source
17:7578758-7578786
exon
HITS-CLIP
DIRECT
LncBasev2
SEPT7P6
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 7
Transcript: ENST00000469999
Biotype: processed_pseudogene
Gene id: ENSG00000241007
Gene Name: SEPT7P6
UCSC graphic:
Expression: -

miRNA Details
Name: hsa-miR-28-5p
Sequence: aaggagcucacagucuauugag
MirBase ID: MIMAT0000085
Related Diseases:

Publication
Tissue
Cell Type
Methods
Boudreau RL et al. 2014
Brain
-
IP
Tested Cell Line: -
Category: -
Experimental Condition: -
Location
Region
Method
Result
Validation Type
Source
7:152367823-152367851
exon
HITS-CLIP
DIRECT
LncBasev2
SLC26A4-AS1
hsa-miR-28-5p
0.563
mTTBlnPmP
IP

Gene Details
Chromosome: 7
Transcript: ENST00000440512
Biotype: antisense
Gene id: ENSG00000233705
Gene Name: SLC26A4-AS1
UCSC graphic:
Expression: -

miRNA Details
Name: hsa-miR-28-5p
Sequence: aaggagcucacagucuauugag
MirBase ID: MIMAT0000085
Related Diseases:

Publication
Tissue
Cell Type
Methods
Boudreau RL et al. 2014
Brain
-
IP
Tested Cell Line: -
Category: -
Experimental Condition: -
Location
Region
Method
Result
Validation Type
Source
7:107659913-107659941
exon
HITS-CLIP
DIRECT
LncBasev2
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