LncBase Experimental v.2
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Please cite:
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
CASC7
hsa-miR-28-5p
0.648
mTTBlnPmP
IP

Gene Details
Chromosome: 8
Transcript: ENST00000560295
Biotype: lincRNA
Gene id: ENSG00000259758
Gene Name: CASC7
UCSC graphic:
Expression:
  Cell Line Tissue Category
GM12878 Blood Cancer/Malignant
K562 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
MCF7 Mammary Gland Cancer/Malignant
LCLBAC - Normal/Primary
LCLBACD2 - Normal/Primary
LCLBACD1 - Normal/Primary
LCLBACD3 - 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: treatment: emetine
Location
Region
Method
Result
Validation Type
Source
8:140524496-140524524
exon
HITS-CLIP
DIRECT
LncBasev2
8:140523866-140523894
exon
HITS-CLIP
DIRECT
LncBasev2
8:140523866-140523894
exon
HITS-CLIP
DIRECT
LncBasev2
CD46P1
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 1
Transcript: ENST00000441364
Biotype: unprocessed_pseudogene
Gene id: ENSG00000244703
Gene Name: CD46P1
UCSC graphic:
Expression: -

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
1:207645297-207645325
exon
HITS-CLIP
DIRECT
LncBasev2
CEBPA-AS1
hsa-miR-28-5p
0.367
mTTBlnPmP
IP

Gene Details
Chromosome: 19
Transcript: ENST00000592982
Biotype: antisense
Gene id: ENSG00000267296
Gene Name: CEBPA-AS1
UCSC graphic:
Expression:
  Cell Line Tissue Category
HepG2 Liver Cancer/Malignant

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: treatment: arsenite
Location
Region
Method
Result
Validation Type
Source
19:33304218-33304246
exon
HITS-CLIP
DIRECT
LncBasev2
chr22-38_28785274-29006793.1
hsa-miR-28-5p
1.000
mTTBlnPmP
IP

Gene Details
Chromosome: 22
Transcript: ENST00000623644
Biotype: lincRNA
Gene id: ENSG00000279978
Gene Name: chr22-38_28785274-29006793.1
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
22:28988771-28988799
exon
HITS-CLIP
DIRECT
LncBasev2
CLIC4P3
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: X
Transcript: ENST00000422221
Biotype: processed_pseudogene
Gene id: ENSG00000237931
Gene Name: CLIC4P3
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:41077036-41077064
exon
HITS-CLIP
DIRECT
LncBasev2
CLUHP3
hsa-miR-28-5p
0.671
mTTBlnPmP
IP

Gene Details
Chromosome: 16
Transcript: NR_024034.1
Biotype: lincRNA
Gene id: NR_024034.1 (gene)
Gene Name: CLUHP3
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
h1ESC Embryonic Stem Cells Embryonic/Fetal/Stem/Progenitor
HREpiC Kidney Normal/Primary
HEK293 Kidney Embryonic/Fetal/Stem/Progenitor
HepG2 Liver Cancer/Malignant
A549 Lung Cancer/Malignant
IMR90 Lung Embryonic/Fetal/Stem/Progenitor
MCF7 Mammary Gland Cancer/Malignant
LCLBACD2 - Normal/Primary
LCLBACD3 - Normal/Primary
LCLBACD1 - Normal/Primary
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: treatment: emetine
Location
Region
Method
Result
Validation Type
Source
16:31707202-31707230
exon
HITS-CLIP
DIRECT
LncBasev2
CLUHP3
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 16
Transcript: ENST00000254109
Biotype: processed_transcript
Gene id: ENSG00000131797
Gene Name: CLUHP3
UCSC graphic:
Expression:
  Cell Line Tissue Category
K562 Blood Cancer/Malignant
GM12878 Blood Cancer/Malignant
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
IMR90 Lung Embryonic/Fetal/Stem/Progenitor
A549 Lung Cancer/Malignant
MCF7 Mammary Gland Cancer/Malignant
HMEpC Mammary Gland Normal/Primary
LCLBAC - Normal/Primary
LCLBACD3 - 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
Karginov FV et al. 2013
Kidney
293S
IP
Tested Cell Line: 293S
Category: Embryonic/Fetal
Experimental Condition: treatment: emetine
Location
Region
Method
Result
Validation Type
Source
16:31707202-31707230
exon
HITS-CLIP
DIRECT
LncBasev2
CRHR1-IT1
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 17
Transcript: ENST00000578000
Biotype: processed_transcript
Gene id: ENSG00000204650
Gene Name: CRHR1-IT1
UCSC graphic:
Expression:
  Cell Line Tissue Category
GM12878 Blood Cancer/Malignant
K562 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
HepG2 Liver Cancer/Malignant
IMR90 Lung Embryonic/Fetal/Stem/Progenitor
A549 Lung Cancer/Malignant
HMEpC Mammary Gland Normal/Primary
MCF7 Mammary Gland 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
Boudreau RL et al. 2014
Brain
-
IP
Tested Cell Line: -
Category: -
Experimental Condition: -
Location
Region
Method
Result
Validation Type
Source
17:45638953-45638981
exon
HITS-CLIP
DIRECT
LncBasev2
CTC-425O23.2
hsa-miR-28-5p
0.639
mTTBlnPmP
IP

Gene Details
Chromosome: 19
Transcript: ENST00000378432
Biotype: sense_intronic
Gene id: ENSG00000205041
Gene Name: CTC-425O23.2
UCSC graphic:
Expression:
  Cell Line Tissue Category
GM12878 Blood Cancer/Malignant
SK-N-SH Brain Cancer/Malignant
h1ESC Embryonic Stem Cells Embryonic/Fetal/Stem/Progenitor
HepG2 Liver Cancer/Malignant
A549 Lung Cancer/Malignant

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: treatment: arsenite
Location
Region
Method
Result
Validation Type
Source
19:40275381-40275409
exon
HITS-CLIP
DIRECT
LncBasev2
19:40275131-40275159
exon
HITS-CLIP
DIRECT
LncBasev2
CTD-2228K2.7
hsa-miR-28-5p
0.562
mTTBlnPmP
IP

Gene Details
Chromosome: 5
Transcript: ENST00000534918
Biotype: retained_intron
Gene id: ENSG00000225138
Gene Name: CTD-2228K2.7
UCSC graphic:
Expression:
  Cell Line Tissue Category
K562 Blood Cancer/Malignant
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
MCF7 Mammary Gland Cancer/Malignant
HMEpC Mammary Gland 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: treatment: arsenite
Location
Region
Method
Result
Validation Type
Source
5:478266-478294
exon
HITS-CLIP
DIRECT
LncBasev2
5:478823-478851
exon
HITS-CLIP
DIRECT
LncBasev2
5:478823-478851
exon
HITS-CLIP
DIRECT
LncBasev2
Boudreau RL et al. 2014
Brain
-
IP
Tested Cell Line: -
Category: -
Experimental Condition: -
Location
Region
Method
Result
Validation Type
Source
5:480795-480823
exon
HITS-CLIP
DIRECT
LncBasev2
CTD-2554C21.1
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 19
Transcript: ENST00000587765
Biotype: transcribed_processed_pseudogene
Gene id: ENSG00000267422
Gene Name: CTD-2554C21.1
UCSC graphic:
Expression:
  Cell Line Tissue Category
K562 Blood Cancer/Malignant
HUVEC Blood Vessel Normal/Primary
HeLa Cervix Cancer/Malignant
h1ESC Embryonic Stem Cells Embryonic/Fetal/Stem/Progenitor
HepG2 Liver 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
19:37792073-37792101
exon
HITS-CLIP
DIRECT
LncBasev2
CTD-2587H24.14
hsa-miR-28-5p
0.704
mTTBlnPmP
IP

Gene Details
Chromosome: 19
Transcript: ENST00000586923
Biotype: retained_intron
Gene id: ENSG00000276570
Gene Name: CTD-2587H24.14
UCSC graphic:
Expression: -

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: treatment: arsenite
Location
Region
Method
Result
Validation Type
Source
19:55229604-55229632
exon
HITS-CLIP
DIRECT
LncBasev2
CTD-2619J13.14
hsa-miR-28-5p
0.657
mTTBlnPmP
IP

Gene Details
Chromosome: 19
Transcript: ENST00000593393
Biotype: lincRNA
Gene id: ENSG00000232098
Gene Name: CTD-2619J13.14
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
MCF7 Mammary Gland Cancer/Malignant

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
19:58407000-58407028
exon
HITS-CLIP
DIRECT
LncBasev2
CTD-2622I13.3
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 19
Transcript: ENST00000600056
Biotype: sense_intronic
Gene id: ENSG00000268670
Gene Name: CTD-2622I13.3
UCSC graphic:
Expression:
  Cell Line Tissue Category
hMSC-BM Bone Marrow 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: treatment: arsenite
Location
Region
Method
Result
Validation Type
Source
19:4062709-4062751
exon
HITS-CLIP
DIRECT
LncBasev2
19:4062723-4062751
exon
HITS-CLIP
DIRECT
LncBasev2
CTD-2666L21.3
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 19
Transcript: ENST00000461223
Biotype: processed_pseudogene
Gene id: ENSG00000213293
Gene Name: CTD-2666L21.3
UCSC graphic:
Expression:
  Cell Line Tissue Category
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
Kameswaran V et al. 2014
Pancreas
Beta cells
IP
Tested Cell Line: Beta cells
Category: -
Experimental Condition: -
Location
Region
Method
Result
Validation Type
Source
19:12260508-12260536
exon
HITS-CLIP
DIRECT
LncBasev2
CTD-3099C6.9
hsa-miR-28-5p
0.554
mTTBlnPmP
IP

Gene Details
Chromosome: 19
Transcript: ENST00000598322
Biotype: sense_intronic
Gene id: ENSG00000269825
Gene Name: CTD-3099C6.9
UCSC graphic:
Expression:
  Cell Line Tissue Category
GM12878 Blood Cancer/Malignant
K562 Blood Cancer/Malignant
HUVEC Blood Vessel Normal/Primary
hMSC-BM Bone Marrow Stem/Progenitor
SK-N-SH Brain Cancer/Malignant
HeLa Cervix Cancer/Malignant
HREpiC Kidney Normal/Primary
HepG2 Liver Cancer/Malignant
IMR90 Lung Embryonic/Fetal/Stem/Progenitor
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
Boudreau RL et al. 2014
Brain
-
IP
Tested Cell Line: -
Category: -
Experimental Condition: -
Location
Region
Method
Result
Validation Type
Source
19:52650582-52650610
exon
HITS-CLIP
DIRECT
LncBasev2
DYNLT3P2
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 2
Transcript: ENST00000442517
Biotype: processed_pseudogene
Gene id: ENSG00000229758
Gene Name: DYNLT3P2
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
2:128200070-128200098
exon
HITS-CLIP
DIRECT
LncBasev2
EEF1A1P12
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 2
Transcript: ENST00000443590
Biotype: processed_pseudogene
Gene id: ENSG00000214199
Gene Name: EEF1A1P12
UCSC graphic:
Expression:
  Cell Line Tissue Category
K562 Blood Cancer/Malignant
SK-N-SH Brain Cancer/Malignant
LCLBAC - Normal/Primary
LCLBACD3 - 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
Kameswaran V et al. 2014
Pancreas
Beta cells
IP
Tested Cell Line: Beta cells
Category: -
Experimental Condition: -
Location
Region
Method
Result
Validation Type
Source
2:106698516-106698544
exon
HITS-CLIP
DIRECT
LncBasev2
2:106697473-106697501
exon
HITS-CLIP
DIRECT
LncBasev2
EEF1A1P14
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 1
Transcript: ENST00000421195
Biotype: processed_pseudogene
Gene id: ENSG00000233057
Gene Name: EEF1A1P14
UCSC graphic:
Expression:
  Cell Line Tissue Category
HeLa Cervix Cancer/Malignant
IMR90 Lung Embryonic/Fetal/Stem/Progenitor
LCLBACD3 - 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
1:194189099-194189127
exon
HITS-CLIP
DIRECT
LncBasev2
EEF1A1P3
hsa-miR-28-5p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 13
Transcript: ENST00000417549
Biotype: processed_pseudogene
Gene id: ENSG00000232587
Gene Name: EEF1A1P3
UCSC graphic:
Expression:
  Cell Line Tissue Category
HeLa Cervix Cancer/Malignant
LCLBACD2 - Normal/Primary
LCLBACD1 - Normal/Primary
LCLBACD3 - 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
13:28214646-28214674
exon
HITS-CLIP
DIRECT
LncBasev2
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