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-124-3p


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Go to Predicted module
Filters
Gene
miRNA
Pr. score
DIANA Links
Methods
C5orf64
hsa-miR-124-3p
0.565
mTTBlnPmP
IP

Gene Details
Chromosome: 5
Transcript: ENST00000505642
Biotype: lincRNA
Gene id: ENSG00000178722
Gene Name: C5orf64
UCSC graphic:
Expression: -

miRNA Details
Name: hsa-miR-124-3p
Sequence: uaaggcacgcggugaaugcc
MirBase ID: MIMAT0000422
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
5:61705878-61705906
exon
HITS-CLIP
DIRECT
LncBasev2
CASC7
hsa-miR-124-3p
0.835
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-124-3p
Sequence: uaaggcacgcggugaaugcc
MirBase ID: MIMAT0000422
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
8:140529112-140529140
exon
HITS-CLIP
DIRECT
LncBasev2
8:140522176-140522204
exon
HITS-CLIP
DIRECT
LncBasev2
8:140524621-140524649
exon
HITS-CLIP
DIRECT
LncBasev2
CEBPZ-AS1
hsa-miR-124-3p
0.533
mTTBlnPmP
IP

Gene Details
Chromosome: 2
Transcript: NR_037879.1
Biotype: sense
Gene id: NR_037879.1 (gene)
Gene Name: CEBPZ-AS1
UCSC graphic: -
Expression:
  Cell Line Tissue Category
K562 Blood Cancer/Malignant
GM12878 Blood Cancer/Malignant
HeLa Cervix Cancer/Malignant
HepG2 Liver Cancer/Malignant
A549 Lung Cancer/Malignant
MCF7 Mammary Gland Cancer/Malignant
LCLBACD1 - Normal/Primary

miRNA Details
Name: hsa-miR-124-3p
Sequence: uaaggcacgcggugaaugcc
MirBase ID: MIMAT0000422
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
2:37202920-37202948
exon
HITS-CLIP
DIRECT
LncBasev2
CLUHP3
hsa-miR-124-3p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 16
Transcript: ENST00000562354
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-124-3p
Sequence: uaaggcacgcggugaaugcc
MirBase ID: MIMAT0000422
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
16:31709837-31709865
exon
HITS-CLIP
DIRECT
LncBasev2
CNOT6LP1
hsa-miR-124-3p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 15
Transcript: ENST00000559681
Biotype: processed_pseudogene
Gene id: ENSG00000230183
Gene Name: CNOT6LP1
UCSC graphic:
Expression: -

miRNA Details
Name: hsa-miR-124-3p
Sequence: uaaggcacgcggugaaugcc
MirBase ID: MIMAT0000422
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
15:56005948-56005976
exon
HITS-CLIP
DIRECT
LncBasev2
15:56006045-56006073
exon
HITS-CLIP
DIRECT
LncBasev2
COPS5P1
hsa-miR-124-3p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 6
Transcript: ENST00000415778
Biotype: processed_pseudogene
Gene id: ENSG00000213187
Gene Name: COPS5P1
UCSC graphic:
Expression: -

miRNA Details
Name: hsa-miR-124-3p
Sequence: uaaggcacgcggugaaugcc
MirBase ID: MIMAT0000422
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
6:93092211-93092239
exon
HITS-CLIP
DIRECT
LncBasev2
CRHR1-IT1
hsa-miR-124-3p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 17
Transcript: ENST00000455565
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-124-3p
Sequence: uaaggcacgcggugaaugcc
MirBase ID: MIMAT0000422
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
17:45636522-45636550
exon
HITS-CLIP
DIRECT
LncBasev2
17:45636443-45636471
exon
HITS-CLIP
DIRECT
LncBasev2
CROCCP3
hsa-miR-124-3p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 1
Transcript: ENST00000263511
Biotype: processed_transcript
Gene id: ENSG00000080947
Gene Name: CROCCP3
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
HepG2 Liver Cancer/Malignant
IMR90 Lung Embryonic/Fetal/Stem/Progenitor
A549 Lung Cancer/Malignant
MCF7 Mammary Gland Cancer/Malignant
LCLBAC - Normal/Primary
LCLBACD1 - Normal/Primary

miRNA Details
Name: hsa-miR-124-3p
Sequence: uaaggcacgcggugaaugcc
MirBase ID: MIMAT0000422
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
1:16492103-16492131
exon
HITS-CLIP
DIRECT
LncBasev2
CTA-280A3.2
hsa-miR-124-3p
0.755
mTTBlnPmP
IP

Gene Details
Chromosome: 22
Transcript: ENST00000623760
Biotype: lincRNA
Gene id: ENSG00000279712
Gene Name: CTA-280A3.2
UCSC graphic:
Expression: -

miRNA Details
Name: hsa-miR-124-3p
Sequence: uaaggcacgcggugaaugcc
MirBase ID: MIMAT0000422
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
22:47924008-47924036
exon
HITS-CLIP
DIRECT
LncBasev2
CTA-941F9.10
hsa-miR-124-3p
0.737
mTTBlnPmP
IP

Gene Details
Chromosome: 22
Transcript: ENST00000623075
Biotype: sense_overlapping
Gene id: ENSG00000280383
Gene Name: CTA-941F9.10
UCSC graphic:
Expression: -

miRNA Details
Name: hsa-miR-124-3p
Sequence: uaaggcacgcggugaaugcc
MirBase ID: MIMAT0000422
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
22:45677647-45677675
exon
HITS-CLIP
DIRECT
LncBasev2
CTB-50E14.5
hsa-miR-124-3p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 19
Transcript: ENST00000600255
Biotype: processed_pseudogene
Gene id: ENSG00000269374
Gene Name: CTB-50E14.5
UCSC graphic:
Expression:
  Cell Line Tissue Category
K562 Blood Cancer/Malignant
SK-N-SH Brain Cancer/Malignant
HeLa Cervix Cancer/Malignant
HepG2 Liver Cancer/Malignant
A549 Lung Cancer/Malignant
LCLBACD1 - Normal/Primary

miRNA Details
Name: hsa-miR-124-3p
Sequence: uaaggcacgcggugaaugcc
MirBase ID: MIMAT0000422
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
19:42485430-42485458
exon
HITS-CLIP
DIRECT
LncBasev2
CTB-52I2.4
hsa-miR-124-3p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 19
Transcript: ENST00000621646
Biotype: processed_transcript
Gene id: ENSG00000273654
Gene Name: CTB-52I2.4
UCSC graphic:
Expression: -

miRNA Details
Name: hsa-miR-124-3p
Sequence: uaaggcacgcggugaaugcc
MirBase ID: MIMAT0000422
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
19:18031046-18031074
exon
HITS-CLIP
DIRECT
LncBasev2
CTC-205M6.5
hsa-miR-124-3p
0.360
mTTBlnPmP
IP

Gene Details
Chromosome: 5
Transcript: ENST00000562870
Biotype: sense_overlapping
Gene id: ENSG00000260841
Gene Name: CTC-205M6.5
UCSC graphic:
Expression:
  Cell Line Tissue Category
SK-N-SH Brain Cancer/Malignant

miRNA Details
Name: hsa-miR-124-3p
Sequence: uaaggcacgcggugaaugcc
MirBase ID: MIMAT0000422
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
5:180785951-180785979
exon
HITS-CLIP
DIRECT
LncBasev2
CTC-273B12.8
hsa-miR-124-3p
0.464
mTTBlnPmP
IP

Gene Details
Chromosome: 19
Transcript: ENST00000427476
Biotype: lincRNA
Gene id: ENSG00000269751
Gene Name: CTC-273B12.8
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
HepG2 Liver Cancer/Malignant
IMR90 Lung Embryonic/Fetal/Stem/Progenitor
A549 Lung Cancer/Malignant
MCF7 Mammary Gland Cancer/Malignant

miRNA Details
Name: hsa-miR-124-3p
Sequence: uaaggcacgcggugaaugcc
MirBase ID: MIMAT0000422
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
19:48479882-48479910
exon
HITS-CLIP
DIRECT
LncBasev2
CTC-444N24.11
hsa-miR-124-3p
0.549
mTTBlnPmP
IP

Gene Details
Chromosome: 19
Transcript: ENST00000593427
Biotype: lincRNA
Gene id: ENSG00000268205
Gene Name: CTC-444N24.11
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
LCLBACD1 - Normal/Primary
LCLBACD2 - Normal/Primary
LCLBACD3 - Normal/Primary
LCLBAC - Normal/Primary

miRNA Details
Name: hsa-miR-124-3p
Sequence: uaaggcacgcggugaaugcc
MirBase ID: MIMAT0000422
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
19:57306297-57306325
exon
HITS-CLIP
DIRECT
LncBasev2
CTC-451P13.1
hsa-miR-124-3p
-
mTTBlnPmP
IP

Gene Details
Chromosome: 5
Transcript: ENST00000474167
Biotype: processed_pseudogene
Gene id: ENSG00000213757
Gene Name: CTC-451P13.1
UCSC graphic:
Expression: -

miRNA Details
Name: hsa-miR-124-3p
Sequence: uaaggcacgcggugaaugcc
MirBase ID: MIMAT0000422
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
5:79284380-79284408
exon
HITS-CLIP
DIRECT
LncBasev2
CTC-552D5.1
hsa-miR-124-3p
0.554
mTTBlnPmP
IP

Gene Details
Chromosome: 5
Transcript: ENST00000514240
Biotype: lincRNA
Gene id: ENSG00000251293
Gene Name: CTC-552D5.1
UCSC graphic:
Expression: -

miRNA Details
Name: hsa-miR-124-3p
Sequence: uaaggcacgcggugaaugcc
MirBase ID: MIMAT0000422
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
5:120333324-120333352
exon
HITS-CLIP
DIRECT
LncBasev2
CTD-2012K14.6
hsa-miR-124-3p
0.802
mTTBlnPmP
IP

Gene Details
Chromosome: 16
Transcript: ENST00000565929
Biotype: lincRNA
Gene id: ENSG00000261386
Gene Name: CTD-2012K14.6
UCSC graphic:
Expression:
  Cell Line Tissue Category
GM12878 Blood Cancer/Malignant
HeLa Cervix Cancer/Malignant
LCLBACD3 - Normal/Primary

miRNA Details
Name: hsa-miR-124-3p
Sequence: uaaggcacgcggugaaugcc
MirBase ID: MIMAT0000422
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
16:67549378-67549406
exon
HITS-CLIP
DIRECT
LncBasev2
CTD-2228K2.7
hsa-miR-124-3p
0.384
mTTBlnPmP
IP

Gene Details
Chromosome: 5
Transcript: ENST00000606319
Biotype: antisense
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-124-3p
Sequence: uaaggcacgcggugaaugcc
MirBase ID: MIMAT0000422
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
5:476172-476200
exon
HITS-CLIP
DIRECT
LncBasev2
5:476172-476200
exon
HITS-CLIP
DIRECT
LncBasev2
CTD-2228K2.7
hsa-miR-124-3p
0.433
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-124-3p
Sequence: uaaggcacgcggugaaugcc
MirBase ID: MIMAT0000422
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
5:478891-478919
exon
HITS-CLIP
DIRECT
LncBasev2
5:479165-479193
exon
HITS-CLIP
DIRECT
LncBasev2
5:479165-479193
exon
HITS-CLIP
DIRECT
LncBasev2
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