ENST00000504263.1
PCAT4, 2091 bp long non-coding RNA, prostate cancer associated transcript.4,upregulated by NKX3.1, functions in the diagnosis or treatment of prostate cancer.
Contents
Annotated Information
Name
PCAT4:prostate cancer associated transcript 4 (non-protein coding)(HGNC nomenclature)
GDEP, "gene differentially expressed in prostate"[1]
PCA4, PCAN1, "prostate cancer gene 1"[2]
Characteristics
The major GDEP transcript is about 520 bp long and its transcript consists of two exons with one large intron (> 15 kb). The GDEP gene was mapped tochromosome 4q21.1.[1]
Function
The prostate specificity of GDEP expression indicates that GDEP may be useful in the diagnosis or treatment of prostate cancer[1].
Regulation
NKX3.1 upregulated PCAN1 gene transcription in LNCaP prostate cancer cells[3]
Diseases
Expression
A high level of expression of PCAN1 in human neural retina and retinoblastoma cells but little to no expression in the RPE, even for very early passage primary cell lines[2]
PCR reactions were performed using 2 µL of the resultant cDNA and the following primers
| PCAN1 372F | 5'-GCGATGTGCTGTGAAATCTA[2] |
| PCAN1 771R | 5'-CTTTCACATTCCCCGTGGT[2] |
| Actin 3F | 5'-GCTGTCAGAGTGGTTATGT[2] |
| Actin 3R | 5'-ACATTGACGTACAGAGAGAG[2] |
Labs working on this lncRNA
- Laboratory of Molecular Biology, Division of Basic Sciences, National Cancer Institute, National Institutes of Health, Bethesda, Maryland 20892-4255, USA.[1]
- Department of Marshfield Clinic Research Foundation, Marshfield, WI, USA.[2]
- Institute of Biochemistry and Molecular Biology, Shandong University School of Medicine, Jinan, 250012, China.[3]
References
- ↑ 1.0 1.1 1.2 1.3 1.4 Olsson P, Bera TK, Essand M, Kumar V, Duray P, Vincent J, et al. GDEP, a new gene differentially expressed in normal prostate and prostate cancer[J]. The Prostate. 2001,48(4):231-41.
- ↑ 2.0 2.1 2.2 2.3 2.4 2.5 2.6 2.7 ross D, Reding DJ, Salzman SA, Zhang KQ, Catalona WJ, Burke J, et al. Expression and initial promoter characterization of PCAN1 in retinal tissue and prostate cell lines[J]. Medical oncology. 2004,21(2):145-53.
- ↑ 3.0 3.1 3.2 Liu W, Zhang P, Chen W, Yu C, Cui F, Kong F, et al. Characterization of two functional NKX3.1 binding sites upstream of the PCAN1 gene that are involved in the positive regulation of PCAN1 gene transcription[J]. BMC molecular biology. 2008,9:45.
Basic Information
| Transcript ID |
ENST00000504263.1 |
| Source |
Gencode19 |
| Same with |
lnc-PRDM8-1:1,PCAT4, GDEP, PCA4, PCAN1 |
| Classification |
intergenic |
| Length |
2091 nt |
| Genomic location |
chr4+:80748625..80784401 |
| Exon number |
2 |
| Exons |
80748625..80748757,80782444..80784401 |
| Genome context |
|
| Sequence |
000001 AAAGTGAGAG AGGGAGGCAG AAGAGGAAGT CAGAGCGATG TGCTGTGAAA TCTACTACCG TTTGCTGGTT TTGAAAATGG 000080
000081 AGAAAAAGAG TGAGGAACTG AGAAACATGG ATGGCCTTGG GAACGTGGAA AAGGGTCACT GAAATGGGAC GACATGAACT 000160 000161 CAAGGAGGCT ATTTATGACC ATGTCATTTG CAACATGAAG AAAGCTTATC TGGAGTGAAA GTAAATGAGA CCAACAGAGA 000240 000241 TGAGAGACCC GGAGAAATCC TGGTTACACT GCTTGAATCC TGTCAGTCCT ATACTGGAGT CCTGTTAATA CAAAATAATA 000320 000321 GTAATAATCC CTCTGTTTCT TATGTTTATG CCAACTTCAA CAAAAAGAAA CTTGACTAAG AGACAATATA AGAATTTAAT 000400 000401 GTGTAATTAA GAAAGAACTC TCCACCACGG GGAATGTGAA AGGTATATGA GTCCCTTTTC ACGATGCGAT GTCATGTCTT 000480 000481 TTAAATAAGC CATACTTTAT GTTCAATAAA AAGAGAATAA GCAGGATTCG CAAGAGAACA CAATCCCTTT TTAACTGCTG 000560 000561 GGAAGATACT TTTAGTCATT AATGACTGGA CGACAATTTG GGACACATAT ATGGATATTG GCCGGTTTGT GATGATGTGA 000640 000641 TTGGGCCTCT AAGTGACAAC ATTGTTCCCT GTATAGAGTG AGTGGCAAGT GCATTTATAA AATTGGCCAT CATGGCTGTT 000720 000721 AAATTTATGA GTCTAGAAGT GTGCCTCTCA AACAAGTATT TGAGAGGTTA TCATGAAGAA AAACAAAATT AAAATTATTC 000800 000801 TGCTGAGCTC TCAAAGGCAG AACTATTGAA TCAAAATTAT AGGAAGGAAG GTTCAAACCA ACAATAAGAA TGCCTCTCTT 000880 000881 GCATTCCTCA TCACTAGAAG TTTCTGATAA GATTTTTAGA AAAATTTAGA CAGTATTCTT GAATTGAGCA GGGGGATAAC 000960 000961 ACAGAGATAA TTCAAATGTG GTTTGATGAA CTTCTAAAAT GGTTCCAACT ATAAACTTCA ATTATTCTAG CCTCCAAGAC 001040 001041 CTACACATAA CTGTGCAATG TGCAAATTAT TCAATAGTAA CATAGAATTC TGAATAATTA GCATTTTCTC ATGGTTTGAT 001120 001121 ATTTGTATAA AGCAATCTTA GCAGTCTGAA TAACTAGAAT ACTTCAAAGC AATATGTTTT ATTGCTTTAT ATTTAAAGAA 001200 001201 ACCATGTCAG ACATTTAAAA TGAATGGCTG CTATCAGGAA AATGGATCTC AAGACACAAG AAATAAATCA CAATGACTTC 001280 001281 CTTATTTGTG GAAATTCTTC TTGTACTAGA AAGGAAAAGT AGAAGTATGG GAAAATGTCT TCCAGAAAAT TACATTTTCC 001360 001361 CAAAGTTTAT TTTAAATTTT AATAATTTAA TCAACCATCT GATTCTGATT TCAAGTGTCA CAGAAGTTCA TTTTATTATA 001440 001441 AACAACAACA AAAAAACTTT GTAGTCTTGT AAACACTGGT GACAGAGAAT AACACCACTA ACCATGCTGA GCAGAAAACA 001520 001521 GGAGCCAAGT AAGGGAAAAA GATTCTTTAT GTCACTCATC AATTTAAAAG TGTTTTTCAC CCCAGGACCA TCCTGAAGCC 001600 001601 AAAACTGGGG AAACATTTAC TACTTTTACA AACAAAAATT TATATTCCAT CCCTTGCATG ATGTGTGTGT CTCCGACATT 001680 001681 TGGTTTCTGT CTTAAGTGTC TAAAGAAAGG CCTTATTTAG AGCAAAATAC ATTTTTGTGG GCATTGATGT GAATTTCAGG 001760 001761 TCTGGGTTAT CAATGACCTA AATTGAGAAA ATAGAGGGGC TGTGTGGACA AGGAGAGAGA AGAGAGCATA CAGCTGCCCT 001840 001841 ATGCCGTTGC TCTGTTCACA GTAAGGATTG AGCCATTCTA ATCCCCTTGG ATTTTTTATC TACCAAAACA GCTTGGGCCC 001920 001921 ATCAGCAAAT TGCAGTGGCA TATGGTCCAG GTTTACGAGT AATCTGGCAC ATGATTAAGG CAAGGGGGAT GTCATCTTTC 002000 002001 AGCAAATACT GAAAATATTG TAGAAGAATT TGGTAGAGTT TTTAAATTCA AACTGATAAA ATTGTAACTA TTAAATACTT 002080 002081 CCCCAAATCA A |
