Lnc-PDZD8-3:1
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Contents
Annotated Information
Name
Emx2os: Emx2 opposite strand transcript.
Characteristics
5 kb. Spliced, bi-directional to Emx2, with a 271 nucleotide head-to-head antisense overlap. Riboprobe Northern blot indicates the existence of three additional Emx2os splicing isoforms differentially detected in the murine urogenital system, with sizes of 6.0, 2,3 and 1,8 kb, which are supported by cDNA evidence (Noonan (2003)).
Function
EMX2OS is suggested to regulate EMX2 expression (Noonan (2003)), which may involve distinct regulatory mechanisms in different cell types (Spigoni (2010)). In vitro knock-down experiments indicate that Emx2os contributes to post-transcriptional down-regulation of its sense partner in cortical precursors and their neuronal progenies, possibly by a Dicer1-dependent process (Spigoni (2010)). However, ectopic expression of a 5' fragment (OS1-179+) of Emx2os in neural precursors of the rhombo-spinal tract stimulates expression of Emx2, indicating a complex regulatory mechanism, perhaps at transcriptional level. In addition, Emx2 knock-out results in a strong reduction of Emx2os transcript levels, indicating a possible reciprocal regulatory loop (Spigoni (2010)).
Expression
EMX2 and EMX2OS and their murine orthologs have similar profiles and extensively coincident cellular expression patterns in the endometrium. Expressed in the uterus, abundant in normal postmenopausal endometrium, reduced in premenopausal endometrium (Noonan (2003)). Emx2os is expressed in the developing mouse CNS. Examination of expression at E10.5, E12.5, E14.5 and E18.5 showed, similar to Emx2, that its levels reduce progressively from E10.5 to E18.5. At E12.5, it is detected in a number of CNS structures also expressing Emx2 mRNA, such as the pallium and basal ganglia, mammillary recess of the hypothalamus, optic tectum, olfactory placode and otic vesicle. Emx2os is found in the developing telencephalon in periventricular proliferative layers and the cortical plate (Spigoni (2010)). However, the sense/antisense pair may also show mutually exclusive patterns, such as within the cortex. Emx2os is detected in periventricular precursors that also express Emx2, but peaks in newly born post-mitotic neurons, which do not express Emx2, whereas Emx2 is expressed Cajal-Retzius neurons lying in the marginal zone, which do not express the antisense RNA (Spigoni (2010)). In human brain, expression has been detected in normal nucleus accumbens (Michelhaugh (2010)).
Conservation
Association of Emx2os and Emx2 is conserved between mouse and humans, but no sequence conservation was found (Noonan (2003)).
Misc
EMX2OS lies in the minimal interval with allelic loss in endometrial tumors and is a candidate endometrial cancer tumor suppressor (Noonan (2003)).
Transcriptomic Nomeclature
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Regulation
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Allelic Information and Variation
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Evolution
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Labs working on this lncRNA
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References
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Basic Information
| Transcript ID |
lnc-PDZD8-3:1 |
| Source |
LNCipedia2.1 |
| Same with |
NONHSAT016525 |
| Classification |
intergenic |
| Length |
7282 nt |
| Genomic location |
chr10-:119243804..119304579 |
| Exon number |
4 |
| Exons |
119243804..119250422,119251532..119251620,119303817..119303887,119304077..119304579 |
| Genome context |
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| Sequence |
000001 GTGCTTGGCT ACAGCCGCTG CTGCCTCTCG CGAACTGGGC TCCGGGGCTC CCGGCTCCCG AGAACTAGAA GAGAAACGCG 000080 000081 AGCGAAGGGA TCGAAACCCG GGGGGTTACC GACTTGCAGA CACCGCCAGG ACAGTCTGTA ACGCAGGAAG ATCCCAGCGG 000160 000161 CTCCGGGTCT GGTGAGGGGA CCATAAGCAT GACTGATAGC GAATGAGGAA GGGCAGCCCT AAACTTTTCA AGCAAAGCCT 000240 000241 CAGAGTTTTG GGTTCACTCA TTAGCATAGG AAATCGATTC ACCGAAAACC CAAACAAAGA AAAACAAGCC GACAGTCCAG 000320 000321 GCAGGATGCA GGCAAATCCA GTTCGGGATT AAGGGTAAAA GGCTTTTTGG GTTTTTTTTC CTTTGGTTTG ATTTTTTAAA 000400 000401 ATATGGGGAG GGGGGTGACA TCTACCCGAT TCTAGGCTCC GGCAGGAACG CAATGGGTTA ATGAATGGAC AAGCCGCGGA 000480 000481 GTATTGATCG GCTGCCGCCG GAGAAAGAAA GAAAAACAAA AACCAGACCG AACCTGCCTT CCCGCTGTGG CTGCTCGGCG 000560 000561 CCCCAATTAA GCAGGGTCAT CTCAGGCTGG CTGCATGCCT CAGCTGAAGA TCCCAGCTCC TGTCAATGCC ACCTCTCTGC 000640 000641 TTGACTGTCT CCTTCCAGAT TCGAGCAGGT ATGAGCTGGG AAGAATGAAG GCAGGGCATG CCCGTGTGCC AGCTCTGCAC 000720 000721 AGCTGGATAG CTGAGGAAAG ATGTGGAGGA GAAGCCGGGG ATTGTGTGGA AGTCTAAGGG TGTTGTTTGC CCTTTGGGTT 000800 000801 CCAGAAGATG CATGCCAGGA CCCTGGGTGG CACTGCCAGG AAGCAACAGA GAGGAGATAA AACTCACAGC AGACAGACTT 000880 000881 GCCTTAACAA CAACTCCCTT GAATTAAAAC ACGCTTTTCA AGAAAACAAA TTATCAGTTC GATCAGCAAA CAGCAGAGAA 000960 000961 GTTTCTCTCA TAATGGCAAA GAAGGGCCGG GTTGCTGACC AGTGAAAGAG CTTCAGAAAA GGAGAGGGGA GATGAGATGG 001040 001041 CCAGAAGGAG CAAGAGCACC GTACATCCCT GGACAACCTC ATTCTAATGG GTCAGGGGCT GGGACGTGCA TTTTGGAGTG 001120 001121 CAGGAGAAGT GGCAACTCAC AAATGCTAGA TTTTCTTCTA GAGATGACCA AGCTGTAGTT CTTAAAGCAG TGGCACTAGG 001200 001201 GCAGAAAACT CTCACACTTT GATGTGCACA CACAGCCCCT GGGGATCTTG TTGACATGTA GATTCTGATT CCGTAAGTCG 001280 001281 GGCTGAGATT CTGCATTTCC AACAAGCTCC TAGATGAGGT CCATTTTGCT GGTCCATGAA ACACACTTAG AATAAGTAGC 001360 001361 AAGGTATAGG AGGATACTGA CTTTGCTCAG TGATGCTTGG GCTTCCGTCC AAACTAAAAT AAAACAAAAG CAGACATAAA 001440 001441 TGGCCCAATT CAACAGCCTG AGAAGTTTGG TGATAATGAC CCAAGCCCTG GCCTGGTGAC CAAGTGGCTG CTCAGAGAGC 001520 001521 TCTATCTCCA AACTCCTTCC CTTCCTGCCT CCCCTCCAAG AGTGAGTAAT GTGCCAGAGT TCATTGGGGT CTGCTGTCCC 001600 001601 CAGGGAAAGG TGGCCCAGTT GCCAAGTGCA AGTGTATAGA ACGGCTTACC TGTGCAAAGC TATCAGCCCT GGACCTATGG 001680 001681 GCCTAGAAAC ATTACTTGCC ACTCACTCAC TCACTATCAT TCATTCATTT CTGCAACAAA CACTTCCTGA GCATATGCTA 001760 001761 TACACCAGGC CCTGAGCTCA GCTCTGGGGA TACAGGATGA ATGGCAGATT GTGCCATCAG GAAGCCGACT GCACAGTCAG 001840 001841 CCCGCTGGAG CACATATGAA AAACAATACG GATGTTTTGA TTTATTATCA TATTGATCAT TATGATGGTA GCGTATACTT 001920 001921 TTGGAAGGCT TGCCATACAT TAGGCATTGT GCTAAGCACA TTATATGGTT AATCTCATCA ATCTTCACAA CCTATGTGGC 002000 002001 AGGTACTATT ATTAAACCCA CTTCAAAGAG GAGGGAACTG AACCTCAGAG AGGGTAAGTG ACTTGCACAA GGACACAAGC 002080 002081 TAGTGAGGAG AGGAACTGAG AGGAATGGCC AGACAGGCCA TCAGCCTCTG TCCCCACATG CTGGGTCTGA GTGTCTGACG 002160 002161 GTGGACACAT TCCCTTCCTG GAGGGAGAGC TCCTAGGGAG CTGATGGCAG CACTGAGTCT GGAATGTGAT GGGAGTGCAT 002240 002241 TAGATGACGT GGGTGATCTG ATGAGTACAG AGGCGTCACA CTGCAATGAC TTCATGCACA TATCTCCCCT TGAATGCACA 002320 002321 GAGATTCAGC AGAGGCCAGG AGCTCAAGTT TCTGGCCCAG TGTCCCCCTC TTCCCCTGGG GAAAGCCAGG GACACACTGC 002400 002401 CTGGCTTTGC TACACCTTTC TAGGCAAAGG CAGTATGCTC TCCCTCTCCT TGGCCTCCCT GGCTGTCCAC ACATCCACAC 002480 002481 CCACTCACAC ACACATGCAC ATGATCATAC ACATTACACA AGCCCACATG CCCACAGACA TGCTCACACT CACACTCACA 002560 002561 TGCATACACT GCCATACACA ACACACATAC ATACATTCAC ACACACTTGC ACACACACAC ACACACACAG TTCTGATGGC 002640 002641 CAATCTTTTG GGGCTATGTT GACACTGTGA AGCAGGTGAA ACAAAGTCTT TGCCACTCCC TGCTTTGGGC CTATTATGTT 002720 002721 TGTTTTATAG TTTAACTCTC AAAAGACAAC TTTATTTTCC AAAATTATTC AGGTTCCCAG CCAGGTGCAG TGGCTCACAC 002800 002801 CTGTAATCCC AGTACTTTGG GAGGCCAAGG CGGGCAGATC ACCTGAGGTC AGGAGTTTGA GACCAGCTTG GCCAACATGG 002880 002881 TGAAACCCAG TCTCTACTAA AAATACAAAA ATTAGCCAGA CATGGTGGCA CACACATGTA ATCCCAGCTA TTCGGGAGGC 002960 002961 TGAGGCAGGA GAATCGCTTG AACCCGGGAG GCGGAGGTTG CAGTGGGCCA AGATCGTGCC ACTGCACTCC AGCCTGGGCA 003040 003041 ACAGAGCAAG ACTCCATCTC AAAAAACAAA AACAAAATCA TTCAGGTTCT GTAGGGGACC CTCACTGTGT CCTGGATTCC 003120 003121 ATTCCACTTT TAAAGTCCCA AACAGCTTGT ATGGCCACTT CCCTTGACAC CCAAACCAGA TAGGAGTCTT AAATGACACA 003200 003201 GAGTATTGAT GGTTTCTTTA AAAGGAAATC CACTCTCAAT GGGAAGCTGG ATAACTTCGC ATCCAGATTT CATCCATCTT 003280 003281 GGGCTTTGGT GGCTGCTGTT TGTTTTTGTG CAGGAGAATC TCTCCCAGCC AACGTCGATT TCACTAACAC AGTGGTTAAC 003360 003361 CTTTGCTCTC TACTCCTGCA TCAATCTTCC GCCTACCGCA TGTTGAGCCA TGCTGCTTTC TGGCATTCCT TTTGGATTTT 003440 003441 CAGTTTACTA CCCAACTACC AGTCCTAATA ACATCAGATA AAAGGGCTTC CGCTGTGCTG CACTTGTTTT CAAAAACTAT 003520 003521 AAATGCCATC GACCCAGAGT TAAGTCCAGC CTCAGAGAGA CAGAATATAA ATACCCAAGT GGCCCTGGGC CACTGAGTTC 003600 003601 CTCAGACATT ATGTGCTATG GGAGTTCCAG AAAGGGGGAT TGCCTGGTTT TGAGTGCAGA AGGCTTCCTG GAGGAGGCGA 003680 003681 GATTTCTGAT GGGCCTCTGT TATGAGCTAA ATTGAGTCCA CCCCAAAATT CAGATGTTCA AATCCTAACC TGTAGTACCT 003760 003761 AAGCATGTGG CCTTATTTGG AAGCAGAAGC ATAACAGAGG TAATTCGTTA AGATGAGGTC ACAGTGGAAG AGGGTGGACC 003840 003841 CCAATCTGAT ACAACTCGTG TCCTTATAAA AAGCAGAAAT TTGAAGACAG ACACACAAGA AGATGAAGGC AGAGACCTGG 003920 003921 CTGATGCGGC TATAAGCCAA GGAACGCCAA AGATTGCCAG CAAAGCACCA GCAGCCAGGG AGAGGCCTCG AACAAATTCT 004000 004001 CCCTCCCAGC AAAAAGGAGG AAGGAAGGAA CCTCCAAAAG AAGCAGGCCA GGCACAGTGG CTCACGCCTG TAATCCCAGT 004080 004081 ACTTTGGGAG GTTAAGGCAG GCGGATCACC TGAGATCAAG AGTTCAAGAC CAGCCTGGCC AACATGGTGA AACCTCATCT 004160 004161 CTACAGAAAA ATACAAAAAT TAGTCAGGTG TAGTGGCGTG CACCTGTAGT CCCAGTTACT CGGGAGGCTG AGGCAAGAGA 004240 004241 ATCGCTTGAA CCTGGGAGGT GGAGGTTGCA GTGAGCCAAG ATCGTGCCAT TGCACTCCAG CCTGGGTGAC AGAGCGAGAC 004320 004321 TCCATCTCAG AAAAACAAAA AAGAACCCTA CTGACACCTG GATTTCAGAC TTCCAGCCTC CAGAACTGTG AGATGTTACA 004400 004401 TTTCTGTCAT TTAAACACCC AGTTTGTAGT ACTTTGTTGC AACAGCTCTA GTGAGCTAAT ACAGCCTTGT AGGACAGGTA 004480 004481 GGAATTTGTA ATGCACAGAG AAAGCCAACT GGCCACAGTT GTTGAAAATA ATAGAATCGA AGCGCCCCTA TCACTACCAC 004560 004561 CCCAGGCCAT CACTTTCAAA GCTGTTCAAA ATGATGCAGC CGCGTGAGAA GGCCGGAAGG CCAGGGCGGG AGATGGGCTC 004640 004641 CAGGTGGGCC CAGGCTGCCT GCAGAACCAG CTTGCCTCAC TGCCTGGTTG CCAAGGAGCA CCTGTGGCTA GGAGGAGATG 004720 004721 CCCAGGAAGA AAATTTGGCC ACATCCCTGC CTGCCTCCCT GGCAATGGGT GATGCTCTCT GCCAGCTGGC CCAGCTCCCC 004800 004801 CACCACATAC CTGGCTAGGA GTCAGTAGGA AAACAGTGTG TGTTTGTAGG GCTCTGCACT GAAGGGCATT AGATCCATGC 004880 004881 AAAGGCTAAT AAATTAGAGA TAAGTGGGAT TTGTAGATTT GCTGGAGGTT AGAGCTGCAG GGTCTGGCAT CAGCTCTGGG 004960 004961 TCTTTTCCAT GGCCCCAGGC TGGCTCAGGT GTGAGCTGAA GAGGCAAAAC TGTCTGTTTA GGTTGCATTG GGTTCCCCTG 005040 005041 AAAGATCTGT TGAAGTCCTA ACCTCGGGTA CCTCTGTTTG TGCTATTTGC AAACAGGCTC TTTGCAGATG TAATCAAGGA 005120 005121 AAGATGAGGC AACGCTGATT TAGTCAGGCC TTAATCCAGT GACTGGTGTC TTCATAAGAC AAGGAAATCT GGACACAGAC 005200 005201 ACACAAAGAG GAAAAAGCCA AAGACACAGA GACACATGTA CACAGGGAGA ACTCCATGGG ACAACGCAGG CACAGATCGG 005280 005281 AGTGACGCGG CTGCAAGCCA AGGAGCGCCA AGATTGCCAG CAACCCCCTG GGGCTGCAAG AGGTGAGAAG GAGCCTTCGG 005360 005361 AGGGAACATG CACTGCTGAT TCCTTGATTC CAGATTTCTG ACCTCCAGAA GCATGGGAGA ACAGATTTCC CTTGTTTGAA 005440 005441 GGCACCCAGT CTGTGGTCCT TCATCATGGC AGCCCTCAGG AATGGATACA GGCCCTTCCC TGCCTGCCTG GTGGAGCAGC 005520 005521 CTCCAAGGGG AGCCTTTGCT AGCAGGAAGA GGCATCGCAT GGAGCTCAGA CCCGCCTCAG AGGAACTTCT CTCAGCCTCC 005600 005601 TCTCTCCGCA CACCCGACCA AGGTGTGAAA TCCCTCCCCT TTACCTCTGC CACTTGCAGG TGGCAGGATG CTGGAGCTGT 005680 005681 CCCTGCCTCT TTGTAAAGTG AGGGAAGGGC AGCCCTCTCT GCTCTTTTTT TTTTTTTTTT TGAGACAGAG TCTCACTCTG 005760 005761 TCTCCCAGGC TGGAGTGCAA TAGCACGATC TCGGCTCACT GCAACCTCCG CCTCCCAGGT TCAAGCGATT CTCCTGCCTC 005840 005841 AACCTCCTGA GTAGCTGGAA TTACAGGTGC CTGCCACCAC GCCCAGCTAA TTTTGTATTG TTAGTAGAGC CAGGGTTTCA 005920 005921 CCATGTCGGC CAGGCTAGTC TCAAACTCCT GACCTCAGGT GATCCACCTG CCTCGGCCTC CCAAAGTGCT GCGATTACAG 006000 006001 ACATGAGCCA CCACGCCCGG CCTGCTCCAC TTCTAAGGCT TCTTGTGACA ATGTAAGAGA AAGGAGATGA CAGAGCTTTG 006080 006081 CAACGGGAGG AGGGCTATGT GTTCTGGTGA CCAATTCACT GTCTTGTGTC GGGACAGGAA GAAGCCCTTC ATACGGGCAG 006160 006161 CAGGCTGGGA GCCAGGGAGG AGGAAAGATC ACGATCCACT CCCTGGTACA TGGCCCTTCT GCACCCCGCA GTCTCCTTCC 006240 006241 AGGTGCCACA ACGAGAAGGC ACACATCCTT GGCACAGCAC TTGAGGCTTT TCACCACTGG CTGCACTCAC CCCTCCAGAC 006320 006321 TCACTGCCTT GCACCAACCC TTTTCCGCCC ACCCCACTCT ATGCTGTCCA CAGCCTCCAC CCCAGCCACC TGATTCTGCA 006400 006401 GGCCAATGTC ACATTCTTCC AGTCCAGGTT CTATTCTGGC ATTTCTTGTC ATTATTTTGC TGAGAATGTG TCTCTCTTGA 006480 006481 CTTTGAACTT ATTGAGAGCA GGAATCATGA CTCAGCCATA TATCCCAGCA CTTGGCCCAG GGCCTGTCGT TTCCAGGGTA 006560 006561 GGTGGTCTAG GCTGATTGAA GGAATGGCAT TTAGTCTTTA AAATGAAAGC ATGTTGCCTA GCTTGGTTAT TTTTGAACTC 006640 006641 TATAATCAAG GACTACGTTT ACCTGAATAG CCTCTGCAGA ACACCAATTC C |