ENST00000538665.1

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Annotated Information

Name

IFNG-AS1:IFNG antisense RNA 1

Tmevpg1: Theiler's murine encephalomyelitis virus persistence candidate gene 1

Characteristics

Found within the Tmevpg3 genetic locus which controls Theiler's virus persistance/ load (Vigneau (2001)). Promoter contains binding sites for E2A and the Ets family of transcription factors. Suggesting regulation by transcription factors involved in the immune system (Vigneau (2001)). Spliced with 5 or 6 exons depending on isoform/ species (Vigneau (2001)).

Function

It has been speculated there may be a regulatory regulationship between Tmevpg1 and Ifng to explain their reciprocal expression (Vigneau (2003)).

Expression

In resistant mice Tmevpg1 is constitutively expressed in CD4+ and CD8+immune cells in the spleen and thymus and upon infection, by immune cells infiltrating into the CNS, however no Tmevpg1 expression was seen in susceptible mice (Vigneau (2001), Vigneau (2003)). Found in peripheral blood lymphocytes in humans with expression in NK+ cells, CD4+ and CD8+ T-lymphocytes (Vigneau (2001), Vigneau (2003)). In both mouse and humans Tmevpg1 was down-regulated upon immune cell activation with a reciprocal up-regulation in interferon gamma (Ifng) expression (Vigneau (2003)).

Conservation

Present in mouse and human. Sequence conservation is limited to the promoter, first exons and its splice site, otherwise the transcripts are poorly conserved and can contain repeat elements (Vigneau (2001)).

Misc

The Tmevpg3 genetic locus was found to control persistence of Theiler's virus in the central nervous system, along with the H-2D gene, this QTL locus was found to be near but exclude the interferon gamma (Ifng) gene (Bihl (1999)).

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

Annotation originally sourced from lncRNAdb.

Basic Information

Transcript ID

ENST00000538665.1

Source

Gencode19

Same with

lnc-DYRK2-4:1

Classification

intergenic

Length

1791 nt

Genomic location

chr12+:68383225..68415107

Exon number

4

Exons

68383225..68383359,68389721..68389853,68399870..68399926,68413642..68415107

Genome context

Sequence
000001 CTGCAATTTC AGGTAGCTTT TCTGACTCTT AAAGAGATCT CAAGTATACC TTCAGAGAAA TGCCAGCAAA AACTGTAGTC 000080
000081 ATTTGGGAAG GAATAAGCCT GGAAGAAAAA GATACAACGA ACTAGCACAA CGAGGAGTTT GAAAAGTTCA TGACAGCTCA 000160
000161 CAGCTGATGA TGGTGGCAAT CTTAAGGATA CAGAAAGCTC ATTCCTCATG CAGGGAAGAA GAAAATATTC TAAAGAAGAG 000240
000241 ATAAGCATAT TCCATGAAAT CAAAAAAGCG TAAAACGCTG GAGGAGAAGT CAGTAGCAAG CAGCTAAGAC AACATGGTAC 000320
000321 ATGTGGCTAG AAGCCCACCA ACTGCTAACA ACCAGCTGGA GGGTAAGTCA AAAGCTATGA GAGCCCAGAA GGAGAACAAT 000400
000401 TATTTAGACC TGGAGGGGCC AGTTGGGAAA GTCTTTGAAG GGTCTTCAGA AAATGGACCA AAAGAAAAGA GGAAAAGTCA 000480
000481 TTCTACTGAG AGGTGTTTGT GTAATCAAAG CAACCGAGGC CTAAGAACTC ACAAAAGATT AGAAAAGGGT AAAGGATGCC 000560
000561 TGGAAAGCCG GACTAGGAAA AGGCTGTGAA GGGCCCTGAA GGTCACATGT CACATGTTGC CTGCAGCATG CAGAATCAAA 000640
000641 ACATGATAAA TCATGTCTTG AATCATGACA TATGAAGCAT GACACACGAA TCATGACATG TGACATGTTG AATGTCACAT 000720
000721 GTCACATGCC GTAGGCAGCC ATCAAGAGTA TTTGAAAGGA AAGTGTATAA TCAGGCCTGT GCTTTAGTAA GACAATTTGT 000800
000801 ATAGTGTTCA GTGTGGATTA AAATGGAGAA CACAGGTATC AGTTTGACAT CGACAGTACA GGAAACCATT TGGGTTTCTT 000880
000881 GTACACCAAA ATATTAAAAC ATACACGCAA ACACACCAAC ACATTAAAAT CTTGAGAGAG AGGGCCAAAA GTTCTTTGTC 000960
000961 GCTGGACTAA AAGTGGAAAT AAATGTTTAC AACCTCTAAG GTGGATTAAG CTAAGAATTT GGAGTTGTTG GCAAAACTGC 001040
001041 CACATAAAAT TTCAGACATG CAAAGAAATG CAATCGTAGA CTTATGCACA TACTTCCACC AGAGAAGGGA ATCTGGGCAG 001120
001121 AGTGTTCAAA GCTTAAGAAA TTCCTTTGCT CTTCACCAAG AAGAGCCAAC AGAGTTTTCG TTGAATCAAC TCTTATATTC 001200
001201 CCTTAAAAAG AAGTTGATAG TGTTGTGGAA AACTCACCCA TTGAAGTGAC AACAAAAACA GCAACCCAGT ATGAGTTAAC 001280
001281 TGGTATTATG TTAAAGGGAC AAGTAACTGC ACTTTTGACA CACATCCTCT AAAAGGTAGG GTGGGAGTGT TTCAAAGAAC 001360
001361 CAAGTCTGAG TAATAGAAAA GCATATACCA CTTCCCCATA TACACGTTCG AGCATGGGGG AGCAGGAAGC TGGGTAATTG 001440
001441 AATGCAGTTG TGCACACTGG CAATTTTCCC GCCACATACC ATTTCTTCGG TGTCTCTCCC AAAATTCTCC TCCTAAGTGG 001520
001521 CACATCCCTT TATTGATCAT CTTTCCCCAT ACTGATCATC CTCAGCAATC ATGTGAGTTA TTAGTCTAAG TATTTGTTTT 001600
001601 TCTCAAATAT GGTCTTTTAA CTACTCCCTA AATATTTTAT ATATACATAG TTTGTTTTCC CAATTTAACT ACAAGCATTT 001680
001681 AAAAAATGGG AATATTTGTC TATATTTCTG TAATTTTTCA TCATGCCTTA TATGGTATAT AAAGATCAAC AGCAATAAAA 001760
001761 CAACAACAGT AATAATAGCT AAGACCTTTT G
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