NONHSAT022116

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Annotated Information

Name

TncRNA: trophoblast noncoding RNA.
TSU: trophoblast STAT utron (untranslated region of an mRNA).

Characteristics

~480 nuc (Peyman (1999)), independent transcript from the 3' end of the Neat1 short isoform/MEN epsilon.
Contains a number of sequence motifs that match binding sites for proteins involved in cytokine signalling which up-regulate MHC genes (Peyman (1999)).

Function

Suppressed induction of MHC class II antigens by interferon gamma and partially blocked constitutive and interferon gamma induced expression of MHC class I antigens and ICAM-I (Peyman (1999), Geirsson (2003))
Suppressed major histocompatibility (MHC) class II expression in-vitro through inhibition of class II transactivator (CIITA) promoters (Geirsson (2003), Geirsson (2003), Geirsson (2004)). Also bound STAT1 and reduced its nuclear translocation (Peyman (1999)), contributing to suppression of MHCII and I in human trophoblast cells and hence preventing a deleterious maternal immune response to placental invasion of the uterine wall.
Note: While STAT1 binds the CIITA promoter, it's binding did not appear to be affected by TncRNA, which acted on an area with no known transcription factor binding sites (Geirsson (2003)), so the mechanism is unclear.

Expression

Expressed exclusively in the placenta and pancreas while full length Neat1 is expressed ubiquitously. Placenta was the only tissue where TncRNA predominated (Peyman (1999)).

Conservation

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Misc

This transcript comes from the very 3' end of the Neat1 short isoform. It is therefore part of Neat1 but as described above appears to be expressed independently with a function different to that of the full length transcript.

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

NONHSAT022116

Source

NONCODE4.0

Same with

,

Classification

intergenic

Length

481 nt

Genomic location

chr11+:65193526..65194002

Exon number

1

Exons

65193526..65194002

Genome context

Sequence
000001 AAGCGGCGAG GTGCCTTTAC TACATGTGTG ATCTGAAAAC CCTGCTTGGT TCTGAGCTGC GTCTATTGAA TTGGTAAAGT 000080
000081 AATACCAATG GCTTTTTATC ATTTCCTTCT TCCCTTTAAG TTTCACTTGA AATTTTAAAA ATCATGGTTA TTTTTATCGT 000160
000161 TGGGATCTTT CTGTCTTCTG GGTTCCATTT TTTAAATGTT TAAAAATATG TTGACATGGT AGTTCAGTTC TTAACCAATG 000240
000241 ACTTGGGGAT GATGCAAACA ATTACTGTCG TTGGGATTTA GAGTGTATTA GTCACGCATG TATGGGGAAG TAGTCTCGGG 000320
000321 TATGCTGTTG TGAAATTGAA ACTGTAAAAG TAGATGGTTG AAAGTACTGG TATGTTGCTC TGTATGGTAA GAACTAATTC 000400
000401 TGTTACGTCA TGTACATAAT TACTAATCAC TTTTCTTCCC CTTTACAGCA CAAATAAAGT TTGAGTTCTA AACTCATTAA 000480
000481 A
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