NONHSAT035776

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Annotated Information

Name

TEA ncRNAs: T early alpha

Characteristics

TEA ncRNAs transcripts originate from the TEA ncRNAs promoter at the 5' of the array of joining (J) gene segments of the T-cell receptor alpha chain (TCRA) (de Villartay (1987)). Another noncoding transcript has been identified coming from a promoter within the J array (J-alpha 49).
TEA ncRNAs transcription extends up to ~71kb, covering the length of the J array and terminating in the C alpha region (de Villartay (1987)). . Full length of actual spliced TEA ncRNAs transcript reported as ~2kb (de Villartay (1987), Shimizu (1993)). ~4.5 and 8kb transcripts have also been reported. Transcripts generally include TEA ncRNAs sequence spliced to C alpha and sometimes include J segments (Villey (1997)).

Function

TEA ncRNAs transcription regulates V alpha-to-J alpha recombination and is necessary to generate the full complement of recombined segments (Abarrategui (2006), Abarrategui (2007)).
Transcription has both activating and repressive effects on the promoters of different J segments. Segments only a small distance downstream from the TEA ncRNAs promoter are activated while segments more distal are repressed, with alterations in histone modifications and chromatin accessibility (Abarrategui (2006), Abarrategui (2007)).
These effects target initial recombination events to the active proximal J segments. In the absence of TEA ncRNAs ncRNA transcription recombination occurs in more distal J segments which are normally repressed (Abarrategui (2006), Abarrategui (2007)).
Repressive effects of the TEA ncRNAs ncRNA suggested to be due to transcriptional interference. Unknown if TEA ncRNAs ncRNA also has a function itself, ie: recruitment of chromatin modification complexes (Abarrategui (2006), Abarrategui (2007)).

Expression

Expressed during thymocyte development at a time recombination is occurring (Abarrategui (2006), Abarrategui (2007)). Expression is highest in fetal thymocytes and is absent in mature adult T cells (de Villartay (1987), Shimizu (1993)).
TEA ncRNAs transcripts have been identified in the nucleus (Abarrategui (2007)).

Conservation

Humans and mouse (de Villartay (1987), Shimizu (1993)).

Misc

V(D)J recombination acts to assemble the variable regions of T cell receptors from germline variable (V), diversity (D) and joining (J) gene segments.
RNA accessions from de Villartay (1987) and Shimizu (1993) some are spliced some are not.
Human 147: GenBank: M18204.1. Human 147A1: GenBank: M18206.1. Human 147A19: GenBank: M18205.1. Mouse T early alpha (TEA ncRNAs) region: GenBank: D13547.1

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	NONHSAT035776
Source	NONCODE4.0
Same with	,
Classification	intergenic
Length	506 nt
Genomic location	chr14+:22942568..23016567
Exon number	2
Exons	22942568..22942930,23016447..23016567
Genome context
Sequence	000001 GAATTCATGT CTTACGGTCA AGGGCTAGAG AAAGGATTTC TGCATCACTT TCTTCCTGTA GCAATTCCAT CCGAGATCCC 000080 000081 TGGGACAGAC CTGGCCTGAT GAATAGCAGG AAGCACACCA GGGAGGGACA AGGTCCTGCA GACAACCTTC ACCACCAGGC 000160 000161 TGGGACAGCG CCATGGGGAC CCAGGGCCTC TGCTTTGGGG AAAGACCTTG CTGAGGGGCC CCATGGGCAA GAACAAGTGT 000240 000241 GAAGAACCCT ACTATGGTTT TTTGCCCAAT GCCCTCCACA AAGCCAGCGT TTGAAGGAAA ACTGTGAGGA AGAAGGGACA 000320 000321 CTCCATGGTG TTGTTGTTGC CACCTCTGGA GCAGCCTGTA GCAAGAACAG TCTTGGTCCA ACCAGATATC CAGAAGCCTG 000400 000401 ACCCTGCCGT GTACCAGCTG AGAGACTCTA AATCCAGTGA CAAGTCTGTC TGCCTATTCA CCGATTTTGA TTCTCAAACA 000480 000481 AATGTGTCAC AAAGTAAGGA TTCTGA

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