NONHSAT128494

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Annotated Information

Name

21A

Characteristics

~300 nucleotide, nonpolyadenylated, RNAP III transcript.

SINE (short interspersed nucleotide element - AluJb). 21A lacks the Alu-specific intragenic consensus elements needed to promote its pol III transcription such as the blocks A and B, which points to transcription driven by an extragenic type 3 pol III promoter.

Very low free energy (deltaG) value (deltaG < -100) indicating strong secondary structure.

Expression

Nuclear localisation. Detected in tested cultured cells such as HeLa and skin fibroblast cells.

The level of 21A transcription was very low in three immortalized, fully proliferating cell lines (HeLa, 293T, and LAN5) compared to unproliferating/resting PBL (peripheral blood lymphocyte) cells. Similarly, the 21A RNA level in primary skin fibroblasts was higher than in 293T cells, reinforcing an inverse correlation between endogenous 21A expression and cell proliferation.

Function

• 21AS is one of a number of RNAP III-transcribed short ncRNAs that have sequence complementarity to protein-coding genes, possibly acting as as a natural trans-chromosomal antisense RNA. Aligned to the human genome, it shows several homology hits, among which the most highly significant were associated to multiple intronic regions of centromeric protein F gene (CENP-F). In vitro over-expression of 21AS transcripts inhibits CENP-F protein accumulation and decreased levels of CENP-F mRNA, indicating that 21AS regulates CENP-F expression in trans.

• 21A RNAs has a role in the control of the proliferation of human tumor cell lines, possibly via regulation of CENP-F expression. This effect was not observed in a mouse cell line.

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	NONHSAT128494
Source	NONCODE4.0
Same with	,
Classification	intergenic
Length	324 nt
Genomic location	chr8-:123704461..123704784
Exon number	1
Exons	123704461..123704784
Genome context
Sequence	000001 AAATAGTTGA CCAAGTGTGG TGGCTCACGT AGTCCCAGCA CTTTGGGAGG CTGAGGCAGG AGGATCACTT GAGCCCAGGA 000080 000081 ATTTGAGACC AGCTTGGGCA ACATAGTGAG ACCTCATCTC TTAAAAAAAA AAATTAGCTG GGTGTGGTAG TGCACACCTG 000160 000161 TGGTCCCAGC TACTTTAGAG GCTGAGGTAG AGGATTGCTT GAGCCTGGGA AGTTGGGGCT GTAGTGAGCT TTGATTGCAT 000240 000241 CACTGCACTC CAGCCTGGGT GACAGAGCAA GACCCTGTCT CTAAAAAATT AAATAAATAA TAAAAAAATT AAAAAGTAAC 000320 000321 TCCC

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