Intergenic region

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Illustration of intergenic DNA

An Intergenic region (IGR) is a stretch of DNA sequences located between genes.[1] Intergenic regions are a subset of Noncoding DNA. Occasionally some intergenic DNA acts to control genes nearby, but most of it has no currently known function. It is one of the DNA sequences sometimes referred to as junk DNA, though it is only one phenomenon labeled such and in scientific studies today, the term is less used. Recently DNA fragments in intergenic regions were known as "dark matter" or "dark matter transcripts".[2]

Properties[edit]

Intergenic regions are different from intragenic regions (or introns), which are short, non-coding regions that are found within genes, especially within the genes of eukaryotic organisms.

According to the ENCODE project's study of the human genome, due to "both the expansion of genic regions by the discovery of new isoforms and the identification of novel intergenic transcripts, there has been a marked increase in the number of intergenic regions (from 32,481 to 60,250) due to their fragmentation and a decrease in their lengths (from 14,170 bp to 3,949 bp median length)"[3]

Scientists have now artificially synthesized proteins from intergenic regions.[4]

Functions[edit]

Historically intergenic regions have sometimes been called junk DNA suggesting that they have no function. However, it has been known for a long time that these regions do contain functionally important elements such as promoters and enhancers. Also intergenic regions may contain as yet unidentified genes such as noncoding RNAs. Though little is known about them, they are thought to have regulatory functions. In recent years the ENCODE project has been studying intergenic regions in humans in more detail.[5][6]

Intergenic regions in organisms[edit]

In humans, intergenic regions comprise about 75% of the genome, whereas this number is much less in bacteria (15%) and yeast (30%) [7]

In Plasmodium falciparum, many intergenic regions have an AT content of 90% [8]

See also[edit]

References[edit]

  1. ^ Tropp, Burton E. (2008). Molecular Biology: Genes to Proteins. Jones & Bartlett Learning. ISBN 9780763709167. 
  2. ^ van Bakel, H; Nislow, C; Blencowe, BJ; Hughes, TR (May 18, 2010). "Most "dark matter" transcripts are associated with known genes.". PLoS Biology. 8 (5): e1000371. doi:10.1371/journal.pbio.1000371. PMC 2872640free to read. PMID 20502517. 
  3. ^ Djebali S; Davis CA; Merkel A; et al. (September 2012). "Landscape of transcription in human cells". Nature. 489 (7414): 101–8. doi:10.1038/nature11233. PMID 22955620. 
  4. ^ Dhar, P. K.; Thwin, C.; Tun, K.; Tsumoto, Y.; Maurer-Stroh, S.; Eisenhaber, F.; Surana, U. (2009). "Synthesizing non-natural parts from natural genomic template". Journal of Biological Engineering. 3: 2. doi:10.1186/1754-1611-3-2. PMC 2642765free to read. PMID 19187561. 
  5. ^ Birney E; Stamatoyannopoulos JA; Dutta A; et al. (June 2007). "Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project". Nature. 447 (7146): 799–816. doi:10.1038/nature05874. PMC 2212820free to read. PMID 17571346. 
  6. ^ Dunham I; Kundaje A; Aldred SF; et al. (September 2012). "An integrated encyclopedia of DNA elements in the human genome". Nature. 489 (7414): 57–74. doi:10.1038/nature11247. PMC 3439153free to read. PMID 22955616. 
  7. ^ Shabalina, SA; Ogurtsov, AY; Kondrashov, VA; Kondrashov, AS (Jul 2001). "Selective constraint in intergenic regions of human and mouse genomes.". Trends in genetics : TIG. 17 (7): 373–6. doi:10.1016/s0168-9525(01)02344-7. PMID 11418197. 
  8. ^ Gardner, Malcolm; Hall, N; Fung, E; White, O; Berriman, M; Hyman, RW; Carlton, JM; Pain, A; et al. (3 October 2002). "Genome sequence of the human malaria parasite Plasmodium falciparum". Nature. 419 (6906): 498–511. doi:10.1038/nature01097. PMID 12368864. 

External links[edit]