Jasmonic acid-responsive element gene transcriptions: Difference between revisions

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Apparent consensus sequence for the JARE is 5'-TGACG-3'.<ref name=Kim/>
Apparent consensus sequence for the JARE is 5'-TGACG-3'.<ref name=Kim/>


==Samplings==
==JARE samplings==


Copying an apparent consensus sequence for the jasmonic acid-responsive element (JARE)<ref name=Kim>{{ cite journal
Copying an apparent consensus sequence for the jasmonic acid-responsive element (JARE)<ref name=Kim>{{ cite journal
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|pmid=16332414
|pmid=16332414
|accessdate=9 September 2020 }}</ref> of TGACG and putting it in "⌘F" finds eight located between ZSCAN22 and A1BG and one between ZNF497 and A1BG as can be found by the computer programs.
|accessdate=9 September 2020 }}</ref> of TGACG and putting it in "⌘F" finds eight located between ZSCAN22 and A1BG and one between ZNF497 and A1BG as can be found by the computer programs.
For the Basic programs testing consensus sequence TGACG (starting with SuccessablesJARE.bas) written to compare nucleotide sequences with the sequences on either the template strand (-), or coding strand (+), of the DNA, in the negative direction (-), or the positive direction (+), the programs are, are looking for, and found:
# negative strand, negative direction, looking for TGACG, 8, TGACG at 4337, TGACG at 4329, TGACG at 4314, TGACG at 3851, TGACG at 2758, TGACG at 2423, TGACG at 1997, TGACG at 1493.
# negative strand, positive direction, looking for TGACG, 1, TGACG at 1834.
# positive strand, negative direction, looking for TGACG, 1, TGACG at 309.
# positive strand, positive direction, looking for TGACG, 10, TGACG at 4340, TGACG at 3319, TGACG at 2822, TGACG at 2203, TGACG at 2042, TGACG at 1504, TGACG at 1000, TGACG at 900, TGACG at 748, TGACG at 237.
# complement, negative strand, negative direction, looking for ACTGC, 1, ACTGC at 309.
# complement, negative strand, positive direction, looking for ACTGC, 10, ACTGC at 4340, ACTGC at 3319, ACTGC at 2822, ACTGC at 2203, ACTGC at 2042, ACTGC at 1504, ACTGC at 1000, ACTGC at 900, ACTGC at 748, ACTGC at 237.
# complement, positive strand, negative direction, looking for ACTGC, 8, ACTGC at 4337, ACTGC at 4329, ACTGC at 4314, ACTGC at 3851, ACTGC at 2758, ACTGC at 2423, ACTGC at 1997, ACTGC at 1493.
# complement, positive strand, positive direction, looking for ACTGC, 1, ACTGC at 1834.
# inverse complement, negative strand, negative direction, looking for CGTCA, 10, CGTCA at 4317, CGTCA at 3600, CGTCA at 3478, CGTCA at 2737, CGTCA at 2402, CGTCA at 2083, CGTCA at 1976, CGTCA at 1472, CGTCA at 1323, CGTCA at 1032.
# inverse complement, negative strand, positive direction, looking for CGTCA, 2, CGTCA at 2423, CGTCA at 1184.
# inverse complement, positive strand, negative direction, looking for CGTCA, 1, CGTCA at 1511.
# inverse complement, positive strand, positive direction, looking for CGTCA, 6, CGTCA at 3962, CGTCA at 3461, CGTCA at 3281, CGTCA at 3232, CGTCA at 2328, CGTCA at 2065.
# inverse negative strand, negative direction, looking for GCAGT, 1, GCAGT at 1511.
# inverse negative strand, positive direction, looking for GCAGT, 6, GCAGT at 3962, GCAGT at 3461, GCAGT at 3281, GCAGT at 3232, GCAGT at 2328, GCAGT at 2065.
# inverse positive strand, negative direction, looking for GCAGT, 10, GCAGT at 4317, GCAGT at 3600, GCAGT at 3478, GCAGT at 2737, GCAGT at 2402, GCAGT at 2083, GCAGT at 1976, GCAGT at 1472, GCAGT at 1323, GCAGT at 1032.
# inverse positive strand, positive direction, looking for GCAGT, 2, GCAGT at 2423, GCAGT at 1184.
===JARE UTR gene transcriptions===
{{main|UTR gene transcriptions}}
Negative strand, negative direction: TGACG at 4337, TGACG at 4329, CGTCA at 4317, TGACG at 4314, TGACG at 3851, CGTCA at 3600, CGTCA at 3478.
===JARE core promoters===
{{main|Core promoter gene transcriptions}}
Positive strand, positive direction: TGACG at 4340.
===JARE proximal promoters===
{{main|Proximal promoter gene transcriptions}}
Negative strand, negative direction: TGACG at 2758, CGTCA at 2737.
===JARE distal promoters===
{{main|Distal promoter gene transcriptions}}
Negative strand, negative direction: TGACG at 2423, CGTCA at 2402, CGTCA at 2083, TGACG at 1997, CGTCA at 1976, TGACG at 1493, CGTCA at 1472, CGTCA at 1323, CGTCA at 1032.
Positive strand, negative direction: CGTCA at 1511, TGACG at 309.
Negative strand, positive direction: CGTCA at 2423, TGACG at 1834, CGTCA at 1184.
Positive strand, positive direction: CGTCA at 3962, CGTCA at 3461, TGACG at 3319, CGTCA at 3281, CGTCA at 3232, TGACG at 2822, CGTCA at 2328, TGACG at 2203, CGTCA at 2065, TGACG at 2042, TGACG at 1504, TGACG at 1000, TGACG at 900, TGACG at 748, TGACG at 237.


==See also==
==See also==

Revision as of 07:23, 31 January 2021

Associate Editor(s)-in-Chief: Henry A. Hoff

Jasmonic acid-responsive elements (TGACG, CGTCA).[1]

Human genes

Interactions

Consensus sequences

Apparent consensus sequence for the JARE is 5'-TGACG-3'.[2]

JARE samplings

Copying an apparent consensus sequence for the jasmonic acid-responsive element (JARE)[2] of TGACG and putting it in "⌘F" finds eight located between ZSCAN22 and A1BG and one between ZNF497 and A1BG as can be found by the computer programs.

For the Basic programs testing consensus sequence TGACG (starting with SuccessablesJARE.bas) written to compare nucleotide sequences with the sequences on either the template strand (-), or coding strand (+), of the DNA, in the negative direction (-), or the positive direction (+), the programs are, are looking for, and found:

  1. negative strand, negative direction, looking for TGACG, 8, TGACG at 4337, TGACG at 4329, TGACG at 4314, TGACG at 3851, TGACG at 2758, TGACG at 2423, TGACG at 1997, TGACG at 1493.
  2. negative strand, positive direction, looking for TGACG, 1, TGACG at 1834.
  3. positive strand, negative direction, looking for TGACG, 1, TGACG at 309.
  4. positive strand, positive direction, looking for TGACG, 10, TGACG at 4340, TGACG at 3319, TGACG at 2822, TGACG at 2203, TGACG at 2042, TGACG at 1504, TGACG at 1000, TGACG at 900, TGACG at 748, TGACG at 237.
  5. complement, negative strand, negative direction, looking for ACTGC, 1, ACTGC at 309.
  6. complement, negative strand, positive direction, looking for ACTGC, 10, ACTGC at 4340, ACTGC at 3319, ACTGC at 2822, ACTGC at 2203, ACTGC at 2042, ACTGC at 1504, ACTGC at 1000, ACTGC at 900, ACTGC at 748, ACTGC at 237.
  7. complement, positive strand, negative direction, looking for ACTGC, 8, ACTGC at 4337, ACTGC at 4329, ACTGC at 4314, ACTGC at 3851, ACTGC at 2758, ACTGC at 2423, ACTGC at 1997, ACTGC at 1493.
  8. complement, positive strand, positive direction, looking for ACTGC, 1, ACTGC at 1834.
  9. inverse complement, negative strand, negative direction, looking for CGTCA, 10, CGTCA at 4317, CGTCA at 3600, CGTCA at 3478, CGTCA at 2737, CGTCA at 2402, CGTCA at 2083, CGTCA at 1976, CGTCA at 1472, CGTCA at 1323, CGTCA at 1032.
  10. inverse complement, negative strand, positive direction, looking for CGTCA, 2, CGTCA at 2423, CGTCA at 1184.
  11. inverse complement, positive strand, negative direction, looking for CGTCA, 1, CGTCA at 1511.
  12. inverse complement, positive strand, positive direction, looking for CGTCA, 6, CGTCA at 3962, CGTCA at 3461, CGTCA at 3281, CGTCA at 3232, CGTCA at 2328, CGTCA at 2065.
  13. inverse negative strand, negative direction, looking for GCAGT, 1, GCAGT at 1511.
  14. inverse negative strand, positive direction, looking for GCAGT, 6, GCAGT at 3962, GCAGT at 3461, GCAGT at 3281, GCAGT at 3232, GCAGT at 2328, GCAGT at 2065.
  15. inverse positive strand, negative direction, looking for GCAGT, 10, GCAGT at 4317, GCAGT at 3600, GCAGT at 3478, GCAGT at 2737, GCAGT at 2402, GCAGT at 2083, GCAGT at 1976, GCAGT at 1472, GCAGT at 1323, GCAGT at 1032.
  16. inverse positive strand, positive direction, looking for GCAGT, 2, GCAGT at 2423, GCAGT at 1184.

JARE UTR gene transcriptions

Main article: UTR gene transcriptions

Negative strand, negative direction: TGACG at 4337, TGACG at 4329, CGTCA at 4317, TGACG at 4314, TGACG at 3851, CGTCA at 3600, CGTCA at 3478.

JARE core promoters

Main article: Core promoter gene transcriptions

Positive strand, positive direction: TGACG at 4340.

JARE proximal promoters

Main article: Proximal promoter gene transcriptions

Negative strand, negative direction: TGACG at 2758, CGTCA at 2737.

JARE distal promoters

Main article: Distal promoter gene transcriptions

Negative strand, negative direction: TGACG at 2423, CGTCA at 2402, CGTCA at 2083, TGACG at 1997, CGTCA at 1976, TGACG at 1493, CGTCA at 1472, CGTCA at 1323, CGTCA at 1032.

Positive strand, negative direction: CGTCA at 1511, TGACG at 309.

Negative strand, positive direction: CGTCA at 2423, TGACG at 1834, CGTCA at 1184.

Positive strand, positive direction: CGTCA at 3962, CGTCA at 3461, TGACG at 3319, CGTCA at 3281, CGTCA at 3232, TGACG at 2822, CGTCA at 2328, TGACG at 2203, CGTCA at 2065, TGACG at 2042, TGACG at 1504, TGACG at 1000, TGACG at 900, TGACG at 748, TGACG at 237.

See also

References

  1. ↑ Bhaskar Sharma & Joemar Taganna (12 June 2020). "Genome-wide analysis of the U-box E3 ubiquitin ligase enzyme gene family in tomato". Scientific Reports. 10 (9581). doi:10.1038/s41598-020-66553-1. PMID 32533036 Check |pmid= value (help). Retrieved 27 August 2020.
  2. ↑ 2.0 2.1 Young Jin Kim, Dong Gwan Kim, Sun Hi Lee and Incheol Lee (February 2006). "Wound-induced expression of the ferulate 5-hydroxylase gene in Camptotheca acuminata". Biochimica et Biophysica Acta (BBA) - General Subjects. 1760 (2): 182–190. doi:10.1016/j.bbagen.2005.08.015. PMID 16332414. Retrieved 9 September 2020.

External links

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