Telomeric repeat DNA-binding factor gene transcriptions: Difference between revisions

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

Homo sapiens genes containing these are found using Homo sapiens "TRF (TTAGGG repeat binding factor)".^[1]

Human genes

Consensus sequences

The apparent consensus sequence for the telomeric repeat DNA-binding factor (TRF) appears to be 5'-TTAGGG-3'.

TRF samplings

Copying the consensus telomeric repeat DNA-binding factor (TRF): TTAGGG and putting the sequence in "⌘F" locates ten of this sequence between ZSCAN22 and A1BG in the negative direction and two nucleotides between ZNF497 and A1BG as can be found by the computer programs.

In the nucleotides between ZSCAN22 and A1BG there is are ten TTAGGG beginning about 300 nucleotides from ZSCAN22 or ending at about 3900 nts. There are two among the nucleotides between ZNF497 and A1BG as A1BG is approached from ZNF497.

For the Basic programs testing consensus sequence TTAGGG (starting with SuccessablesTRF.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 TTAGGG, 10, TTAGGG at 3976, TTAGGG at 3067, TTAGGG at 2678, TTAGGG at 1917, TTAGGG at 1782, TTAGGG at 1264, TTAGGG at 1137, TTAGGG at 807, TTAGGG at 673, TTAGGG at 400.
positive strand, negative direction, looking for TTAGGG, 0.
positive strand, positive direction, looking for TTAGGG, 0.
negative strand, positive direction, looking for TTAGGG, 2, TTAGGG at 2766, TTAGGG at 2669.
complement, negative strand, negative direction, looking for AATCCC, 0.
complement, positive strand, negative direction, looking for AATCCC, 10, AATCCC at 3976, AATCCC at 3067, AATCCC at 2678, AATCCC at 1917, AATCCC at 1782, AATCCC at 1264, AATCCC at 1137, AATCCC at 807, AATCCC at 673, AATCCC at 400.
complement, positive strand, positive direction, looking for AATCCC, 2, AATCCC at 2766, AATCCC at 2669.
complement, negative strand, positive direction, looking for AATCCC, 0.
inverse complement, negative strand, negative direction, looking for CCCTAA, 0.
inverse complement, positive strand, negative direction, looking for CCCTAA, 0.
inverse complement, positive strand, positive direction, looking for CCCTAA, 1, CCCTAA at 2545.
inverse complement, negative strand, positive direction, looking for CCCTAA, 0.
inverse negative strand, negative direction, looking for GGGATT, 0.
inverse positive strand, negative direction, looking for GGGATT, 0.
inverse positive strand, positive direction, looking for GGGATT, 0.
inverse negative strand, positive direction, looking for GGGATT, 1, GGGATT at 2545.

TRF UTRs

Negative strand, negative direction: TTAGGG at 3976, TTAGGG at 3067.

TRF core promoters

TRF proximal promoters

Negative strand, negative direction: TTAGGG at 2678.

TRF distal promoters

Negative strand, negative direction: TTAGGG at 1917, TTAGGG at 1782, TTAGGG at 1264, TTAGGG at 1137, TTAGGG at 807, TTAGGG at 673, TTAGGG at 400.

Negative strand, positive direction: TTAGGG at 2766, TTAGGG at 2669.

Positive strand, positive direction: CCCTAA at 2545.

References

↑ Yoshiro Maru (2016). Basic Research, In: "Inflammation and Metastasis". Tokyo: Springer. pp. 193–231. doi:10.1007/978-4-431-56024-1_10. ISBN 978-4-431-56022-7. Retrieved 28 August 2020.

External links

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@@ Line 31: / Line 31: @@
 For the Basic programs testing consensus sequence TTAGGG (starting with SuccessablesTRF.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 TTAGGG, 10, TTAGGG at 3976, TTAGGG at 3067, TTAGGG at 2678, TTAGGG at 1917, TTAGGG at 1782, TTAGGG at 1264, TTAGGG at 1137, TTAGGG at 807, TTAGGG at 673, TTAGGG at 400.
-# positive strand, negative direction, looking for AAAAAAAA, 0.
+# positive strand, negative direction, looking for TTAGGG, 0.
-# positive strand, positive direction, looking for AAAAAAAA, 0.
+# positive strand, positive direction, looking for TTAGGG, 0.
-# negative strand, positive direction, looking for AAAAAAAA, 0.
+# negative strand, positive direction, looking for TTAGGG, 2, TTAGGG at 2766, TTAGGG at 2669.
-# complement, negative strand, negative direction, looking for TTTTTTTT, 0.
+# complement, negative strand, negative direction, looking for AATCCC, 0.
-# complement, positive strand, negative direction, looking for GGGATT, 10, GGGATT at 3976, GGGATT at 3067, GGGATT at 2678, GGGATT at 1917, GGGATT at 1782, GGGATT at 1264, GGGATT at 1137, GGGATT at 807, GGGATT at 673, GGGATT at 400.
+# complement, positive strand, negative direction, looking for AATCCC, 10, AATCCC at 3976, AATCCC at 3067, AATCCC at 2678, AATCCC at 1917, AATCCC at 1782, AATCCC at 1264, AATCCC at 1137, AATCCC at 807, AATCCC at 673, AATCCC at 400.
-# complement, positive strand, positive direction, looking for TTTTTTTT, 0.
+# complement, positive strand, positive direction, looking for AATCCC, 2, AATCCC at 2766, AATCCC at 2669.
-# complement, negative strand, positive direction, looking for TTTTTTTT, 0.
+# complement, negative strand, positive direction, looking for AATCCC, 0.
-# inverse complement, negative strand, negative direction, looking for TTTTTTTT, 0.
+# inverse complement, negative strand, negative direction, looking for CCCTAA, 0.
-# inverse complement, positive strand, negative direction, looking for TTTTTTTT, 0.
+# inverse complement, positive strand, negative direction, looking for CCCTAA, 0.
-# inverse complement, positive strand, positive direction, looking for TTTTTTTT, 0.
+# inverse complement, positive strand, positive direction, looking for CCCTAA, 1, CCCTAA at 2545.
-# inverse complement, negative strand, positive direction, looking for TTTTTTTT, 0.
+# inverse complement, negative strand, positive direction, looking for CCCTAA, 0.
-# inverse negative strand, negative direction, looking for AAAAAAAA, 0.
+# inverse negative strand, negative direction, looking for GGGATT, 0.
-# inverse positive strand, negative direction, looking for AAAAAAAA, 0.
+# inverse positive strand, negative direction, looking for GGGATT, 0.
-# inverse positive strand, positive direction, looking for AAAAAAAA, 0.
+# inverse positive strand, positive direction, looking for GGGATT, 0.
-# inverse negative strand, positive direction, looking for AAAAAAAA, 0.
+# inverse negative strand, positive direction, looking for GGGATT, 1, GGGATT at 2545.
-===AAA UTRs===
+===TRF UTRs===
 {{main|UTR promoter gene transcriptions}}
+Negative strand, negative direction: TTAGGG at 3976, TTAGGG at 3067.
-===AAA core promoters===
+===TRF core promoters===
 {{main|Core promoter gene transcriptions}}
-===AAA proximal promoters===
+===TRF proximal promoters===
 {{main|Proximal promoter gene transcriptions}}
+Negative strand, negative direction: TTAGGG at 2678.
-===AAA distal promoters===
+===TRF distal promoters===
 {{main|Distal promoter gene transcriptions}}
+Negative strand, negative direction: TTAGGG at 1917, TTAGGG at 1782, TTAGGG at 1264, TTAGGG at 1137, TTAGGG at 807, TTAGGG at 673, TTAGGG at 400.
+Negative strand, positive direction: TTAGGG at 2766, TTAGGG at 2669.
+Positive strand, positive direction: CCCTAA at 2545.
 ==See also==