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Clan: Flavi_ISFV_repeat_Ra_Rb (CL00131)


Insect-Specific Flavivirus 3' UTR repeats Ra and Rb elements

3' UTRs in insect specific flavivirus families present three to four repeats of conserved element Ra and Rb [1]. Can happend that only Ra or Rb element is present.

This clan contains 3 families and the total number of sequence regions in the clan is 52.

Literature references

  1. Ochsenreiter R, Hofacker IL, Wolfinger MT, Viruses. 2019; [Epub ahead of print]: Functional RNA Structures in the 3'UTR of Tick-Borne, Insect-Specific and No-Known-Vector Flaviviruses. 30909641


This clan contains the following 3 member families:

Flavi_ISFV_repeat_Ra_Rb Flavi_ISFV_repeat_Rb Flavi_ISFV_repeat_Ra

Secondary structures

This tool allows you to view the secondary structure images of two clan members side-by-side. Choose the family structures using the two drop-down menus below.


The table below shows the number of occurrences of each family throughout the sequence database. In brackets beside each number is the percentage of the total number of sequence hits for the clan that are represented by this family. The rightmost column provides a link to the alignments tab for each family.

Rfam family Num. regions Alignment
Flavi_ISFV_repeat_Ra (RF03544) 7 (13.5%) View
Flavi_ISFV_repeat_Rb (RF03543) 5 (9.6%) View
Flavi_ISFV_repeat_Ra_Rb (RF03542) 40 (76.9%) View