HHsearch alignment for GI: 254780592 and conserved domain: pfam05843
>pfam05843 Suf Suppressor of forked protein (Suf). This family consists of several eukaryotic suppressor of forked (Suf) like proteins. The Drosophila melanogaster Suppressor of forked [Su(f)] protein shares homology with the yeast RNA14 protein and the 77-kDa subunit of human cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and an important role of the GU-rich sequence for this regulation to occur.
Probab=96.80 E-value=0.032 Score=31.30 Aligned_cols=81 Identities=11% Similarity=0.021 Sum_probs=34.3
Q ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH-HHCCHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCHHHHHHHHHHH
Q ss_conf 9999999999999575787999999999987-410012446665566327521001355553210000011258876422
Q gi|254780592|r 52 LLEVTSTIGLQYQSHTKNKMIGIVYADVLRR-VGRTAQALAVMRQVAILYPEDQEVLAAYGKSLANAGYLDEGLDAINRA 130 (271)
Q Consensus 52 ~~~A~~~~~~al~~~P~~~~~~~~~a~~l~~-~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~a 130 (271)
T Consensus 17 i~~aR~vF~~aRk~~~~t~~vyva~Al~E~~~~~d~~~a~kIFelGlK~f~~~~~y~~~Yld~Li~~nd~~n~R~lFE~~ 96 (275)
T pfam05843 17 IKAARKVFKKARKKGRITYHVYVASALMEYYCSKDPKTAFKIFELGLKLFPEDGEFVLKYLDFLISLNDDTNARVLFETV 96 (275)
T ss_pred HHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf 28899999998607898559999999999987378079999999998765897899999999998717750189999999
Q ss_pred HH
Q ss_conf 11
Q gi|254780592|r 131 QR 132 (271)
Q Consensus 131 ~~ 132 (271)
T Consensus 97 ~~ 98 (275)
T pfam05843 97 VT 98 (275)
T ss_pred HH
T ss_conf 85