Conservation of polypyrimidine tract binding proteins and their putative target RNAs in several storage root crops

Table 3 Cytosine/uracil (CU) motifs in select target RNAs

Gene	Gene ID	Species	3´ UTR lengths (nt)	No. CU motifs
StBEL5*	PGSC0003DMG400005930	Potato	503	17
BEL5-like	itf04g32320.t1	Ipomoea trifida	428	15
BEL5-like	Manes.09G045600.1	Cassava	333	11
BEL5-like	108,227,378	Carrot	378	12
BEL5-like	108,854,534	Radish	316	10
BEL5-like	104,899,855	Sugar beet	450	14
POTH1*	PGSC0003DMG400013493	Potato	211	7
POTH1-like	itf15g13570.t2	Ipomoea trifida	140	4
POTH1-like	Manes.12G025600.1	Cassava	397	20
POTH1-like	108,197,298	Carrot	253	13
POTH1-like	108,814,646	Radish	97	3
POTH1-like	104,908,392	Sugar beet	248	14
StBEL11*	PGSC0003DMG400019635	Potato	288	7
StBEL29*	PGSC0003DMG400021323	Potato	329	11
StBEL14**	PGSC0003DMG400012329	Potato	76	2
StBEL22**	PGSC0003DMG400022011	Potato	74	2

The presence of cytosine/uracil (CU) motifs in the 3´ UTR of BEL5-like and POTH1-like mRNAs from a range of storage root crops. A motif was scored with at least three nucleotides containing both a cytosine and a uracil base. Among POTH1- and BEL5-like orthologues in each storage root crop, protein with the best coverage and identity (highlighted in bold) were considered for identification of CU motifs in the 3´ UTRs of respective transcript sequences (Additional file 5: Table S3). Gene IDs are given for respective orthologues. * confirmed to be a mobile mRNA, ** confirmed as non-mobile mRNAs

ISSN: 1471-2164