Figure S4.

CrtSPARTA associates with small RNAs targeting highly transcribed genes, related to Figure 4

(A) Left: CrtPARTA associates with 5′-phosphorylated (5′-P) small RNAs. Right: MapSPARTA and CrtSPARTA associate with 5′-OH nucleic acids of undefined lengths. Nucleic acids that copurified with CrtSPARTA or MapSPARTA were [γ-³²P]-ATP labeled, treated with DNase I or RNase A, and resolved on a denaturing polyacrylamide gel. nt, nucleotides.

(B) Length distribution of small copurified with CrtSPARTA as determined by sequencing.

(C) Percentages of long RNA-seq or small RNA-seq reads that align to specific genomic or plasmid sequences. RNA was extracted from E. coli expressing CrtSPARTA (E. coli total) or from purified CrtSPARTA (CrtSPARTA associated). rRNA-derived reads are excluded from this graph.

(D) CrtSPARTA-associated small RNA sequences and E. coli-extracted long RNA sequences correlate (Pearson correlation coefficient r > 0.99, p < 10⁻⁹⁹).

(E) Small RNA associated with CrtSPARTA have a bias for 5′ adenosine bases. Nucleotide bias of small RNAs copurified with MapSPARTA (left) or extracted from E. coli (right).

See also Table S1.