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. 2018 Jun 13;19:453. doi: 10.1186/s12864-018-4802-y

Table 4.

Alignment of DNA sequences found upstream of S. mitis type strain and SK321 putative late genes. Distances to the start codon of first ORF are shown

Function in competence Annotation Gene ID Consensus
TTT 0 TACGAATA
SigX Core Orthologues [29] DNA recombination coiA SM12261_1411 TTTTT −0- TACGAATA −22- ATG
SMSK321_na TTTTT −0- TACGAATA −21- ATG
dprA SM12261_1607 TTTTTT −0- TACGAATA −21- ATG
SMSK321_0695 TTTTT −0- TACGAATA −21- ATG
ssbB SM12231_0826 TTTT −1- TgCGAATA −25- ATG
SMSK321_1193 TTT −2- TACGAATA −20- ATG
comGA SM12261_0634 TTTTT −9- TgCGAATA −25- ATG
SMSK321_1273 TTTTT −9- TgCGAATA −20- ATG
DNA uptake comFA SM12261_0765 TTTTT −9- TACGAATA −25- ATG
SMSK321_1614 TTTT −0- TACGAATA −7- ATG
cilC SM12261_0438 TTTTT −0- TACGAATA −7- ATG
SMSK321_1050 TTTTT −0- TACGAATA −7- ATG
comEA SM12261_1388 TTTTTT −8- TACGAATA −19- ATG
SMSK321_0421 TTTTTT −8- TACGAATA −19- ATG
Fratricide cbpD SM12261_0760 TTTTTTT −1- TcCGAATA −57- ATG
SMSK321_1609 TTTTTTT −1- TcCGAATA −49- ATG
Unknown functions dut SM12261_0019 TTTT −0- TcCGAATA −48- ATG
SMSK321_0340 TTTT −0- TcCGAATA −48- ATG
ccs50 SM12261_0563 TTT −18- aACGAATA −74- ATG
SMSK321_1204 TTT −18- aACGAATA −74- ATG
pilC SM12261_1288 TTT −0- TACGAATA −30- ATG
SMSK321_0286 TTT −0- TACGAATA −30- ATG
radC SM12261_1568 TTTTT −9- cACGAATA −20- ATG
SMSK321_0646 TTTT −10- cACGAATA −20- ATG
cinA SM12261_0915 TTTTTT −8- TACGAATA −17- ATG
SMSK321_1657 TTTTTT −8- TACGAATA −17- ATG
Non-Core Orthologues Unknown function 5′ ccs4 SM12261_5’0853 TTT −0- TACGAATA −19- ATG
SMSK321_5’1482 TTT −0- TACGAATA −19- ATG
ccs 16 SM12261_5’0025 TTT −0- TcCGAATA −68- ATG
SMSK321_5’0346 TTT −0- TcCGAATA −14- GTG
Non-Core Without Orthologues Putative bacteriocin Cib-like operon SM12261_0044 TTT −0- TtCGAATA −33- ATG
SMSK321_1305 TTTTT −0- TtCGAATA − 229 ATG
Unknown function Lipoprotein SM12261_0750 TTTT −0- TACGAATA −147 ATG
SMSK321_1599 TTTT −2- TACGAATA −147 ATG
Hypot. protein SMSK321_1184 TTTT −12- aACGAATA −13- GTG

Bases in agreement to cinbox (SigX-box) consensus in bold [33]. Bases divergent from the consensus are represented by lower case letters. Only the first genes within each induced transcriptionally active region are shown