Talk:20.109(S13):Context-setting and primer design (Day1)

T/R section

Please sign up for one of the design challenges -- four teams per challenge -- right away.

When you have finished, post your primer sequences (from 5' to 3') so that they can be ordered.

I will name your primers by the approximate base-pair that they target in V corneae or E hellem, so please share this information as well.

Sensitivity

Team color	Forward (F) primer	Reverse (R) primer	Target site (e.g. bp 60), F	Target side (e.g., bp 300), R	Is bp # for VC or EH? Which gene?
Grey (Platinum) :)	CCA TGC TTG CCA ACA CAG G	GGT CTG GTT GCT TCC ACT TCC	bp 8	bp 227	E. Hellem: polar tube protein gene
Green
Pink
Yellow	CTGACGTGGATGCTATTC	CCGTCAACCGTCACTGTC	bp 18	bp 199	VC small subunit ribosomal RNA gene

Specificity

Team Color	Forward primer	Reverse primer	Target site (e.g. bp 60), F	Target side (e.g., bp 300), R	Is bp # for VC or EH? Which gene?
Purple	5' AGC CGC GGT AAT ACC GAC 3'	5’ GA TTT CTC CCT GCC CAC TGT 3’	bp 385, F	bp 699, R	VC, SSU rRNA
Red
Orange
Blue	CCGCAATCAGGGACGAA	GTCAACGTCACTGTCTTGG	60	195	V. corneae TV4/TV5 SSU rRNA

W/F section

Please sign up for one of the design challenges -- four teams per challenge -- right away.

When you have finished, post your primer sequences (from 5' to 3') so that they can be ordered.

I will name your primers by the approximate base-pair that they target in V corneae or E hellem, so please share this information as well.

Sensitivity

Team color	Forward (F) primer	Reverse (R) primer	Target site (e.g. bp 60), F	Target side (e.g., bp 300), R	Is bp # for VC or EH? Which gene?
Purple
Yellow
Red
Platinum

Specificity

Team Color	Forward primer	Reverse primer	Target site (e.g. bp 60), F	Target side (e.g., bp 300), R	Is bp # for VC or EH? Which gene?
Pink	TGCCTGACGTAGATGCTA G	TCAACCGTCACTGTCTTG	bp 15	bp 196-213	for VC TV4 SSU rRNA
Green
Orange	CTGCCTGACGTAGATGCTAG	CTGTCTTGGTAGTCCACTAC	bp 14	bp 203	VC TV4 SSU rRNA gene
Blue	TBA	TBA	TBA	TBA	TBA