Supplementary data for Johnson et al. 2005


Supplemental Figure 1 (In situs of genes in this study; TIFF, 1MB).

CisModule analysis.

muscle input sequences
muscle output results
background input sequences
background output results

CisModScan results.

output from genome-wide scan
alignments of predictions to Ciona intestinalis
summary statistics of alignments

Note: In "output," match motif numbers to those in "muscle output results."

Sequence and photo archives.

Each construct has a number. You can match the numbers of the constructs on
Supplementary Figure 2 to the numbers in the archives.

sequences
photos

Note: photos not included for nonfunctional constructs.

Alignments of 20 muscle-specific regulatory regions.

ache alignment and input sequences.
achr alignment and input sequences.
creatine kinase alignment and input sequences.
fructose aldolase alignment and input sequences.
lim alignment and input sequences.
malike alignment and input sequences.
ma1 alignment and input sequences.
ma2 alignment and input sequences.
mhc1 alignment and input sequences.
mhc2 alignment and input sequences.
mlc1 alignment and input sequences.
mlc2 alignment and input sequences.
mrlc1 alignment and input sequences.
mrlc2 alignment and input sequences.
mrlc3 alignment and input sequences.
myobp alignment and input sequences.
tnc alignment and input sequences.
tnt alignment and input sequences.
tpm1 alignment and input sequences.
tpm3 alignment and input sequences.

Note: In each alignment file, the first line is C. savignyi, the third is
C. intestinalis, and the fourth is C. intestinalis EST. The second line
is either the second C. savignyi haplotype or a close paralogue.

Summary spreadsheets.

Note: photos not included for nonfunctional constructs.

ache summary spreadsheet
achr summary spreadsheet
creatine summary spreadsheet
fru summary spreadsheet
lim summary spreadsheet
ma summary spreadsheet
ma1 summary spreadsheet
ma2 summary spreadsheet
mhc1 summary spreadsheet
mhc2 summary spreadsheet
mlc1 summary spreadsheet
mlc5 summary spreadsheet
mrlc1 summary spreadsheet
mrlc2 summary spreadsheet
mrlc3 summary spreadsheet
myobp summary spreadsheet
tnc summary spreadsheet
tnt summary spreadsheet
tpm1 summary spreadsheet
tpm2 summary spreadsheet