Differential Expansion of Zinc-Finger Transcription Factor Loci in Homologous Human and Mouse Gene Clusters

Table 2.

Pairwise Comparison of ZNF Genes in Selected Clades, Using the Ratio of Nonsynonymous Differences per Nonsynonymous Site (dN) Over Synonymous Differences per Synonymous Site (ds)

Section A: Comparisons involving all amino acid positions in finger motifs
Group I Group II
ZNF226 ZNF234 Zfp61 ZNF225 ZNF230 ZNF223 ZNF155 ZNF284 ZNF221 ZNF222 Zfp112
ZNF234 0.301 × ZNF228 0.102 ×
Zfp61 0.166 × 0.165 ×
ZNF225 0.383 × 0.327 × 0.224 ×
ZNF230 0.442 × 0.402 × 0.219 × 0.363 ×
ZNF223 0.428 × 0.445 × 0.197 × 0.414 × 0.364 × Group III
ZNF155 0.378 × 0.448 × 0.203 × 0.388 × 0.398 × 0.352 × Zfp94
ZNF284 0.438 × 0.471 × 0.232 × 0.379 × 0.461 × 0.51 × 0.465 × ZNF45 0.122 ×
ZNF221 0.367 × 0.383 × 0.207 × 0.471 × 0.532 × 0.552 × 0.604 × 0.486 ×
ZNF222 0.453 × 0.485 × 0.181 × 0.444 × 0.385 × 0.329 × 0.471 × 0.541 × 0.506 ×
ZNF224 0.359 × 0.358 × 0.184 × 0.362 × 0.461 × 0.55 × 0.368 × 0.451 × 0.253 × 0.426 ×
Group IV Group V & ZNF283, ZNF404
Zfp235 ZNF235 Zfp93 Zfp108 Zfp109 Zfp114 Zfp180 ZNF404 ZNF283
ZNF235 0.024 × ZNF404 n/c
Zfp93 0.221 × 0.047 × ZNF283 n/c 0.578 ×
Zfp108 0.234 × 0.053 × 0.298 × ZNF180 n/c 0.308 × 0.25
Zfp109 0.288 × 0.09 × 0.335 × 0.324 ×
Zfp114 0.283 × 0.07 × 0.361 × 0.331 × 0.439 ×
Zfp111
0.314 ×
0.106 ×
0.363 ×
0.37 ×
0.297 ×
0.429 ×
Section B: Comparisons involving subset of amino acid positions critical to DNA sequence recognition
Group I Group II
ZNF226 ZNF234 Zfp61 ZNF225 ZNF230 ZNF233 ZNF155 ZNF284 ZNF221 ZNF222 Zfp112
ZNF234 0.491 ZNF228 0.145 ×
Zfp61 0.177 × 0.232 ×
ZNF225 1.608 1.068 1.608
ZNF230 2.693* 1.258 1.893 1.21
ZNF223 2.026* 1.527 2.045 1.109 1.108 Group III
ZNF155 1.123 1.007 1.806 1.19 1.153 0.967 Zfp94
ZNF284 1.626* 1.068 1.462 0.74 2.324* 1.312 0.705 ZNF45 0.367
ZNF221 1.603 1.897* n/c 1.16 1.478 1.783 1.074 0.852
ZNF222 2.088* 1.515 1.582 0.941 1.768 0.477 0.839 1.642 1.258
ZNF224 1.206 1.196 1.18 0.956 1.771 1.295 0.878 0.932 0.559 1.406
Group IV Group V & ZNF283, ZNF404
Zfp235 ZNF235 Zfp93 Zfp108 Zfp109 Zfp114 Zfp180 ZNF404 ZNF283
ZNF235 0 × ZNF404 n/c
Zfp93 0.502 0.165 × ZNF283 n/c 1.239
Zfp108 0.543 0.183 0.581 ZNF180 n/c 2.36* 1.461
Zfp109 0.823 0.275 × 0.906 0.867
Zfp114 0.418 n/c 0.831 0.944 4.183*
Zfp111
0.468
0.293
0.776
0.615
0.649
0.383

  • × =significant evidence for purifying selection or * = positive selection, in results of separate one-tailed Z-tests on the difference between nonsynonymous differences per nonsynonymous site and synonymous differences per synonymous site, using a bootstrap calculation of variance (values not shown); n/c = proportion of synonymous differences too high to be adjusted by Juke-Cantor (1969) correction.

This Article

  1. Published in Advance May 12, 2003, doi: 10.1101/gr.963903 Genome Res. 13: 1097-1110

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