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Table 3 Genes present in palindromes 1 and 2

From: A willow sex chromosome reveals convergent evolution of complex palindromic repeats

 Gene symbolNumber of copiesGeneIDChromosome of the non-W best hitBest hit in A. thalianaArabidopsis name or description (function)Best hit in P. trichocarpa v3Identity of P. trichocarpa best hit
Palindromes W.P1 and W.P2SMR4[a]Manually annotatedChr19AT5G23520SMR (Small MutS Related) domain-containing protein)Potri.T01300090.70
RR4Sapur.15WG073500Chr19AT3G56380ARR17 (type A cytokinin response regulator)Potri.019G13360092.81
Sapur.15WG073900
Sapur.15WG074000
Sapur.15WG075200
R14[a]Sapur.15WG073800Chr15ZAT4G27220NB-ARC domain-containing disease resistance proteinPotri.T01290081.00
Sapur.15WG074100
R23(1)[a]Manually annotatedChr17AT4G27220NB-ARC domain-containing disease resistance proteinPotri.T01330061.23
HCT4(1)Sapur.15WG073400Chr19[b]AT5G48930HCT (hydroxycinnamoyl-coa shikimate/quinate hydroxycinnamoyl transferase)Potri.018G10470058.02
Sapur.15WG073600
Sapur.15WG073700
Sapur.15WG074200
Sapur.15WG075100
Palindrome W.P2 onlyDRBM2Sapur.15WG074300Chr17AT1G09700ATDRB1 (dsRNA binding protein)Potri.017G12670061.95
Sapur.15WG075000
TF2C1Sapur.15WG074400Chr08[c]AT2G27040AGO4 (ARGONAUTE 4, siRNA mediated gene silencing)NANA
ACDP1Sapur.15WG074900Chr17AT5G52790[d]CBS domain protein with DUF21 (transmembrane transporter)Potri.017G14790083.33
DPRIM2Sapur.15WG074500Chr17AT5G52800DNA primasePotri.017G14800092.52
Sapur.15WG074800
DUF7892Sapur.15WG074600Chr17AT1G03610DUF789 (protein of unknown function)Potri.017G15260086.03
Sapur.15WG074700
  1. [a]Manually annotated transcripts were included in the count. Numbers in the parentheses are from a fragment in the upstream portion of W.P1 that is homologous to part of W.P1. [b]This cluster of tandem duplications on Chr19 in S. purpurea is not present on Chr19 in P. trichocarpa. [c]The palindrome gene contains only a truncated blast hit to Sapur.008G005800 on Chr08. [d]This best hit with an expected value of 8 × 10−3 due to a sequence length of 84 aa. Expected values of the remaining A. thaliana were less than 1 × 10− 10