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Table 2 Comparison of over-represented GO terms between parent genes of the retrocopies and the retrocopy-overlapped genes

From: Evolutionary fate and implications of retrocopies in the African coelacanth genome

  Category GO.ID Term Annotated Significant Expected classicFisher
Parent gene BP GO:0006278 RNA-dependent DNA replication 241 24 5.69 2.20E-09
Parent gene BP GO:0015074 DNA integration 76 13 1.8 2.10E-08
Parent gene BP GO:0006260 DNA replication 314 25 7.42 9.30E-08
Parent gene BP GO:0006259 DNA metabolic process 555 32 13.11 2.30E-06
Parent gene BP GO:0044260 cellular macromolecule metabolic process 3332 103 78.72 0.0005
Parent gene BP GO:0034645 cellular macromolecule biosynthetic process 1763 62 41.65 0.00051
Parent gene BP GO:0009059 macromolecule biosynthetic process 1772 62 41.86 0.00058
Parent gene BP GO:0044237 cellular metabolic process 4497 130 106.24 0.00092
Parent gene BP GO:0044267 cellular protein metabolic process 1574 55 37.19 0.00136
Parent gene BP GO:0044249 cellular biosynthetic process 2068 66 48.86 0.00419
Parent gene BP GO:1901576 organic substance biosynthetic process 2108 66 49.8 0.00663
Parent gene BP GO:0043170 macromolecule metabolic process 3799 108 89.75 0.00792
Retrocopy-overlapped gene BP GO:0006811 ion transport 592 21 6.84 3.40E-06
Retrocopy-overlapped gene BP GO:0044765 single-organism transport 1074 27 12.41 6.70E-05
Retrocopy-overlapped gene BP GO:0006810 transport 1617 34 18.68 0.00023
Retrocopy-overlapped gene BP GO:0051234 establishment of localization 1631 34 18.85 0.00027
Parent gene CC GO:0005840 ribosome 151 9 3.34 0.0061
Parent gene CC GO:0005737 cytoplasm 1294 41 28.61 0.0081
Parent gene CC GO:0044456 synapse part 83 6 1.83 0.0099
Retrocopy-overlapped gene CC GO:0044425 membrane part 2692 43 31.71 0.0073
Retrocopy-overlapped gene CC GO:0016021 integral component of membrane 2478 40 29.19 0.0091
Parent gene MF GO:0003676 nucleic acid binding 2867 158 77.88 1.50E-21
Parent gene MF GO:1901363 heterocyclic compound binding 4595 202 124.81 6.60E-17
Parent gene MF GO:0097159 organic cyclic compound binding 4608 202 125.17 9.30E-17
Parent gene MF GO:0046983 protein dimerization activity 419 35 11.38 3.40E-09
Parent gene MF GO:0003964 RNA-directed DNA polymerase activity 241 24 6.55 4.20E-08
Parent gene MF GO:0034061 DNA polymerase activity 262 25 7.12 5.00E-08
Parent gene MF GO:0003723 RNA binding 528 36 14.34 3.60E-07
Parent gene MF GO:0016779 nucleotidyltransferase activity 319 25 8.67 2.10E-06
Parent gene MF GO:0005488 binding 10088 298 274.02 0.002
Parent gene MF GO:0016772 transferase activity, transferring phosphorus-containing groups 1051 43 28.55 0.0045
Retrocopy-overlapped gene MF GO:0015075 ion transmembrane transporter activity 594 22 8.11 2.00E-05
Retrocopy-overlapped gene MF GO:0022891 substrate-specific transmembrane transport 623 22 8.51 4.20E-05
Retrocopy-overlapped gene MF GO:0022892 substrate-specific transporter activity 688 23 9.39 6.40E-05
Retrocopy-overlapped gene MF GO:0022857 transmembrane transporter activity 706 23 9.64 9.50E-05
Retrocopy-overlapped gene MF GO:0008324 cation transmembrane transporter activity 426 16 5.82 0.00025
Retrocopy-overlapped gene MF GO:0005215 transporter activity 877 25 11.98 0.00037