Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cma04g01239 ATGCCAGACTTAGGGTTACACAATCTTGCTGATATGGCGGAGCCTCCCACCAGTCCGCCCGGTGGCAGTCACGAGAGCGGCGGCGAGCAGAGCCCCATCACTGGTGGTGCTCGCGAACAGGACCGATTTCTTCCGATCGCTAACATTAGTCGGATCATGAAGAAGGCCTTGCCTGCTAATGGCAAGATCGCTAAAGACGCTAAGGATACTGTCCAGGAATGCGTCTCCGAGTTCATTAGCTTCGTCACTAGCGAGGCGAGTGACAAGTGCCAGAAGGAAAAGAGGAAGACTATTAATGGCGATGATTTGCTTTGGGCAATGGCGACGTTGGGATTCGAGGAATATATTGATCCGCTTAAGTCGTACCTTACTAGGTACAGAGAGTGTGATGCTAAAGGATCTTCTAGGGGCGGTGACGAATCTGCTAAAAGAGATGCAGTTGGGGCCATGCCTGGTCAAAATTCCCAGACCTTGATTTTGGTTGAACTATATGTGCAGCAATACATGCAGTCGGGAGCGTTGACTTACATTAACACCCAAGGACAGCATTTGATCATTCCTTCAATGCAGAATAATGAATAG 582 49.31 MPDLGLHNLADMAEPPTSPPGGSHESGGEQSPITGGAREQDRFLPIANISRIMKKALPANGKIAKDAKDTVQECVSEFISFVTSEASDKCQKEKRKTINGDDLLWAMATLGFEEYIDPLKSYLTRYRECDAKGSSRGGDESAKRDAVGAMPGQNSQTLILVELYVQQYMQSGALTYINTQGQHLIIPSMQNNE 193
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
4 6346452 6351339 + CmaCh04G012390.1 Cma04g01239 292320

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cma04g01239 193 Gene3D Histone, subunit A 34 158 IPR009072 GO:0046982
Cma04g01239 193 PANTHER NUCLEAR TRANSCRIPTION FACTOR Y SUBUNIT B-2-RELATED 12 157 - -
Cma04g01239 193 PANTHER CCAAT-BINDING TRANSCRIPTION FACTOR-RELATED 12 157 IPR027113 GO:0001228|GO:0006355|GO:0016602
Cma04g01239 193 SUPERFAMILY Histone-fold 40 139 IPR009072 GO:0046982
Cma04g01239 193 Pfam Histone-like transcription factor (CBF/NF-Y) and archaeal histone 43 107 IPR003958 -
Cma04g01239 193 PRINTS CCAAT-binding transcription factor subunit A signature 71 89 - -
Cma04g01239 193 PRINTS CCAAT-binding transcription factor subunit A signature 90 108 - -
Cma04g01239 193 PRINTS CCAAT-binding transcription factor subunit A signature 109 127 - -
Cma04g01239 193 MobiDBLite consensus disorder prediction 1 38 - -
Cma04g01239 193 ProSitePatterns NF-YB/HAP3 subunit signature. 74 90 IPR003956 GO:0005634|GO:0006355|GO:0043565
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cma04g01239 K08065 NFYB, HAP3; nuclear transcription Y subunit beta - csv:101223123 293.123
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cma04g01239 Cma-Chr4:6346452 Cma06g00350 Cma-Chr6:1625029 2.48E-77 dispersed
Cma10g00260 Cma-Chr10:1156363 Cma04g01239 Cma-Chr4:6346452 7.97E-21 dispersed
Cma11g00251 Cma-Chr11:1269086 Cma04g01239 Cma-Chr4:6346452 4.97E-19 dispersed
Cma17g01111 Cma-Chr17:7785153 Cma04g01239 Cma-Chr4:6346452 4.42E-48 dispersed
Cma14g00188 Cma-Chr14:792274 Cma04g01239 Cma-Chr4:6346452 2.67E-71 wgd
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Cma06g00674 . 12 118 CCAAT-HAP3 Transcription Factor Family AT5G47670 84.1 1.9e-49 193.4
Cma16g00962 . 57 203 CCAAT-HAP3 Transcription Factor Family AT5G47670 64.1 1.2e-48 190.7
Cma20g00686 . 6 124 CCAAT-HAP3 Transcription Factor Family AT5G47670 58.8 3.4e-38 156.0
Cma02g00234 . 6 117 CCAAT-HAP3 Transcription Factor Family AT5G47670 60.7 1.3e-37 154.1
Cma06g00674 . 1 140 CCAAT-HAP3 Transcription Factor Family AT1G21970 65.2 1.9e-49 193.4
Cma16g00962 . 86 245 CCAAT-HAP3 Transcription Factor Family AT1G21970 61.8 9.6e-49 191.0
Cma02g00234 . 1 128 CCAAT-HAP3 Transcription Factor Family AT4G14540 84.4 9.3e-56 213.8
Cma20g00686 . 1 128 CCAAT-HAP3 Transcription Factor Family AT4G14540 84.5 2.1e-55 212.6
Cma06g00678 . 1 152 CCAAT-HAP3 Transcription Factor Family AT4G14540 69.9 3.1e-51 198.7
Cma16g00965 . 1 120 CCAAT-HAP3 Transcription Factor Family AT4G14540 78.5 9.4e-48 187.2
Cma16g00666 . 24 130 CCAAT-HAP3 Transcription Factor Family AT4G14540 86.1 7.9e-47 184.1
Cma04g00791 . 28 134 CCAAT-HAP3 Transcription Factor Family AT4G14540 84.3 2.6e-45 179.1
Cma14g00188 . 986 1079 CCAAT-HAP3 Transcription Factor Family AT4G14540 87.2 1.8e-43 172.9
Cma06g00350 . 22 115 CCAAT-HAP3 Transcription Factor Family AT4G14540 87.2 1.8e-43 172.9
Cma04g01239 . 22 143 CCAAT-HAP3 Transcription Factor Family AT4G14540 68.9 4.1e-43 171.8
Cma04g00263 . 460 590 CCAAT-HAP3 Transcription Factor Family AT4G14540 63.4 6.5e-41 164.5
Cma17g01111 . 46 141 CCAAT-HAP3 Transcription Factor Family AT4G14540 74.0 8.8e-38 154.1
Cma14g00188 . 965 1079 CCAAT-HAP3 Transcription Factor Family AT2G38880 79.1 4.0e-48 188.3
Cma06g00350 . 1 115 CCAAT-HAP3 Transcription Factor Family AT2G38880 79.1 4.0e-48 188.3
Cma04g01239 . 12 128 CCAAT-HAP3 Transcription Factor Family AT2G38880 77.8 8.9e-48 187.2
Cma04g00263 . 447 575 CCAAT-HAP3 Transcription Factor Family AT2G38880 75.2 1.2e-47 186.8
Cma06g00678 . 1 110 CCAAT-HAP3 Transcription Factor Family AT2G38880 73.9 3.9e-43 171.8
Cma02g00234 . 1 113 CCAAT-HAP3 Transcription Factor Family AT2G38880 70.8 2.5e-42 169.1
Cma20g00686 . 20 113 CCAAT-HAP3 Transcription Factor Family AT2G38880 80.9 4.3e-42 168.3
Cma16g00965 . 1 110 CCAAT-HAP3 Transcription Factor Family AT2G38880 70.3 6.2e-41 164.5
Cma16g00666 . 22 117 CCAAT-HAP3 Transcription Factor Family AT2G38880 78.1 8.1e-41 164.1
Cma04g00791 . 12 121 CCAAT-HAP3 Transcription Factor Family AT2G38880 71.8 1.8e-40 162.9
Cma17g01111 . 42 137 CCAAT-HAP3 Transcription Factor Family AT2G38880 74.0 1.3e-38 156.8
Cma17g01111 . 45 141 CCAAT-HAP3 Transcription Factor Family AT2G47810 85.6 1.4e-43 173.3
Cma06g00678 . 19 114 CCAAT-HAP3 Transcription Factor Family AT2G47810 77.1 7.1e-40 161.0
Cma02g00234 . 18 127 CCAAT-HAP3 Transcription Factor Family AT2G47810 67.3 2.1e-39 159.5
Cma20g00686 . 18 117 CCAAT-HAP3 Transcription Factor Family AT2G47810 72.0 4.6e-39 158.3
Cma16g00965 . 19 114 CCAAT-HAP3 Transcription Factor Family AT2G47810 75.0 1.0e-38 157.1
Cma16g00666 . 27 135 CCAAT-HAP3 Transcription Factor Family AT2G47810 67.9 5.1e-38 154.8
Cma04g00791 . 31 126 CCAAT-HAP3 Transcription Factor Family AT2G47810 72.9 2.5e-37 152.5
Cma14g00188 . 965 1131 CCAAT-HAP3 Transcription Factor Family AT2G37060 73.9 9.7e-59 223.8
Cma06g00350 . 1 157 CCAAT-HAP3 Transcription Factor Family AT2G37060 74.1 3.4e-56 215.3
Cma04g01239 . 12 156 CCAAT-HAP3 Transcription Factor Family AT2G37060 73.8 3.2e-54 208.8
Cma04g00263 . 453 603 CCAAT-HAP3 Transcription Factor Family AT2G37060 69.5 7.4e-51 197.6
Cma02g00234 . 6 125 CCAAT-HAP3 Transcription Factor Family AT2G37060 74.2 1.0e-44 177.2
Cma20g00686 . 6 116 CCAAT-HAP3 Transcription Factor Family AT2G37060 75.7 4.0e-44 175.3
Cma06g00678 . 9 127 CCAAT-HAP3 Transcription Factor Family AT2G37060 69.4 1.8e-41 166.4
Cma16g00965 . 6 113 CCAAT-HAP3 Transcription Factor Family AT2G37060 73.4 2.4e-41 166.0
Cma16g00666 . 26 131 CCAAT-HAP3 Transcription Factor Family AT2G37060 73.6 5.3e-41 164.9
Cma04g00791 . 30 123 CCAAT-HAP3 Transcription Factor Family AT2G37060 77.7 8.5e-39 157.5
Cma17g01111 . 45 147 CCAAT-HAP3 Transcription Factor Family AT2G37060 68.9 1.4e-36 150.2
Cma16g00666 . 14 128 CCAAT-HAP3 Transcription Factor Family AT2G13570 75.0 2.2e-44 176.4
Cma20g00686 . 22 123 CCAAT-HAP3 Transcription Factor Family AT2G13570 81.4 4.9e-44 175.3
Cma02g00234 . 22 117 CCAAT-HAP3 Transcription Factor Family AT2G13570 85.4 1.4e-43 173.7
Cma04g00791 . 18 132 CCAAT-HAP3 Transcription Factor Family AT2G13570 74.1 9.3e-43 171.0
Cma14g00188 . 971 1084 CCAAT-HAP3 Transcription Factor Family AT2G13570 69.7 1.7e-41 166.8
Cma06g00350 . 7 120 CCAAT-HAP3 Transcription Factor Family AT2G13570 69.7 2.3e-41 166.4
Cma06g00678 . 8 114 CCAAT-HAP3 Transcription Factor Family AT2G13570 72.9 5.1e-41 165.2
Cma16g00965 . 19 114 CCAAT-HAP3 Transcription Factor Family AT2G13570 79.2 1.5e-40 163.7
Cma04g01239 . 38 132 CCAAT-HAP3 Transcription Factor Family AT2G13570 74.7 3.6e-39 159.1
Cma17g01111 . 46 146 CCAAT-HAP3 Transcription Factor Family AT2G13570 72.3 1.8e-38 156.8
Cma04g00263 . 473 579 CCAAT-HAP3 Transcription Factor Family AT2G13570 65.4 1.7e-36 150.2
Cma02g00234 . 1 121 CCAAT-HAP3 Transcription Factor Family AT5G47640 79.2 4.8e-51 198.4
Cma20g00686 . 1 122 CCAAT-HAP3 Transcription Factor Family AT5G47640 77.8 1.8e-50 196.4
Cma06g00678 . 1 117 CCAAT-HAP3 Transcription Factor Family AT5G47640 80.6 9.0e-50 194.1
Cma16g00965 . 1 117 CCAAT-HAP3 Transcription Factor Family AT5G47640 80.6 2.0e-49 193.0
Cma16g00666 . 22 127 CCAAT-HAP3 Transcription Factor Family AT5G47640 80.2 1.1e-44 177.2
Cma04g00791 . 26 131 CCAAT-HAP3 Transcription Factor Family AT5G47640 78.3 3.7e-43 172.2
Cma04g01239 . 38 148 CCAAT-HAP3 Transcription Factor Family AT5G47640 71.8 6.3e-43 171.4
Cma14g00188 . 975 1088 CCAAT-HAP3 Transcription Factor Family AT5G47640 71.1 6.9e-42 167.9
Cma06g00350 . 11 124 CCAAT-HAP3 Transcription Factor Family AT5G47640 71.1 9.1e-42 167.5
Cma04g00263 . 473 595 CCAAT-HAP3 Transcription Factor Family AT5G47640 64.3 2.9e-40 162.5
Cma17g01111 . 46 142 CCAAT-HAP3 Transcription Factor Family AT5G47640 78.4 4.2e-39 158.7
Cma14g00188 . 976 1131 CCAAT-HAP3 Transcription Factor Family AT3G53340 74.2 1.1e-57 220.3
Cma06g00350 . 12 157 CCAAT-HAP3 Transcription Factor Family AT3G53340 77.8 3.2e-57 218.8
Cma04g01239 . 23 186 CCAAT-HAP3 Transcription Factor Family AT3G53340 66.9 2.1e-53 206.1
Cma04g00263 . 458 625 CCAAT-HAP3 Transcription Factor Family AT3G53340 65.1 8.9e-52 200.7
Cma02g00234 . 6 125 CCAAT-HAP3 Transcription Factor Family AT3G53340 73.3 3.6e-45 178.7
Cma20g00686 . 6 116 CCAAT-HAP3 Transcription Factor Family AT3G53340 73.9 6.9e-44 174.5
Cma06g00678 . 9 127 CCAAT-HAP3 Transcription Factor Family AT3G53340 71.1 9.9e-43 170.6
Cma16g00666 . 15 119 CCAAT-HAP3 Transcription Factor Family AT3G53340 74.3 9.3e-41 164.1
Cma16g00965 . 6 113 CCAAT-HAP3 Transcription Factor Family AT3G53340 72.5 9.3e-41 164.1
Cma04g00791 . 19 123 CCAAT-HAP3 Transcription Factor Family AT3G53340 73.3 7.9e-40 161.0
Cma17g01111 . 45 147 CCAAT-HAP3 Transcription Factor Family AT3G53340 69.9 2.8e-37 152.5
       

Syn-Orthogroups

Select Orthogroup Bda Bhi Blo Bma Bpe Cam Car Cco Cec Chy Cla Clacu Cma Cme Cmetu Cmo Cmu Cone Cpe Cre Csa HCH Hepe Lac Lcy Lsi Mch Sed Tan Vvi Total
OG0000266 8 6 6 8 9 3 3 3 3 2 3 3 6 4 4 6 3 10 6 3 4 4 4 3 4 3 2 16 9 4 152
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
34845 PF00808 CBFD_NFYB_HMF 5.20E-28 CL0012 Cma TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cma04g01239 Cma_Chr04 FPKM 12.779396 15.694267 14.07624 12.788465 12.908321 13.013298 11.22423 23.676804 24.452328 24.099197