Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Cma09g00872 ATGAAGGTCTCTCTGCGGCCATTGCTGGAGATTGTTGTGATATCAGTGTACTCAACCTGGAGGTGGAGGAACCATCCTAGTCTCTACTCAGAACGTATTACTCATTCCATGGAACAAAACCATTCCGTGCACGAGTCTGAACATGATGTCTCTCTCAAGCAAAACTGGAGATCCGTCTCAGAAGATGCTAACGGTTGTTTCGAATGCAACATTTGCTTAGACTCAGCCGATGATCCTGTTGTCACCCTCTGTGGTCATCTCTACTGCTGGCCGTGCATTTACATATGGCTTCACGTTCAAATCTCCAGCGACGAACCCGAAAACACCCAGAACTGCCCTGTTTGTAAGGCTAGCATCACTCCCTCTTCTTTGGTTCCCCTCTATGGTCGTGGCACGTCGAACTCAGATTCCGAATCCAAGAAGTCTCACTTGGGTATGGCTGTACCTCGAAGACCACCACCGTCGATGAACACACCGCCCCATTCCAATGCTGCCTCTGCCTTGCATCATAGCCAGCAGCTTCATCCAAATTATATCCGCTCGCCCTCGCACCCGCACCCACACCAGCACCCAATCTATCACCAACAATACTTCCCCCAGGCTTATACCGACGTTGCTTCATATGCACCTTCTTATCTCGGTAATGCCGTGATAACAAGTCTGCTAAACCCAACGATCGGGATGTTCGGAGAAACAGTTTTCACTAGAATTTTCGGTAGCGTGGATGGAAACTTGTTGCCATACCCGACTTACAACAACTCTATCACAGGGAATGGCAGTAGCAGAATGAGAAGACAGGAAATGCAGCTTGATAACATCGACAGTGATAGGCAATTACAACAGCTTGAGACCGACAAAGACCGTAGATCTTCAGACATAAATATTCTCTCTCTGTTTCTGCTTGGAAGGGGGAAACCTGGGTTTGTGAAGATGAGGGGTCCTTTAGGGGCAGTGATTGGGAGGTTCCCTTCAAGTGATGGGAATGCCCAAATGGGTGGGATCATTAGGCATAATAGAAAATGCAGAGATATTGTGTTTCTTGTGATCTTTATAGCTTTCTGGGTGGGCATGATTGTTAACTCCAGCTTTGGATTTAACCAAGGAGACCCATTAAGGCTCACATATGGACTAGACTACAAAGGAAATGTCTGTGGCAACAAGCATGCTAATCCCGGCCTTCGTGAACTCGAGCTTAAATATTGGTTGAATCCTAATCAGGTGTATCAAAGTGGTCTGAAGGACAGTCAATTTAAGCTGGCGGATGCTCGGAGTATATGTTTGATGGATTGCCCAACACCTTCAGAAGATTCTCTAAACTGGGTTTGTGATTATCCAGAAGGCGAAATACGCCTCTCAATGGATGATTGGATAGACAGGAACTACGATTATTTCGAGTTCCTTACGCCTGAGATGAGGAACAGCTCGGTGAACCTTCAAGGTCCTTGTTACCCTGTCATTTTTCCTAGTGTTAATGTTTATTGGAGCTGCCAGTTCCTCGCTCGCCCCTCAAATGTATCATTAACACATTGGAAGCAGATGGGTGGAATGAACATAGATGCGGATTTGATCATAGATAAATCTATTCATAAGTCGACCAACTCTCGATCATCTGTCTTGAAGAGATACATGTCTGATATTGGGAAGTCGTGGCCGATATTGATTGTTTGCGGAGGAATTTTGCCTCTATTTTTGGCAGTGATTTGGTTGCTAATGATTCGACATTTTGTCGCTGCTATGCCGTGGGTAACAGTCATTCTATTCAACATTCTCATCGTATCGGTCACAATGTTTTATTACCTCAAAGCTGGATGGATTGGAAATGATGCTATCACGCCCATCATCGGTGATCACGACCCCTATGTCCACATATTTGGAAGGGAGCTCGATCATATGCGCGCTGCTGCAGTTCTAATGACTTTTGTTATGGCTGTCTCTGTTCTTACTTCAATTGCTATCATCCGTCGAATCATAATGGCAACGTCTGTCCTCAAGGCAACTTCCCTTCATCTCTTCAGCTCTGGTCAGATTGTCCAGAATAATTGCAACTCAAATTGCTGCGCTTACGATCTTGCTTCAAAACGAGTGAACTGCGACCGTTGCTGTGGTTATAGCATCCGTTATACTCCTCATATCGACATAGCCATCTTTTTCCACCTATTCGGAGGTTATTGGGCTACTCAATTTTTTGTAGCATGCTCTTCAACAGTTATTGCAGGCTCCGTGGCCTCCTACTACTGGGCTCGTGGTGAAACTTCGCCCGAAATTCCGTTTCTTCCAGTGTTCTCCTCGATGAAACGGCTTGCAAGATATAACCTCGGGTCCATGGCTATCGGTTCCTTGACTGTATCCTTTATGGAATCAATTCGGTTCATACTCGAGTCTATTCGTCGCAAATTGAAAGTCGCAAGTACGACACCAGATAGTTGGATTGGCCGAGCAGCACATAATACGTCTCGGTTTTGCCTGAGATGTATAGAGTGGATCATCAAATCCGTTAACCGCAATGCATATATAATGATTGCGATAACGGGCAAAAGCTTTTGTAAGGCGTCAGCTATTGCGACGGAGTTAATAATGAACAACATCCTTCGGATCGGGAGAGTGAACGTGATCGGAGACGTTATTCTGTTCCTTGGGAAGCTTTGTATCAGCCTCTCAAGTGCTCTTTTTGCATTCCTCATGTCGGATACACACAAATACAGATCTGCTCATAACAAGATTTCTTCCCCATTGTTTCCGGTCTTGATGTCCATTGATACAATAATTCTATCCTACTGTCAAGATTCTGAAGAACATCAGGGCACAGCTCAATATGCCCCTCCACTTCTCATGGAGACTCTCAATGATCAAAATGAGATGCAAAGACTTACACAGGGGCCTCCCAGTTCATAG 2892 45.26 MKVSLRPLLEIVVISVYSTWRWRNHPSLYSERITHSMEQNHSVHESEHDVSLKQNWRSVSEDANGCFECNICLDSADDPVVTLCGHLYCWPCIYIWLHVQISSDEPENTQNCPVCKASITPSSLVPLYGRGTSNSDSESKKSHLGMAVPRRPPPSMNTPPHSNAASALHHSQQLHPNYIRSPSHPHPHQHPIYHQQYFPQAYTDVASYAPSYLGNAVITSLLNPTIGMFGETVFTRIFGSVDGNLLPYPTYNNSITGNGSSRMRRQEMQLDNIDSDRQLQQLETDKDRRSSDINILSLFLLGRGKPGFVKMRGPLGAVIGRFPSSDGNAQMGGIIRHNRKCRDIVFLVIFIAFWVGMIVNSSFGFNQGDPLRLTYGLDYKGNVCGNKHANPGLRELELKYWLNPNQVYQSGLKDSQFKLADARSICLMDCPTPSEDSLNWVCDYPEGEIRLSMDDWIDRNYDYFEFLTPEMRNSSVNLQGPCYPVIFPSVNVYWSCQFLARPSNVSLTHWKQMGGMNIDADLIIDKSIHKSTNSRSSVLKRYMSDIGKSWPILIVCGGILPLFLAVIWLLMIRHFVAAMPWVTVILFNILIVSVTMFYYLKAGWIGNDAITPIIGDHDPYVHIFGRELDHMRAAAVLMTFVMAVSVLTSIAIIRRIIMATSVLKATSLHLFSSGQIVQNNCNSNCCAYDLASKRVNCDRCCGYSIRYTPHIDIAIFFHLFGGYWATQFFVACSSTVIAGSVASYYWARGETSPEIPFLPVFSSMKRLARYNLGSMAIGSLTVSFMESIRFILESIRRKLKVASTTPDSWIGRAAHNTSRFCLRCIEWIIKSVNRNAYIMIAITGKSFCKASAIATELIMNNILRIGRVNVIGDVILFLGKLCISLSSALFAFLMSDTHKYRSAHNKISSPLFPVLMSIDTIILSYCQDSEEHQGTAQYAPPLLMETLNDQNEMQRLTQGPPSS 963
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
9 4278520 4291354 + CmaCh09G008720.1 Cma09g00872 300877

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Cma09g00872 963 SUPERFAMILY RING/U-box 62 128 - -
Cma09g00872 963 Gene3D Zinc/RING finger domain, C3HC4 (zinc finger) 28 129 IPR013083 -
Cma09g00872 963 MobiDBLite consensus disorder prediction 126 141 - -
Cma09g00872 963 PANTHER PLASMA-MEMBRANE CHOLINE TRANSPORTER FAMILY PROTEIN 313 665 - -
Cma09g00872 963 PANTHER CHOLINE TRANSPORTER-LIKE (SLC FAMILY 44) 313 665 IPR007603 GO:0022857|GO:0055085
Cma09g00872 963 MobiDBLite consensus disorder prediction 126 171 - -
Cma09g00872 963 PANTHER CHOLINE TRANSPORTER-LIKE (SLC FAMILY 44) 666 958 IPR007603 GO:0022857|GO:0055085
Cma09g00872 963 ProSitePatterns Zinc finger RING-type signature. 84 93 IPR017907 -
Cma09g00872 963 SMART ring_2 69 115 IPR001841 -
Cma09g00872 963 Pfam RING-type zinc-finger 69 113 IPR027370 -
Cma09g00872 963 ProSiteProfiles Zinc finger RING-type profile. 69 116 IPR001841 -
Cma09g00872 963 PANTHER PLASMA-MEMBRANE CHOLINE TRANSPORTER FAMILY PROTEIN 666 958 - -
Cma09g00872 963 Coils Coil 265 285 - -
Cma09g00872 963 CDD RING-HC_AtRMA_like 67 117 - -
Cma09g00872 963 Pfam Plasma-membrane choline transporter 638 917 IPR007603 GO:0022857|GO:0055085
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Cma09g00872 K15377 SLC44A2_4_5; solute carrier family 44 (choline transporter-like protein), member 2/4/5 - csv:101206929 1250.73
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Cma09g00872 Cma-Chr9:4278520 Cma11g01874 Cma-Chr11:12436324 2.63E-39 dispersed
Cma01g01205 Cma-Chr1:8731471 Cma09g00872 Cma-Chr9:4278520 0 wgd
Cma13g00649 Cma-Chr13:6121069 Cma09g00872 Cma-Chr9:4278520 6.86E-39 wgd
Cma07g00246 Cma-Chr7:1109965 Cma09g00872 Cma-Chr9:4278520 3.06E-36 wgd
       

Deco-Alignment

Select Vvi1 Blo1 Blo2 Bda1 Bda2 Bpe1 Bpe2 Bma1 Bma2 Cmo1 Cmo2 Cma1 Cma2 Car1 Car2 Sed1 Cpe1 Cpe2 Bhi1 Tan1 Cmetu1 Lac1 Hepe1 Mch1 Lcy1 Cla1 Cam1 Cec1 Cco1 Clacu1 Cmu1 Cre1 Cone1 Cone2 Cone3 Cone4 Lsi1 Csa1 Chy1 Cme1 Blo3 Blo4 Bda3 Bda4 Bpe3 Bpe4 Bma3 Bma4 Sed2 Cmo3 Cmo4 Cma3 Cma4 Car3 Car4 Cpe3 Cpe4 Bhi2 Tan2 Cmetu2 Lac2 Hepe2 Mch2 Lcy2 Cla2 Cam2 Cec2 Cco2 Clacu2 Cmu2 Cre2 Lsi2 Csa2 Chy2 Cme2
Vvi19g241 . . Bda07g00293 . . Bpe02g01905 Bma10g00503 . . . . Cma09g00872 Car01g01030 Car09g00785 Sed06g0407 Cpe06g00695 Cpe02g00705 Bhi09g03405 Tan01g4405 Cmetu07g2305 . Hepe01g1379 Mch11g1077 . Cla11g01769 . . Cco11g1863 . . Cre11g2213 Cone3ag1414 Cone10ag1343 . Cone12ag1456 Lsi04g01328 Csa04g02351 Chy07g00084 . . . . . Bpe11g00486 Bpe03g00833 . Bma14g00232 . Cmo01g01258 Cmo09g00861 . . . . . . . . . . . . . . . . . . . . . . . .
       

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
OG0006813 1 1 1 1 1 0 2 1 0 1 1 1 2 1 1 2 0 2 2 1 1 1 1 1 1 1 1 2 2 1 34
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Cma09g00872 Cma_Chr09 FPKM 11.261065 11.878432 13.03581 14.520747 13.198146 13.875223 13.026993 11.479602 11.779948 12.666323