Gene search

Sequence information

Select Gene Cds Cds_length GC_content Pep Pep_length
Csa03g01411 ATGTTAGAGAAAGGCAAAACTTCGGCTTTCACTACACATTTCCATTACATATCACAATCCTCGAAATCTCCATTCTCACCTTCTTCTTCTACTTCGTCTTCTTCTTCTCTGTTTTCTTCAATTTCCCTGAATTTCTCTTCAATTTTCTCCCCAAGATTCTTCTTCATTTCCTCCATCTTCTTCATAATTCCCACTCTTTCTTCACTTTCAATGTCTTTGAAGAGTATAATTCAGGAAATGAGATCCAGGTCCCGCCGCGTCGTTCAGGATGGATCCACGCCCGAAGTCGGCGACGCTTTGGCGCAGAGCTGTTGGGCTTACATGCCTCAGGAGTTGTTGAGAGAGGTCTTGGTTAGAATCGAGAGTTCTGAGAATGCTTGGCCTCCGCGGAAGACCGTAGTGGCCTGTGCTGGAGTTTGCCGGAGTTGGAGACGGATTACTAAGGAGATAGTTAAAACTCCTGAGGTTTCTGCTAGATTGACGTTTCCTATTTCTGTTAAACAGCCTGGTCCAAGGGATTTGCTTCTTCATTGCTTCATAAAACGGAATCGATCCGCACAAACTTATTGCCTTTACCTTAGTTTGACTAGTGCACTTGCTGACGATGGAAAGTTTCTTCTTGCTGCTCGTAAGTGTCGACGGGCCACCTGCACTGATTATATAATATCTTTGCATGCTGATGACATGTCCAAGGCAAGTGGCACCTTTGTTGGAAAATTAAGATCTAATTTTTTAGGAACAAAGTTCACCATCTTTGATGGACAGCCACCTCATGCAGGAGCCAAGATTTCAAAGAGTCGTTCCTCTAGGCTTGTGGGCCTGAAACAAGTATCACCTAAAGTTCCTGCCGGCAACTACCCTGTGGCTCACATCTCATATGAATTAAATGTCTTGGGTTCAAGGGGTCCAAGGAGAATGCATTGTGTAATGGATGCTATTCCTGCCTCTTCTATCGAGCCAGGAGGGGTGGCTCCAATACAAACTGAATTCTCGCCGAGCCGTATAGACTTTCTTCCATCATTGAGATTTTCCTGGTCAAAATCGAATCACGCAGACAATCAACCATCGGGATCTTCAACTAATCAGAAAGATGGAGTTCTAGTGCTTAGGAACAAGGCGCCTCGGTGGCACGAACAGCTCCAATGTTGGTGTTTGAACTTCCATGGGCGAGTGACGATTGCTTCAGTGAAAAATTTTCAGTTAGTAGCTTCACCTGAAAATGGAGTTGCCGGACCTGAACATGAGAAGATCATTCTTCAATTTGGAAAAGTTGGAAAGGATATATTTACTATGGACTACAGATATCCAATCTCAGCGTTTCAAGCTTTTGCCATCTGCCTCAGTAGCTTTGACACAAAGATCGCTTGTGAATGA 1374 44.18 MLEKGKTSAFTTHFHYISQSSKSPFSPSSSTSSSSSLFSSISLNFSSIFSPRFFFISSIFFIIPTLSSLSMSLKSIIQEMRSRSRRVVQDGSTPEVGDALAQSCWAYMPQELLREVLVRIESSENAWPPRKTVVACAGVCRSWRRITKEIVKTPEVSARLTFPISVKQPGPRDLLLHCFIKRNRSAQTYCLYLSLTSALADDGKFLLAARKCRRATCTDYIISLHADDMSKASGTFVGKLRSNFLGTKFTIFDGQPPHAGAKISKSRSSRLVGLKQVSPKVPAGNYPVAHISYELNVLGSRGPRRMHCVMDAIPASSIEPGGVAPIQTEFSPSRIDFLPSLRFSWSKSNHADNQPSGSSTNQKDGVLVLRNKAPRWHEQLQCWCLNFHGRVTIASVKNFQLVASPENGVAGPEHEKIILQFGKVGKDIFTMDYRYPISAFQAFAICLSSFDTKIACE* 458
       

Gff information

Chromosome Start End Strand Old_gene Gene Num
3 10605878 10613554 + CsaV3_3G014110.1 Csa03g01411 522316

Annotation

Select Seq ID Length Analysis Description Start End IPR GO
Csa03g01411 457 Gene3D Tubby Protein; Chain A 162 457 IPR025659 -
Csa03g01411 457 ProSitePatterns Tub family signature 1. 387 400 IPR018066 -
Csa03g01411 457 SUPERFAMILY F-box domain 98 148 IPR036047 GO:0005515
Csa03g01411 457 Pfam Tub family 166 452 IPR000007 -
Csa03g01411 457 ProSitePatterns Tub family signature 2. 442 457 IPR018066 -
Csa03g01411 457 PRINTS Tubby superfamily signature 220 236 IPR000007 -
Csa03g01411 457 PRINTS Tubby superfamily signature 236 260 IPR000007 -
Csa03g01411 457 PRINTS Tubby superfamily signature 285 312 IPR000007 -
Csa03g01411 457 PRINTS Tubby superfamily signature 369 386 IPR000007 -
Csa03g01411 457 PRINTS Tubby superfamily signature 387 403 IPR000007 -
Csa03g01411 457 PRINTS Tubby superfamily signature 414 433 IPR000007 -
Csa03g01411 457 PRINTS Tubby superfamily signature 435 457 IPR000007 -
Csa03g01411 457 SUPERFAMILY Tubby C-terminal domain-like 154 457 IPR025659 -
Csa03g01411 457 PANTHER TUBBY-LIKE F-BOX PROTEIN 9 71 457 - -
Csa03g01411 457 PANTHER TUBBY-RELATED 71 457 - -
Csa03g01411 457 Pfam F-box domain 108 152 IPR001810 GO:0005515
       

Pathway

Select Query KO Definition Second KO KEGG Genes ID GHOSTX Score
Csa03g01411 K19600 TUB, TULP; tubby and related proteins - csv:101217713 830.861
       

Dupl-types

Select Gene1 Location1 Gene2 Location2 E-value Duplicated-type
Csa03g01411 Csa-Chr3:10605878 Csa03g01871 Csa-Chr3:14425098 1.34E-151 dispersed
Csa06g00404 Csa-Chr6:3531561 Csa03g01411 Csa-Chr3:10605878 3.51E-153 transposed
Csa06g00522 Csa-Chr6:4410794 Csa03g01411 Csa-Chr3:10605878 5.48E-151 transposed
Csa07g02085 Csa-Chr7:20108075 Csa03g01411 Csa-Chr3:10605878 5.13E-17 transposed
Csa03g01411 Csa-Chr3:10605878 Csa06g00572 Csa-Chr6:4906059 0 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
Vvi5g364 . . . Bda08g00279 . . . . Cmo08g01177 Cmo17g00296 Cma06g01463 Cma14g01645 Car06g01262 Car14g01476 Sed02g1224 . Cpe03g01389 Bhi01g00948 Tan10g0947 Cmetu07g1074 Lac12g2379 Hepe05g1485 . Lcy11g1455 Cla06g00505 Cam06g0544 Cec06g0545 Cco06g0552 Clacu06g0531 Cmu06g0529 Cre06g1299 Cone14ag0786 . Cone7ag0180 Cone4ag0175 Lsi05g01499 . Chy11g01469 Cme06g00687 . . . . . . . . . . Cmo14g01689 Cma08g01203 Cma17g00306 Car08g01080 . Cpe12g00258 Cpe17g00002 Bhi12g01742 . . . . . . Cla05g00612 Cam05g0673 Cec05g0683 Cco05g0677 Clacu05g0667 Cmu05g0635 Cre05g0707 Lsi09g01396 Csa03g01411 Chy06g00654 Cme11g01977
       

Syn-Families

Select Gene Event_type S_start S_end Function Ath_gene Identity(%) E-value Score
Csa06g00404 . 1 431 TUB Transcription Factor Family AT1G76900 72.8 1.4e-177 619.4
Csa03g01871 . 1 429 TUB Transcription Factor Family AT1G76900 69.9 1.9e-169 592.4
Csa06g00522 . 1 433 TUB Transcription Factor Family AT1G76900 69.4 4.2e-169 591.3
Csa04g00567 . 1 415 TUB Transcription Factor Family AT1G76900 50.5 7.0e-116 414.5
Csa06g00572 . 13 387 TUB Transcription Factor Family AT1G76900 50.9 7.8e-115 411.0
Csa03g01411 . 63 458 TUB Transcription Factor Family AT1G76900 50.4 5.6e-113 404.8
Csa03g01871 . 174 429 TUB Transcription Factor Family AT1G25280 74.3 5.8e-102 367.5
Csa06g00404 . 173 431 TUB Transcription Factor Family AT1G25280 68.4 3.4e-94 341.7
Csa06g00522 . 175 433 TUB Transcription Factor Family AT1G25280 70.9 7.6e-94 340.5
Csa04g00567 . 177 415 TUB Transcription Factor Family AT1G25280 56.8 4.0e-71 265.0
Csa03g01411 . 224 458 TUB Transcription Factor Family AT1G25280 54.1 6.9e-71 264.2
Csa03g04225 . 180 412 TUB Transcription Factor Family AT1G25280 54.7 3.2e-68 255.4
Csa06g00572 . 154 387 TUB Transcription Factor Family AT1G25280 53.7 4.6e-67 251.5
Csa06g03246 . 176 415 TUB Transcription Factor Family AT1G25280 52.2 1.8e-66 249.6
Csa06g00572 . 98 387 TUB Transcription Factor Family AT5G18680 62.9 3.0e-99 358.6
Csa03g01411 . 168 458 TUB Transcription Factor Family AT5G18680 62.9 2.1e-97 352.4
Csa06g00404 . 112 431 TUB Transcription Factor Family AT5G18680 53.1 5.5e-85 311.2
Csa06g00522 . 112 433 TUB Transcription Factor Family AT5G18680 52.0 2.3e-83 305.8
Csa03g01871 . 113 429 TUB Transcription Factor Family AT5G18680 53.0 8.7e-83 303.9
Csa04g00567 . 115 415 TUB Transcription Factor Family AT5G18680 53.6 2.0e-79 292.7
Csa03g04225 . 116 412 TUB Transcription Factor Family AT5G18680 50.3 4.2e-77 285.0
Csa04g00567 . 1 414 TUB Transcription Factor Family AT2G18280 62.1 2.4e-144 508.8
Csa06g03246 . 1 414 TUB Transcription Factor Family AT2G18280 60.3 6.3e-137 484.2
Csa03g04225 . 1 411 TUB Transcription Factor Family AT2G18280 58.7 9.4e-125 443.7
Csa03g01871 . 1 428 TUB Transcription Factor Family AT2G18280 53.1 2.6e-119 425.6
Csa06g00404 . 1 430 TUB Transcription Factor Family AT2G18280 52.0 2.7e-116 415.6
Csa03g01411 . 71 457 TUB Transcription Factor Family AT2G18280 54.1 4.7e-116 414.8
Csa06g00522 . 1 432 TUB Transcription Factor Family AT2G18280 51.1 1.1e-112 403.7
Csa06g00572 . 1 386 TUB Transcription Factor Family AT2G18280 53.0 4.1e-112 401.7
Csa04g00806 . 47 380 TUB Transcription Factor Family AT2G18280 51.0 2.0e-95 346.3
Csa03g01411 . 71 458 TUB Transcription Factor Family AT2G47900 68.8 3.8e-161 564.7
Csa06g00572 . 1 387 TUB Transcription Factor Family AT2G47900 68.3 6.0e-159 557.4
Csa06g00404 . 1 431 TUB Transcription Factor Family AT2G47900 55.1 3.1e-131 465.3
Csa03g01871 . 1 429 TUB Transcription Factor Family AT2G47900 56.7 6.9e-131 464.2
Csa06g00522 . 1 433 TUB Transcription Factor Family AT2G47900 56.5 1.2e-130 463.4
Csa04g00567 . 1 415 TUB Transcription Factor Family AT2G47900 56.0 5.3e-123 438.0
Csa03g04225 . 10 412 TUB Transcription Factor Family AT2G47900 55.9 3.0e-118 422.2
Csa06g03246 . 1 415 TUB Transcription Factor Family AT2G47900 51.6 1.5e-112 403.3
Csa04g00806 . 48 381 TUB Transcription Factor Family AT2G47900 51.7 4.8e-100 361.7
Csa07g02085 . 84 300 TUB Transcription Factor Family AT1G16070 63.8 1.7e-75 279.6
Csa06g00404 . 67 431 TUB Transcription Factor Family AT1G43640 70.6 7.3e-148 520.4
Csa03g01871 . 66 429 TUB Transcription Factor Family AT1G43640 68.1 4.7e-147 517.7
Csa06g00522 . 65 433 TUB Transcription Factor Family AT1G43640 65.9 1.0e-141 500.0
Csa03g01411 . 119 458 TUB Transcription Factor Family AT1G43640 53.6 1.5e-105 379.8
Csa06g00572 . 47 387 TUB Transcription Factor Family AT1G43640 51.5 3.4e-105 378.6
Csa03g04225 . 69 412 TUB Transcription Factor Family AT1G43640 50.7 3.3e-100 362.1
Csa04g00567 . 68 415 TUB Transcription Factor Family AT1G43640 50.7 3.1e-98 355.5
Csa03g04225 . 34 412 TUB Transcription Factor Family AT1G47270 63.8 2.2e-134 475.7
Csa04g00567 . 34 415 TUB Transcription Factor Family AT1G47270 58.4 3.0e-123 438.7
Csa06g03246 . 33 415 TUB Transcription Factor Family AT1G47270 56.8 3.1e-120 428.7
Csa03g01871 . 1 429 TUB Transcription Factor Family AT1G47270 52.2 1.1e-114 410.2
Csa06g00522 . 48 433 TUB Transcription Factor Family AT1G47270 54.6 2.4e-112 402.5
Csa06g00404 . 30 431 TUB Transcription Factor Family AT1G47270 51.6 6.9e-112 401.0
Csa06g00572 . 1 387 TUB Transcription Factor Family AT1G47270 50.6 4.6e-108 388.3
Csa03g01411 . 71 458 TUB Transcription Factor Family AT1G47270 50.4 1.4e-104 376.7
Csa04g00806 . 1 381 TUB Transcription Factor Family AT1G53320 72.7 1.2e-156 549.7
Csa04g00567 . 20 415 TUB Transcription Factor Family AT1G53320 51.5 1.5e-103 373.2
Csa06g00572 . 22 387 TUB Transcription Factor Family AT1G53320 50.5 3.3e-103 372.1
Csa03g01411 . 168 458 TUB Transcription Factor Family AT3G06380 64.7 2.7e-97 352.1
Csa06g00572 . 98 387 TUB Transcription Factor Family AT3G06380 62.2 1.3e-94 343.2
Csa03g01871 . 117 429 TUB Transcription Factor Family AT3G06380 54.0 4.2e-82 301.6
Csa06g00522 . 116 433 TUB Transcription Factor Family AT3G06380 52.8 1.8e-80 296.2
Csa04g00567 . 119 415 TUB Transcription Factor Family AT3G06380 53.9 5.1e-80 294.7
Csa06g00404 . 116 431 TUB Transcription Factor Family AT3G06380 51.1 1.1e-79 293.5
Csa03g04225 . 120 412 TUB Transcription Factor Family AT3G06380 52.2 8.2e-78 287.3
       

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
OG0002294 1 2 1 1 2 2 3 2 2 2 2 2 4 1 2 4 2 3 3 2 2 2 2 2 2 2 2 3 2 1 63
       

Regulatory proteins

Select Gene Hmm_acc Hmm_name Score E-value Regulatory Factors Family
31190 PF01167 Tub 1.10E-110 CL0395 Csa TF
       

Transcriptome

Select Gene Chr Type da1 da2 da3 da4 da5 da6 da7 da8 da9 da10
Csa03g01411 Csa_Chr03 FPKM 21.147877 21.594599 24.46559 23.705469 21.500399 19.627182 23.514614 24.59033 25.248541 25.839994