CopciAB_40535
Coprinopsis cinerea A43mutB43mut pab1-1 #326

General data

Systematic name CopciAB_40535 Strain Coprinopsis cinerea Okayama 7
Standard name - Synonyms 40535
Uniprot id Functional description Phytanoyl-CoA dioxygenase (PhyH)
Location scaffold_4:2892324..2894096 Strand -
Gene length (nt) 1773 Transcript length (nt) 1124
CDS length (nt) 918 Protein length (aa) 305

Reciprocal best hits in model fungi

Strain name Gene / Protein name
Aspergillus nidulans AN4647
Neurospora crassa NCU04228

Orthologs in mushroom models

Strain name Gene / Protein name Pident E-value Bits
Agaricus bisporus var. burnettii JB137-S8 Agabi_varbur_1_116635 80.6 1.2E-165 514
Agrocybe aegerita Agrae_CAA7260602 80.8 1.627E-165 514
Agaricus bisporus var bisporus (H97) Agabi_varbisH97_2_196096 80.6 5.685E-165 512
Pleurotus eryngii ATCC 90797 Pleery1_1460039 77.1 1.768E-155 485
Hypsizygus marmoreus strain 51987-8 Hypma_RDB16916 78.4 2.262E-154 482
Lentinula edodes NBRC 111202 Lenedo1_1103790 76 2.529E-151 473
Lentinula edodes W1-26 v1.0 Lentinedodes1_17934 75 6.107E-150 469
Grifola frondosa Grifr_OBZ68101 75.9 6.181E-149 466
Pleurotus ostreatus PC15 PleosPC15_2_1013434 76.4 4.492E-143 449
Pleurotus ostreatus PC9 PleosPC9_1_50162 73.5 4.815E-142 446
Flammulina velutipes Flave_chr07AA00306 70 3.756E-137 432
Ganoderma sp. 10597 SS1 v1.0 Gansp1_127165 71.8 8.291E-137 431
Schizophyllum commune H4-8 Schco3_2631857 60.7 6.701E-124 394
Auricularia subglabra Aurde3_1_158341 66.1 2.538E-121 387
Lentinula edodes B17 Lened_B_1_1_2286 71.6 7.355E-50 179

Expression

Name Summary Attribution Assay type
Carbon metabolism Transcriptional changes along alternative morphogenetic paths of C. cinerea Xie et al. 2020 RNA-Seq
Sample Mean cpm SD cpm Se of mean
sclerotia 39.6874 3.2068 1.8515
oidia 45.1484 10.4747 6.0475
vegetative_mycelium 32.6529 3.9226 2.2647
primordia 19.1495 1.1713 0.6762
hyphal_knot 43.9112 4.6355 2.6763
young_fruiting_body 44.9775 6.433 3.7141
Complex carbon sources 1 (long incubation) Expression profiling on diverse complex carbon sources. Hegedus et al. RNA-Seq
Sample Mean cpm SD cpm Se of mean
Control - glucose 61.5448 9.5994 5.5422
Wheat bran 86.804 21.1149 12.1907
Horse manure 69.0214 20.2896 11.7142
Oak leaves 62.7055 22.2468 12.8442
Hay 66.9427 7.691 4.4404
Corn stalk 50.0671 13.4699 7.7769
Pectine 53.1147 4.003 2.3112
Microcrystalline cellulose 120.5463 11.3425 6.5486
Xylose 71.1728 22.8991 13.2208
Cellobiose 59.763 8.3411 4.8157
Lignin 96.3429 3.4337 1.9824
Apple peels 70.3112 6.6597 3.845
Coprinopsis challenged with bacteria Transcriptional response to Bacillus subtilis and Escherichia coli. Kombrink et al. 2018 RNA-Seq
Sample Mean cpm SD cpm Se of mean
Control 47.2186 2.6196 1.5124
Bsubtilis 51.3757 2.6675 1.5401
Ecoli 44.5554 0.9337 0.5391
Early development 1 Time series expression profiling of basidiospore and oidium germination Hegedus et al. QuantSeq
Sample Mean cpm SD cpm Se of mean
BS 0h 27.238 4.6664 2.6941
BS 4h 31.108 1.4958 0.8636
BS 8h 21.7292 1.518 0.8764
BS 12h 34.7259 1.2513 0.7224
Oidia 0 h 14.5066 4.2653 2.4626
Oidia 18 h 15.1739 5.905 3.4092
Sclerotia 27.8965 3.1746 1.8329
Early development 2 Time series expression profiling of mycelial growth, light induction and fruiting body initiation. Hegedus et al. QuantSeq
Sample Mean cpm SD cpm Se of mean
DM 12h 21.7123 1.2391 0.7154
DM 36h 9.4045 0.6875 0.3969
DM 60h 16.6756 5.6716 3.2745
DM 84h 25.6815 4.5313 2.6161
DM 108h 19.7926 2.7017 1.5598
DM 132h 20.8143 4.0275 2.3253
DM 156hAE 28.1058 3.7695 2.1763
ELI1hAE 12.0853 2.7271 1.5745
ELI2hAE 14.4413 1.6927 0.9773
LI2hAE 12.5171 3.0667 1.7706
LI6hAE 14.424 3.5324 2.0394
LI12hAE 13.5203 2.214 1.2783
LI18hAE 19.7656 5.3296 3.0771
LI 24hAE 27.1093 4.0826 2.3571
DM 156hAM 27.2331 5.043 2.9116
ELI1hAM 14.0939 4.1458 2.3936
ELI2hAM 10.6873 2.5337 1.4628
LI2hAM 10.3906 3.2887 1.8987
LI6hAM 16.9355 2.1152 1.2212
LI12hAM 22.1008 7.8827 4.5511
LI18hAM 28.6518 5.784 3.3394
LI 24hAM 37.9828 7.4374 4.294
LI 24hHK 46.1143 9.967 5.7544
L/D 6h 37.3843 4.4017 2.5413
L/D 12h 30.6922 4.0114 2.316
L/D 18h 20.6758 3.4101 1.9688
L/D 24h 15.0799 0.7898 0.456
Fruiting body development RNA-Seq analysis of fruiting body development Krizsan et al. 2019 RNA-Seq
Sample Mean cpm SD cpm Se of mean
Vegetative mycelium 71.3414 19.4133 11.2083
Hyphal knots 48.4375 13.9899 8.0771
Primordium 1 47.1669 4.7446 2.7393
Primordium 2 73.0983 19.557 11.2912
Young Fruiting body cap 69.6355 18.5141 10.6891
Younf fruiting body gill 47.3093 35.7413 20.6352
Young fruiting body stipe 42.9139 9.9344 5.7356
Mature fruiting body cap_gill 63.4536 5.5378 3.1973
Mature fruiting body stipe 145.8662 20.2761 11.7064
Nitrogen sources (12h incubation) Expression profiling on diverse nitrogen sources. Hegedus et al. RNA-Seq
Sample Mean cpm SD cpm Se of mean
Complete medium - control 88.9643 7.0119 4.0483
NH4NO3 31.3213 3.0953 1.7871
Proline 30.5809 3.5112 2.0272
Tryptophan 64.4008 16.7924 9.6951
Isoleucin 31.8533 2.6314 1.5193
Arginine 34.3534 4.833 2.7903
Metionine 35.4422 4.9726 2.8709
NaNO3 46.2675 6.3112 3.6438
Plant biomass (12h incubation) Expression profiling on diverse plant biomasses as carbon sources. Hegedus et al. RNA-Seq
Sample Mean cpm SD cpm Se of mean
Glucose - control 88.9643 7.0119 4.0483
Citrus peel 103.7955 10.7184 6.1883
Poplar leaves 66.7015 10.1199 5.8427
Typha leaves 63.7509 11.0003 6.351
Overwintered Salix leaves 69.594 3.088 1.7829
Reed flowering 74.6811 6.5019 3.7539
Tigernut 101.1702 13.0518 7.5354
Energy cane 90.4468 4.9363 2.85
Guar gum 71.5678 43.5188 25.1256
Apple peels 35.3019 6.4094 3.7005
Cellobiose 22.2036 4.6079 2.6604
Corn stalk 55.3349 9.9318 5.7342
Horse manure 93.9214 47.5974 27.4804
Lignin 101.5534 28.8497 16.6564
Microcrystalline cellulose 44.7233 12.0455 6.9545
Oak leaves 67.273 9.2662 5.3499
Pectin esterified 56.6643 11.6059 6.7007
Poplar sawdust 60.1349 8.0011 4.6195
Wheat bran 115.5278 11.7826 6.8027
Chlamydomonas reinhardtii 85.0408 16.1437 9.3206
Vertatryl alcohol 26.13 1.6112 0.9302
Furfural 46.8863 7.4594 4.3067
Autoclaved mycelium 73.4164 9.1222 5.2667
Simple and complex carbon and nitrogen sources Expression profiling on diverse complex carbon and nitrogen sources. Hegedus et al. RNA-Seq
Sample Mean cpm SD cpm Se of mean
Glucose control 63.5937 7.5247 4.3444
Ribose 68.6112 3.174 1.8325
Mannose 63.2391 6.2398 4.4122
Fructose 64.8615 7.6065 4.3916
Arabinose 63.8744 4.4504 2.5694
Xylose 57.8871 1.7529 1.012
Galacturonic acid 67.7862 5.8995 3.4061
Rhamnogalacturonan 67.7441 0.9352 0.54
Pectin esterified 68.2318 6.3149 3.6459
Polygalacturonic acid 64.9004 3.127 1.8054
Sodium acetate 60.1428 0.5195 0.2999
No nitrogen 54.7989 2.4688 1.4253
BSA 57.7808 4.2605 2.4598
Glutamine 58.6512 7.3263 4.2299
No phosphate 50.3706 2.58 1.4896
No carbon 67.5529 1.7043 1.2051
No sulphur 49.3053 6.4697 3.7353
Simple and complex carbon sources (12h incubation) Expression profiling on diverse complex carbon sources. Hegedus et al. RNA-Seq
Sample Mean cpm SD cpm Se of mean
Glucose - control 88.9643 7.0119 4.0483
Amylose 49.1803 3.2934 1.9015
Fucose 60.9076 7.377 4.2591
Galactose 61.2622 3.3829 1.9531
Lactose 51.202 2.9509 1.7037
Maltose 53.4204 4.4695 2.5805
Mannitol 56.1316 10.0492 5.8019
Rhamnose 73.0229 15.6984 9.0635
Sorbitol 50.2665 6.4935 3.749
Trehalose 54.7433 17.0436 9.8401
Glycerol 64.4409 16.7142 9.6499
Glucuronic acid 50.6883 7.7211 4.4578
Arabinan 63.4743 14.6088 8.4344
Galactan 64.2724 13.5555 7.8263
Galactomannan 70.4273 17.4263 10.0611
Glucan 76.1909 9.9086 5.7208
Xylan 62.6881 19.6372 11.3376
Xyloglucan 52.3137 12.1735 7.0284
Arabinogalactan 55.0899 5.0621 2.9226
Pectin 145.7317 46.2303 26.6911
Rhamnogalacturonan 156.0178 29.987 17.313
Polygalacturonic acid 72.0163 20.514 11.8438
Mannan 71.9339 10.3159 5.9559
Amylopectin 83.4298 13.5965 7.8499
Inulin 36.5395 2.9129 1.6818
BSA 127.9671 14.3703 8.2967
Starvation induced by water agar transfer Expression profiling on starvation induced by transfer to water agar Hegedus et al. QuantSeq
Sample Mean cpm SD cpm Se of mean
Control 16.6756 5.6716 3.2745
2h WAT 25.5614 2.6447 1.5269
4h WAT 26.6152 1.1216 0.6476
8h WAT 26.5664 2.847 1.6437
16h WAT 19.0926 2.9879 1.7251
24h WAT 22.3802 4.165 2.4046
WAT hyphal knot -30h 12.3668 0.7805 0.4506
WAT hyphal knot -22h 15.036 6.103 3.5236
WAT hyphal knot -15h 14.0459 2.9659 1.7124
WAT hyphal knot -7.5h 15.989 3.6382 2.1005
WAT hyphal knot 15.3129 4.5877 2.6487
WAT hyphal knot +7.5h 18.1412 1.8718 1.0807
Straw time series Time series expression profiling on straw as a carbon source Hegedus et al. RNA-Seq
Sample Mean cpm SD cpm Se of mean
Glucose control 46.8055 20.5786 11.8811
Straw 3h 48.2933 5.2299 3.0195
Straw 6h 58.5447 6.261 3.6148
Straw 12h 46.4863 4.8318 2.7896
Straw 24h 56.9919 11.2948 6.521
Stress conditions 1 Expression profiling under various stress conditions Hegedus et al. QuantSeq
Sample Mean cpm SD cpm Se of mean
Flask control 27.4481 5.314 3.0681
Frost (-20C, 30min) 34.98 5.677 3.2776
Heat shock (47C, 2h) 42.1212 3.9591 2.2858
High CO2 30.8119 6.6758 3.8543
Drought (4% agar, 12h) 32.6657 3.9834 2.2998
Oxidative (1mM H2O2, 3h) 15.6162 1.4565 0.8409
Acidic (pH4, 3h) 27.1043 3.0072 1.7362
Alkaline (pH9, 3h) 31.7167 1.8608 1.0743
Osmotic (sorbitol 2h) 48.3742 12.2023 7.045
CongoRed (3h) 30.602 8.0336 4.6382
Cobalt chloride control 37.1373 3.2524 1.8777
Cobalt chloride 2mM 39.3874 8.793 5.0766
Stress conditions 2 Expression profiling under various stress conditions Hegedus et al. QuantSeq
Sample Mean cpm SD cpm Se of mean
Flask control 29.6621 1.1625 0.6712
Cold stimulation 22.3585 3.3922 1.9585
Scratched surface 8.3264 1.9353 1.1174
Ca2+, 200mM, 24h 24.0729 1.9515 1.1267
Cu2+, 2mM, 6h 17.72 6.4978 3.7515
Voriconazole 29.1769 3.7562 2.1686
Trichoderma interaction, early 17.7632 1.6168 0.9335
Trichoderma interaction 60h 23.9507 14.6534 8.4601
Cobalt chloride 2mM repeat 19.4712 3.7438 2.1615
Hypoxia 33.7085 4.4811 2.5872
Hypoxia control 32.3231 5.4511 3.1472
Protoplastation control 28.2077 2.9851 2.1108
Protoplastation 3.5h 13.4971 4.0089 2.8347
Protoplastation 1.5h 17.6301 6.5202 4.6105

General data

Systematic name -
Protein id CopciAB_40535.T0
Description Phytanoyl-CoA dioxygenase (PhyH)

Annotation summary

0 100 200 300 305

Conserved domains

Analysis Signature accession Signature description InterPro Accession Start End
Pfam PF05721 Phytanoyl-CoA dioxygenase (PhyH) IPR008775 13 264

SignalP

Prediction Start End Score
No records

Transmembrane domains

Domain n Start End Length
No records

InterPro

Accession Description
IPR008775 Phytanoyl-CoA dioxygenase-like

GO

Go id Term Ontology
No records

KEGG

KEGG Orthology
No records

EggNOG

COG category Description
I Phytanoyl-CoA dioxygenase (PhyH)

CAZy

Class Family Subfamily
AA AA3 AA3_2

Transcription factor

Group
No records

Conservation of CopciAB_40535 across fungi.

Arrow shows the origin of gene family containing CopciAB_40535.

Protein

Sequence id CopciAB_40535.T0
Sequence >CopciAB_40535.T0
MPEYLSQEQIDQFNKNGYLVLPSFLSEEETSALRKRSKELLDEFDPSTHPLTKFTTGDDDHVGDDYFLTSGDKIR
YFLETDAVDGDGKLNREKQKAVNKIGHGLHELDPLFRKVTLENERIRAVVRDLKFHRDPVALQSMVITKQPQIGG
EVPEHNDSTFLYTDPPSALGFWIALEKCTESNGALSFLPGSHKTTPITKRFVRLGPGKGTGFETLVSPEEEKRVA
EEGKKGEYTLETCNPGDLVLIHGSVLHKSERNTSPNTRFAYTFHMIESPPYANYDEKNWLQPTPEMPFSRILPPG
EINVF
Length 305

Coding

Sequence id CopciAB_40535.T0
Sequence >CopciAB_40535.T0
ATGCCAGAATATCTCAGTCAAGAACAGATTGACCAGTTCAATAAGAACGGATATCTCGTTCTGCCGTCATTCTTG
TCGGAAGAAGAGACATCCGCGTTGCGGAAGCGCTCTAAGGAGCTGCTGGACGAATTTGACCCTTCTACCCACCCT
CTGACCAAGTTCACGACAGGAGACGATGACCACGTCGGAGACGACTATTTCCTGACGTCTGGTGACAAGATACGC
TATTTCTTGGAAACGGACGCGGTGGATGGAGATGGAAAGTTGAACAGGGAAAAGCAGAAAGCTGTGAATAAGATT
GGACATGGCTTGCACGAGCTTGACCCTCTCTTCCGGAAAGTGACTTTGGAGAATGAACGCATTAGAGCTGTGGTT
AGGGATTTGAAGTTCCATCGGGATCCTGTTGCTCTCCAGTCGATGGTAATCACGAAGCAGCCGCAGATTGGTGGC
GAAGTGCCTGAGCATAATGACTCGACATTCCTGTACACAGACCCACCATCCGCCCTCGGCTTCTGGATCGCCCTC
GAGAAATGCACAGAATCCAACGGAGCCCTGTCTTTCCTTCCCGGATCGCACAAGACCACGCCAATCACCAAACGT
TTCGTTCGTCTCGGGCCTGGAAAGGGTACGGGGTTCGAGACGTTGGTCTCACCCGAGGAAGAGAAACGTGTGGCT
GAGGAGGGCAAGAAGGGGGAATATACCTTGGAGACTTGCAATCCAGGCGATTTGGTCCTCATCCATGGCTCGGTG
CTGCACAAATCGGAGAGGAACACGAGTCCCAATACGAGGTTTGCGTATACCTTCCATATGATCGAGTCGCCGCCC
TATGCAAATTATGACGAGAAGAATTGGTTGCAGCCTACACCCGAGATGCCGTTCTCGAGGATCCTGCCTCCGGGG
GAGATCAACGTGTTCTAG
Length 918

Transcript

Sequence id CopciAB_40535.T0
Sequence >CopciAB_40535.T0
ACTTTCAACCACCAAGTGCCGTCCTTGTGCATAGTCTCTGCTTTCCATCTCAACAATGCCAGAATATCTCAGTCA
AGAACAGATTGACCAGTTCAATAAGAACGGATATCTCGTTCTGCCGTCATTCTTGTCGGAAGAAGAGACATCCGC
GTTGCGGAAGCGCTCTAAGGAGCTGCTGGACGAATTTGACCCTTCTACCCACCCTCTGACCAAGTTCACGACAGG
AGACGATGACCACGTCGGAGACGACTATTTCCTGACGTCTGGTGACAAGATACGCTATTTCTTGGAAACGGACGC
GGTGGATGGAGATGGAAAGTTGAACAGGGAAAAGCAGAAAGCTGTGAATAAGATTGGACATGGCTTGCACGAGCT
TGACCCTCTCTTCCGGAAAGTGACTTTGGAGAATGAACGCATTAGAGCTGTGGTTAGGGATTTGAAGTTCCATCG
GGATCCTGTTGCTCTCCAGTCGATGGTAATCACGAAGCAGCCGCAGATTGGTGGCGAAGTGCCTGAGCATAATGA
CTCGACATTCCTGTACACAGACCCACCATCCGCCCTCGGCTTCTGGATCGCCCTCGAGAAATGCACAGAATCCAA
CGGAGCCCTGTCTTTCCTTCCCGGATCGCACAAGACCACGCCAATCACCAAACGTTTCGTTCGTCTCGGGCCTGG
AAAGGGTACGGGGTTCGAGACGTTGGTCTCACCCGAGGAAGAGAAACGTGTGGCTGAGGAGGGCAAGAAGGGGGA
ATATACCTTGGAGACTTGCAATCCAGGCGATTTGGTCCTCATCCATGGCTCGGTGCTGCACAAATCGGAGAGGAA
CACGAGTCCCAATACGAGGTTTGCGTATACCTTCCATATGATCGAGTCGCCGCCCTATGCAAATTATGACGAGAA
GAATTGGTTGCAGCCTACACCCGAGATGCCGTTCTCGAGGATCCTGCCTCCGGGGGAGATCAACGTGTTCTAGGT
GCTCCTTCGACAACGGTCCTGCGGGTGGTAGGATATGAAGAAGCAAGTGACGGAATCTTTTGTGTTACAACAGTT
TGGTGTTAGCGGTATAGCAACAGTGTGGTATCTCTGTGTTAAATAGGTATTATCTAAATGGAATCAGCGTCACG
Length 1124

Gene

Sequence id CopciAB_40535.T0
Sequence >CopciAB_40535.T0
ACTTTCAACCACCAAGTGCCGTCCTTGTGCATAGTCTCTGCTTTCCATCTCAACAATGCCAGAATATCTCAGTCA
AGAACAGATTGACCAGGCATGCAACGTATTCCCTGTTGGATCAATGGACGACTGACTCTCGACTCGGATTTGCAG
TTCAATAAGAACGGGTATGGTTCGTCTGGTAGTTGATACTGGAGAACGTCTGAACTGATGTAAAGCGAAGATATC
TCGTTCTGCCGTCATTCTTGTCGGAAGAAGAGACATCCGCGTTGCGGAAGCGCTCTAAGGAGCTGCTGGACGAAT
TTGACCCTTCTACCCACCCTCTGGTATGATCCGCCGACGTACTTCGTCGACATGAACTCACATTTAAGTCTATGG
GTTTGCAGACCAAGTTCACGACAGGAGACGATGACCACGTCGGAGACGACTATTTCCTGACGTCTGGTGACAAGA
TGTCAGAGTTCATCTACCTCGATTATTCGAAAGTCTCTGCTGACGCGGGTTGTAGACGCTATTTCTTGGAAACGG
ACGCGGTGGATGGAGATGGAAAGTTGAACAGGGAAAAGCAGAAAGCTGTGAATAAGATTGGACATGGTGCGTTTA
TCCGATCCTTGCTTTGTCCATTGCTGGTTACCTGACCCGTCCCTACGTTGAATCCAAGGCTTGCACGAGCTTGAC
CCTCTCTTCCGGAAAGTGACTTTGGAGAATGAACGCATTAGAGCTGTGGTTAGGGATTTGAAGTTCCATCGGGAT
CCTGTTGGTATGTCTGCGTCACCAAGGCAAGGACGAATGTAACTGATGCGGATGTCTTGGACGGAATTCAGCTCT
CCAGTCGATGGTAATCACGAAGCAGCCGCAGATTGGTGGCGAAGGTACGCTCCTTCTTGTGAGGTTGCTCGAAAT
TGCGATGCTGACCTCAAGGGATGGACTGTAGTGCCTGAGCATAATGACTCGTAGGTAACCTTTCTCTCACCCTGC
GCAAATCAGTGCATTGAATTCGCATCCTTCGCAGGACATTCCTGGTAAGCTCTCAACATCCCGATCTATCTTCTC
CCCAGCCCCTCAGGCTTACTTAACAACACACTCCGACACCTCCAAACAGTACACAGACCCACCATCCGCCCTCGG
CTTCTGGATCGCCCTCGAGAAATGCACAGAATCCAACGGAGCCCTGTCTTTCCTTCCCGGATCGCACAAGACCAC
GCCAATCACCAAACGTTTCGTTCGTCTCGGGCCTGGAAAGGGTACGGGGTTCGAGACGTTGGTCTCACCCGAGGA
AGAGAAACGTGTGGCTGAGGAGGGCAAGAAGGGGGAATATACCTTGGAGACTTGCAATCCAGGTGGGTCTTTCTT
ATCTCGGCTGTACGGGTTGAAGTTGTAGCTGACGATGATTGGGTGAATGGACGAATTTTCACATTGTTGTTGTAG
GCGATTTGGTCCTCATCCATGGCTCGGTGCTGCACAAATCGGAGAGGAACACGAGTCCCAATACGAGGTTTGCGT
ATACCTTCCATATGATCGAGTCGCCGCCCTATGCAAATTATGACGAGAAGAATTGGTTGCAGCCTACACCCGAGA
TGCCGTTCTCGAGGATCCTGCCTCCGGGGGAGATCAACGTGTTCTAGGTGCTCCTTCGACAACGGTCCTGCGGGT
GGTAGGATATGAAGAAGCAAGTGACGGAATCTTTTGTGTTACAACAGTTTGGTGTTAGCGGTATAGCAACAGTGT
GGTATCTCTGTGTTAAATAGGTATTATCTAAATGGAATCAGCGTCACG
Length 1773