Gene loci information

Transcript annotation

  • This transcript has been annotated as Oxygen-dependent coproporphyrinogen-III oxidase.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_1 g11025 g11025.t1 TSS g11025.t1 13461726 13461726
chr_1 g11025 g11025.t1 isoform g11025.t1 13461961 13463079
chr_1 g11025 g11025.t1 exon g11025.t1.exon1 13461961 13463079
chr_1 g11025 g11025.t1 cds g11025.t1.CDS1 13461961 13463079
chr_1 g11025 g11025.t1 TTS g11025.t1 13463163 13463163

Sequences

>g11025.t1 Gene=g11025 Length=1119
ATGGCAACGGCTCTACTTTGCTTCAGAAGTACAGGAACTGTCTTAGTGGCAGCAGCAGGA
TTTACGGCAACGGCAATTCATATCAGACGTGCAAATATGGAATCAGTGAAAAAAATTGAC
GTGTCAAAATTCATGGCAACACCGATTACACCGGTAGAAAAATTGAGTAAAACTAGCAAT
GATATGAGAACAAGAATGGAATTAATGATTATGAGAATTCAAGCTGATTTTGTTCGTGCA
CTTGAAGGTGAAGAGAATTTTGGAAAGAAATTCAAGGTTGATCGTTGGGAGCGAAAGGAA
GGAGGTGGTGGAATTACATGTGTAATCCAAGATGGTGATGTTTTTGAAAAAGGTGGTGTC
AATGTGTCAATCGTCTCAGGAATGTTGCCAAAAGAAGCAGTTCAACAAATGAGAGCTCGT
GGCAAAGCAATGTCGTCTGATGGTGAATTGCCATTTTTTGCTGCAGGAATAAGTTGCGTC
ATTCATCCAAGAAATCCTTATGTGCCGACAATTCATTTCAATTATCGTTACTTTGAACTT
GTTGATAATGATGGAAAGAAAATGTGGTGGTTTGGTGGTGGCACTGACTTGACACCTTAC
TATTACAATCAAGAAGATGCTTTACATTTCCATAAGACTCTTAAAGATGCTTGTGATGTT
CATGACAAAAAATTATATCCAAAATACAAAGAATGGTGTGACAAATATTTTACAATTACC
CACCGTAATGAAACTCGTGGAATTGGTGGAATTTTCTTTGATGACATTGACACTCCATCA
ATGGAAGAATGCTTTGAATTTGCAACAACTTGTGCTGAAGCTATCAGTCCATCATACATC
CCACTTGTCAAAAAACACAAAAATGATAACTATGGTGATCGTGAAAGAACATGGCAATTG
ATAAGACGTGGACGTTATGTGGAATTCAATTTAGTTTATGATCGTGGAACAAAATTCGGA
CTTTATACACCGGGTGCTCGCATTGAAAGCATTTTAATGTCACTACCTCAAACTGCACGC
TGGGAATACATGCATGAGCCAGATGCTGACAGTGATGAAGGAAAATTACTCAAAGTTACA
AGACAACCAATTGATTTTGTGAAGCTACTCTCAAAGTAA

>g11025.t1 Gene=g11025 Length=372
MATALLCFRSTGTVLVAAAGFTATAIHIRRANMESVKKIDVSKFMATPITPVEKLSKTSN
DMRTRMELMIMRIQADFVRALEGEENFGKKFKVDRWERKEGGGGITCVIQDGDVFEKGGV
NVSIVSGMLPKEAVQQMRARGKAMSSDGELPFFAAGISCVIHPRNPYVPTIHFNYRYFEL
VDNDGKKMWWFGGGTDLTPYYYNQEDALHFHKTLKDACDVHDKKLYPKYKEWCDKYFTIT
HRNETRGIGGIFFDDIDTPSMEECFEFATTCAEAISPSYIPLVKKHKNDNYGDRERTWQL
IRRGRYVEFNLVYDRGTKFGLYTPGARIESILMSLPQTARWEYMHEPDADSDEGKLLKVT
RQPIDFVKLLSK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g11025.t1 Gene3D G3DSA:3.40.1500.10 - 23 368 2.5E-161
2 g11025.t1 PANTHER PTHR10755:SF0 OXYGEN-DEPENDENT COPROPORPHYRINOGEN-III OXIDASE, MITOCHONDRIAL 42 367 5.1E-148
3 g11025.t1 PANTHER PTHR10755 COPROPORPHYRINOGEN III OXIDASE, MITOCHONDRIAL 42 367 5.1E-148
19 g11025.t1 PIRSF PIRSF000166 Coproporphyri_ox 21 368 5.8E-144
5 g11025.t1 PRINTS PR00073 Coprogen oxidase signature 89 105 1.2E-88
7 g11025.t1 PRINTS PR00073 Coprogen oxidase signature 106 127 1.2E-88
4 g11025.t1 PRINTS PR00073 Coprogen oxidase signature 154 178 1.2E-88
6 g11025.t1 PRINTS PR00073 Coprogen oxidase signature 189 211 1.2E-88
10 g11025.t1 PRINTS PR00073 Coprogen oxidase signature 226 255 1.2E-88
9 g11025.t1 PRINTS PR00073 Coprogen oxidase signature 298 325 1.2E-88
8 g11025.t1 PRINTS PR00073 Coprogen oxidase signature 327 353 1.2E-88
1 g11025.t1 Pfam PF01218 Coproporphyrinogen III oxidase 65 367 2.0E-136
15 g11025.t1 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
16 g11025.t1 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
17 g11025.t1 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 15 -
18 g11025.t1 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 16 19 -
14 g11025.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 372 -
21 g11025.t1 ProSitePatterns PS01021 Coproporphyrinogen III oxidase signature. 230 254 -
11 g11025.t1 SUPERFAMILY SSF102886 Coproporphyrinogen III oxidase 58 367 5.1E-133
12 g11025.t1 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 18 -
20 g11025.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 5 27 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0004109 coproporphyrinogen oxidase activity MF
GO:0055114 NA NA
GO:0006779 porphyrin-containing compound biosynthetic process BP

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below.

Raw TPM values