Gene loci information

Transcript annotation

  • This transcript has been annotated as Cytochrome P450 4d2.

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_2 g4831 g4831.t2 TSS g4831.t2 5163901 5163901
chr_2 g4831 g4831.t2 isoform g4831.t2 5163915 5164979
chr_2 g4831 g4831.t2 exon g4831.t2.exon1 5163915 5164074
chr_2 g4831 g4831.t2 cds g4831.t2.CDS1 5163915 5164074
chr_2 g4831 g4831.t2 exon g4831.t2.exon2 5164169 5164979
chr_2 g4831 g4831.t2 cds g4831.t2.CDS2 5164169 5164977
chr_2 g4831 g4831.t2 TTS g4831.t2 NA NA

Sequences

>g4831.t2 Gene=g4831 Length=971
ATGTGGTTCATTTACGTTGCTCTGTTTATTTTATTTATTTTTATTCTCGATGATTTTCTA
CTTGATAAGCGGCAATTTAAATTAGCTGAAGTTTTCAATGGACCTAAAAGATTGCCACTT
ATTGGAAATGTTAACATTTTCTTAAACCTTAAACCTAAAGACTATTATGATTTTGTAAAG
GATTTTATGGAAAAATATGCACGCACTGGAACTCGTATGGCACGATATTGGGCTGGAAAT
CAACTTGAGTTGATGGTTGATGACTACAAGTTACTAGAGAAAATTATGTCAAATCCAAAG
TTCATTTCAAAAAGTTCTCAATATGGATTTTTGCATGGAGTGTTGGGTGAAGGACTTTTA
TTTAGCACAGATCAAAAATGGTTCAATCGTCGCAGAATCATCACACCAACTTTTCATTTT
AAAATTCTTGAGCAATTTTTTGAAGTTTTTCGTAAACACAATGAATTGTTAATGGAAGAA
ATCAAAGAAAAATCAAAGAATGGAAAACCAATCAACATTTTTCCAATTGTAACTTCTTCT
GTGCTTAATGCACTTTGTGAAACTGCAATGGGTTATGAAATGAAACCACAAGATTCTGAT
TATTTAAATGCTGTTCGTGAAGTTGGTCATATTGTTGCTACAAGATTCTTAAGTCCTTGG
CTAAGAATTGAATTTATTTACAATATGACAGAAGGAAAAAGAAAGCAAGACAAATGTGCT
AAAATTATGCATGAATTTACAACAAAATTGATTGAAGAACGAAGAAAATTGTTATCTAAA
AGTGAAAAGCAGAATTTATCAAATTTAGATGATGATGATATTGGTTTAAAGAAGAAAATG
TGCTTACTTGATGTTTTACTGCAGTCAACTGTTGACAATAAACCATTAAGTAATGCAGAC
ATTCAAGAAGAAGTTGACACTTTTACTTTTGCCGGACATGATACAACCACAAATTGCATC
TGTTTCACACT

>g4831.t2 Gene=g4831 Length=323
MWFIYVALFILFIFILDDFLLDKRQFKLAEVFNGPKRLPLIGNVNIFLNLKPKDYYDFVK
DFMEKYARTGTRMARYWAGNQLELMVDDYKLLEKIMSNPKFISKSSQYGFLHGVLGEGLL
FSTDQKWFNRRRIITPTFHFKILEQFFEVFRKHNELLMEEIKEKSKNGKPINIFPIVTSS
VLNALCETAMGYEMKPQDSDYLNAVREVGHIVATRFLSPWLRIEFIYNMTEGKRKQDKCA
KIMHEFTTKLIEERRKLLSKSEKQNLSNLDDDDIGLKKKMCLLDVLLQSTVDNKPLSNAD
IQEEVDTFTFAGHDTTTNCICFT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g4831.t2 Gene3D G3DSA:1.10.630.10 Cytochrome p450 31 323 5.2E-49
2 g4831.t2 PANTHER PTHR24291:SF143 CYTOCHROME P450 4D1-RELATED 8 323 3.1E-75
3 g4831.t2 PANTHER PTHR24291 CYTOCHROME P450 FAMILY 4 8 323 3.1E-75
1 g4831.t2 Pfam PF00067 Cytochrome P450 34 322 9.3E-40
8 g4831.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 21 -
9 g4831.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 5 -
10 g4831.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 6 16 -
11 g4831.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 17 21 -
7 g4831.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 22 323 -
5 g4831.t2 SUPERFAMILY SSF48264 Cytochrome P450 30 323 2.49E-48
4 g4831.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 2 21 -

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:0020037 heme binding MF
GO:0016705 oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen MF
GO:0005506 iron ion binding MF
GO:0055114 NA NA

KEGG

Orthology

This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).

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. There were no conditions that were differentially expressed