Gene loci information

Transcript annotation

  • This transcript has been annotated as Probable cytochrome P450 313a4.

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_3 g1567 g1567.t1 TSS g1567.t1 11908147 11908147
chr_3 g1567 g1567.t1 isoform g1567.t1 11908186 11910427
chr_3 g1567 g1567.t1 exon g1567.t1.exon1 11908186 11908799
chr_3 g1567 g1567.t1 cds g1567.t1.CDS1 11908186 11908799
chr_3 g1567 g1567.t1 exon g1567.t1.exon2 11909587 11910427
chr_3 g1567 g1567.t1 cds g1567.t1.CDS2 11909587 11910427
chr_3 g1567 g1567.t1 TTS g1567.t1 NA NA

Sequences

>g1567.t1 Gene=g1567 Length=1455
ATGTGGTTTTTTGATATTTTAATTTTATCTTTTTGCTATGGATTTATTTATTATTTTTGG
AAGCTGATTAGTTATTATTTACAAATATTTAAAATTCCAAAATCATCATTCAATGGATCT
CTAGAAAAAGTATTGAAATTTATCAATGGTGATACAAAATTTCTATTTGAACAAGTATTT
TCAAGTTTAAAAGTCAATGGACTTACAAGGTCGTGGGTTGGGCCTTTTGTTTTCATTAAT
ATTATACATCCAGAAGATATGAAGATTATTTTTACTTCGAAAAATTGTCTTGACAAACCA
AACTTTGTAAAGAAATATTTAAAACTTCGAAATGGTTTAGTATTTGGTGACATTAAACCA
TGGAAGTCGCACAGAAAAATTCTCAATTATCATTTTGGTCTTCAATCTGTTCAGTCAATG
ATTCCAATGTTCAATAAAAAAGTTAAAATATTAATTGATAATTTCGAAAAAATGGTTGGA
AAAAAAGAATTTGATATTTTTTACTTTGTGGCTGCAGCAACTCTTGACAATATATTAACT
CTCATGGGATTAGACTTAGATATTCAAAATAAAGATGAAAAACAACGTGATGTTTTTATT
CAAGATGTTAAATGTTATACTGAAATTGTATTGCTGAGAGTTATGAAAATCTGGCTTTAT
TTCGACTTTTTTTTTGACCGATCATATCTTGGTAAAAAGCATAAAGAAGCAAAGTCAAGT
ATTGGAGATAAATTAGTTAAGAATGTTATGAAAAACATTCAAGAAATTCCAAAAAGTGAG
AAAAACTTTATCCAAGCTTTAATGGATCCAAAATATAATTTAAAAGATACTGAAATTTAT
GACGAAATTTTTACAATTATAATTGCTGCTCAAGATACTTCAGCAGTTGCATTATCAAAT
GTTCTTCTTTTACTTGCAATGCATAAAAATGTTCAAAATAAAGTTTTTGATGAACTAAGA
AAAATAATTGGAAATGAAATTGATTATTTAGATTTAGAAAAATTGAATGAACTTGATTAT
CTTGAGATGGTCATAAATGAAGCAATGCGGATTCTGCCTGTTATACCACTGTTTTTCAAA
AAGAATGAAACAAATTTGACGACAAATGAAGGTTACACAATTCCAGCTGGCTCCAATCTT
TTCATTTCAGTTTATAGCATGCATAGAAGTAAGAATGTTTGGGGGGAAGATGCAGAAACT
TTTAAACCAGAAAGATTTGAGAAAGAAAATTTCGAGAAAATTCATCCTTATGCTTTCATT
CCATTCAGTAAAGGATCAAGAATGTGTCTTGGTTATCGTTATGCAATGGCTTTGATGAAG
ATACAATTAGCAAACATTATTATGAAATATGAAGTTGATACGAGCTTAAAATTAGATGAA
TTAGAATTCAAATTGAATGTTACATTGAATATTGTACAAGGTCATATGATAAGTTTAAAT
AAAAGAGATTTGTAA

>g1567.t1 Gene=g1567 Length=484
MWFFDILILSFCYGFIYYFWKLISYYLQIFKIPKSSFNGSLEKVLKFINGDTKFLFEQVF
SSLKVNGLTRSWVGPFVFINIIHPEDMKIIFTSKNCLDKPNFVKKYLKLRNGLVFGDIKP
WKSHRKILNYHFGLQSVQSMIPMFNKKVKILIDNFEKMVGKKEFDIFYFVAAATLDNILT
LMGLDLDIQNKDEKQRDVFIQDVKCYTEIVLLRVMKIWLYFDFFFDRSYLGKKHKEAKSS
IGDKLVKNVMKNIQEIPKSEKNFIQALMDPKYNLKDTEIYDEIFTIIIAAQDTSAVALSN
VLLLLAMHKNVQNKVFDELRKIIGNEIDYLDLEKLNELDYLEMVINEAMRILPVIPLFFK
KNETNLTTNEGYTIPAGSNLFISVYSMHRSKNVWGEDAETFKPERFEKENFEKIHPYAFI
PFSKGSRMCLGYRYAMALMKIQLANIIMKYEVDTSLKLDELEFKLNVTLNIVQGHMISLN
KRDL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g1567.t1 Gene3D G3DSA:1.10.630.10 Cytochrome p450 36 483 2.0E-90
2 g1567.t1 PANTHER PTHR24291:SF140 CYTOCHROME P450 4C3-RELATED 29 482 1.6E-79
3 g1567.t1 PANTHER PTHR24291 CYTOCHROME P450 FAMILY 4 29 482 1.6E-79
5 g1567.t1 PRINTS PR00463 E-class P450 group I signature 278 295 2.2E-14
11 g1567.t1 PRINTS PR00385 P450 superfamily signature 289 306 3.5E-8
6 g1567.t1 PRINTS PR00463 E-class P450 group I signature 298 324 2.2E-14
7 g1567.t1 PRINTS PR00463 E-class P450 group I signature 342 360 2.2E-14
10 g1567.t1 PRINTS PR00385 P450 superfamily signature 343 354 3.5E-8
4 g1567.t1 PRINTS PR00463 E-class P450 group I signature 419 429 2.2E-14
9 g1567.t1 PRINTS PR00385 P450 superfamily signature 420 429 3.5E-8
8 g1567.t1 PRINTS PR00463 E-class P450 group I signature 429 452 2.2E-14
12 g1567.t1 PRINTS PR00385 P450 superfamily signature 429 440 3.5E-8
1 g1567.t1 Pfam PF00067 Cytochrome P450 68 455 5.6E-76
17 g1567.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
19 g1567.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 27 -
15 g1567.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 28 165 -
18 g1567.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 166 184 -
16 g1567.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 185 484 -
21 g1567.t1 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 422 431 -
13 g1567.t1 SUPERFAMILY SSF48264 Cytochrome P450 64 482 4.32E-88
20 g1567.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 7 29 -

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