Gene loci information

Transcript annotation

  • This transcript has been annotated as Cytochrome P450 4d8.

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 g9361 g9361.t2 isoform g9361.t2 2254651 2256575
chr_1 g9361 g9361.t2 exon g9361.t2.exon1 2254651 2255161
chr_1 g9361 g9361.t2 cds g9361.t2.CDS1 2254989 2255161
chr_1 g9361 g9361.t2 exon g9361.t2.exon2 2255222 2255414
chr_1 g9361 g9361.t2 cds g9361.t2.CDS2 2255222 2255414
chr_1 g9361 g9361.t2 exon g9361.t2.exon3 2255473 2255995
chr_1 g9361 g9361.t2 cds g9361.t2.CDS3 2255473 2255995
chr_1 g9361 g9361.t2 exon g9361.t2.exon4 2256125 2256575
chr_1 g9361 g9361.t2 cds g9361.t2.CDS4 2256125 2256417
chr_1 g9361 g9361.t2 TSS g9361.t2 2256887 2256887
chr_1 g9361 g9361.t2 TTS g9361.t2 NA NA

Sequences

>g9361.t2 Gene=g9361 Length=1678
ATGCGCTTCCATTAGCTGCAAAATTTTTCAATATTTATGGTGATACTGTGAGAATTTGGG
CATTTAAAAGATTTGTTCTTTTAACTAAAGATCCAAAATTTTTCGAAGTTATTCTATCAA
GTCAAAAGCAATTAACTAAAAATAATCTTTATGATTTGATGCACGACTGGCTTGGTGGTG
GACTTTTGCTTTCAACAAATGAAAAATGGTTTCAAAGAAGAAAAATTATAACTCCAACAT
TTCATTTTAAAATATTGCAAGAATTTGTCGATGTTTTCAATTATCAGAATAATATTTTTG
TTAAAAAACTGAAAGAACTAAAGAGTGAAAATCCATTTGATATTTATAACATGGTTACAT
TAATGTCACTCGATATCATTAGTCAAACAGCAATGGGTGTTGAAATTCATGCACAAAATG
ATGATTCTGAATATGCACAAACTGTTAAAGAAATGACATACATAATTATCGATCGAATGA
TGCATATTTGGAAAAGACCAAATTTTATTTATCAATTTACATCTGATAAAGTAAGATATG
ATAGGTGTTTAAAAACTTTGCATAGTTTTACAAGAAAAATTATTGAAAAACGACGCGAAA
CGATAATAAATGAGGAAGATGAAGGTTTTGAAAATGTCGATGATGATTCAATAGGAATAA
AGAAAAGAATGGCATTACTTGATGTTCTATTAAAATCGACAGTTAATGGAAAACCTTTGA
CAAATTCTGAGATTGCTGAAGAGGTTGATACTTTTATGTTTGAGGGGCATGATACTGTTA
CAACCAGCACCACTTTCACTCTTTATTTGCTTTCACAACATCCTGATGTTCAAAAAAAAG
TCTATGAAGAAGCTATTAAAATTGTAGGATATGATTTAAGTGTTAATCCAACATATAATC
AACTACAAGATATGAAATATCTTGAATGTGTCATTAAAGAATCATTAAGAATGTATCCAC
CAGTTCCTATCATTGGTCGAAAATTAGATGAAGACATGATTTTTGGCCAAACATTGATTC
CAGCTGGTGTAAATACAAACTTAATGATTTACCACTTGAACATGGATGAGAGATATTTTA
AAAATCCTGAAAAATTCATTCCTGAAAGATTTAGTGAAACAAATATTAGAAATGAAAATC
CATTTTTATATGTACCATTTTCCGCTGGTCCTCGAAACTGCATTGGCCAAAAATTCGCCA
TGTTGGAGCTTAAAAGTACACTTTCTAATGTGATTAGAAACTTTGAATTGATTAAGAGTG
ACATTCCATTAAATATCATTGCACAACTTACATTAAAATCTACTACTGGTGTTCATGTTG
GTTTTAGACAAAGAAAATAAATTTAGAAATTCAATTGAGTTGTAAATGCATAATGGTTTG
TGCAATTTTGATGATAAAAATTTAAAATTTGTTATTAAGTCTGTAAGAGTGATTCCTAAA
CGTTTTTTATTTCACACTTTTTGTTAAAAACAAAAATTTTAATTCCAATAAAAAGGAAAA
GAAATTTTTAATTATTCTTCAATTCACTTTCACTCGCTGACTGTTCTTTACAGCTATTTA
CAAGTTCATATTTCATAAGTCTCATTTGAAGCTCATCAATATGAGTTTTATAAAAGTTTT
TCTGTAATAAAAAATTTAAATTTTAAAATTAATTTTATAAAAGTGACAAAATTAAACC

>g9361.t2 Gene=g9361 Length=393
MHDWLGGGLLLSTNEKWFQRRKIITPTFHFKILQEFVDVFNYQNNIFVKKLKELKSENPF
DIYNMVTLMSLDIISQTAMGVEIHAQNDDSEYAQTVKEMTYIIIDRMMHIWKRPNFIYQF
TSDKVRYDRCLKTLHSFTRKIIEKRRETIINEEDEGFENVDDDSIGIKKRMALLDVLLKS
TVNGKPLTNSEIAEEVDTFMFEGHDTVTTSTTFTLYLLSQHPDVQKKVYEEAIKIVGYDL
SVNPTYNQLQDMKYLECVIKESLRMYPPVPIIGRKLDEDMIFGQTLIPAGVNTNLMIYHL
NMDERYFKNPEKFIPERFSETNIRNENPFLYVPFSAGPRNCIGQKFAMLELKSTLSNVIR
NFELIKSDIPLNIIAQLTLKSTTGVHVGFRQRK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g9361.t2 Gene3D G3DSA:1.10.630.10 Cytochrome p450 1 393 8.9E-111
2 g9361.t2 PANTHER PTHR24291:SF143 CYTOCHROME P450 4D1-RELATED 1 392 2.4E-142
3 g9361.t2 PANTHER PTHR24291 CYTOCHROME P450 FAMILY 4 1 392 2.4E-142
7 g9361.t2 PRINTS PR00463 E-class P450 group I signature 191 208 6.9E-24
10 g9361.t2 PRINTS PR00385 P450 superfamily signature 202 219 6.7E-13
9 g9361.t2 PRINTS PR00463 E-class P450 group I signature 211 237 6.9E-24
8 g9361.t2 PRINTS PR00463 E-class P450 group I signature 256 274 6.9E-24
11 g9361.t2 PRINTS PR00385 P450 superfamily signature 257 268 6.7E-13
4 g9361.t2 PRINTS PR00463 E-class P450 group I signature 296 320 6.9E-24
6 g9361.t2 PRINTS PR00463 E-class P450 group I signature 331 341 6.9E-24
13 g9361.t2 PRINTS PR00385 P450 superfamily signature 332 341 6.7E-13
5 g9361.t2 PRINTS PR00463 E-class P450 group I signature 341 364 6.9E-24
12 g9361.t2 PRINTS PR00385 P450 superfamily signature 341 352 6.7E-13
1 g9361.t2 Pfam PF00067 Cytochrome P450 3 365 1.9E-98
15 g9361.t2 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 334 343 -
14 g9361.t2 SUPERFAMILY SSF48264 Cytochrome P450 2 392 1.44E-101

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