Gene loci information

Transcript annotation

  • This transcript has been annotated as Probable cytochrome P450 6a14.

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 g55 g55.t3 TSS g55.t3 427482 427482
chr_3 g55 g55.t3 isoform g55.t3 427521 429633
chr_3 g55 g55.t3 exon g55.t3.exon1 427521 428583
chr_3 g55 g55.t3 cds g55.t3.CDS1 427521 428583
chr_3 g55 g55.t3 exon g55.t3.exon2 428644 428871
chr_3 g55 g55.t3 cds g55.t3.CDS2 428644 428871
chr_3 g55 g55.t3 exon g55.t3.exon3 428934 428956
chr_3 g55 g55.t3 cds g55.t3.CDS3 428934 428956
chr_3 g55 g55.t3 exon g55.t3.exon4 429094 429262
chr_3 g55 g55.t3 cds g55.t3.CDS4 429094 429258
chr_3 g55 g55.t3 exon g55.t3.exon5 429525 429633
chr_3 g55 g55.t3 TTS g55.t3 429627 429627

Sequences

>g55.t3 Gene=g55 Length=1592
ATGGCCATCACTATAATTATTTCGTTTTTATTAGCTGTGTTCACATTAGCTTATTTGTGG
ATACAACGACGTTATTCATTTTTTGCTCGTCTTGGAGTTCTTCATGATAAGCCAAAGTTT
CCATTAGGAAATATGCATGGAAAAACGCATCCAAGTGAAGTTTTCAAACAATTTTACGAT
AAATTTTGTCGTAAAGCATCGGCATTTGGCGTGTATTTGTTTATCAATCCACTTTTTGTC
ATCACCGACCTTGATCTTGCCAAAGATGTTTTAATTCGCGATTTTGAAGCATTTCATAAT
CGTGGAGCATTTTATAATAAAAAAGATGATCCACTTAGTGCTCATTTATTAACTATTGAA
GATCAAGAATGGAAAGATATGAGAAATAAGCTCACACCGACATTCACTTCAGGAAAAATG
AGGATGTATTTTAGCACACTTTTAGAAGTGTCAGATCGAATGATTGAGAAATTAAAAAGA
AATTGTGACAATATTATTGAAGTAAAAGAAATGTTAGCTCAGTACACAACTGATGTCATA
GGAAATGTTGGGTTTGGACTTTCCATCAATGCAATCGATAATCCTGATACTGAATTTCGT
CGAGTTGGTGGAAAATTGTTTAACAAAGAAACAAAATTTATTTTACGAGTTGCTTTGTTT
GCGACCTTTAAGAATATTGCAAGAAAACTTGGTTTAAAGTTGATTCCTTCGGATATTACT
AAATTTTTCATGGGTGTAGTTAAAGACACTGTAAATTATCGACTTGAAAATAATATCGAA
CGCAATGATGTTTTAGATACGCTTATGAAAATCAGAGACGAAACACAAGAAAATGAAGGA
AAATTGACAACAGAAGAAATAGCAGCTCAATGTTTTATCTTTTTTGTGGCTGGTTTTGAA
ACATCTTCAACGACTGGAACCTTAGTTCTTTATAATCTTGTAAAATATCCAGAAGTGCAG
GAAAAGTTACGTGATGAAATTAGAACTATTCTTGCTAGACATGATAATAAAATCACTTAT
GAAGCAATGCAGGAAATGAAATATTTGCAAATGGTTGTTGATGAATCACTTCGAATTTAT
CCACCAATTTTTCAAGTTTTACGACAGGCTGCAAGAGACTACAAAATTGAAAAAGACAAC
TTCGTCATTCCTAAAGGCAGTTTAGTAGGAGTTCCTGTTTATGCCATTCATCATGACCCT
GAATATTATCCAGAACCACATAAATTTGATCCTGAGAGATTCAACGATGAAAATAAGGCA
AACAGACATCCAATGGCTTTCTTACCTTTTGGTCAAGGTCCAAGAAATTGCATAGGTTTT
CGTTTTGGATTAATGCAAACTAAAGTTGCTTTGATACAACTTCTTTTGAATTTTCGAGTT
CATTCATCAGAAAAGACACCAGATCCAATTAAGTTTGATCCTGATACAGCTACATTGTCA
TCAGAAAACGATATGTGGTTGAAATTTGAAAAGTTATAAAGCAGCAATTGCCTTCGAAGA
CGAAGTTGTAGGTAAACTACGAAGGCACGTAGGTCGTAGGCACCTTCGTAACAACACTGT
TATAAAGAAATAAAGAATCAATTAAGAAAAAA

>g55.t3 Gene=g55 Length=492
MAITIIISFLLAVFTLAYLWIQRRYSFFARLGVLHDKPKFPLGNMHGKTHPSEVFKQFYD
KFCRKASAFGVYLFINPLFVITDLDLAKDVLIRDFEAFHNRGAFYNKKDDPLSAHLLTIE
DQEWKDMRNKLTPTFTSGKMRMYFSTLLEVSDRMIEKLKRNCDNIIEVKEMLAQYTTDVI
GNVGFGLSINAIDNPDTEFRRVGGKLFNKETKFILRVALFATFKNIARKLGLKLIPSDIT
KFFMGVVKDTVNYRLENNIERNDVLDTLMKIRDETQENEGKLTTEEIAAQCFIFFVAGFE
TSSTTGTLVLYNLVKYPEVQEKLRDEIRTILARHDNKITYEAMQEMKYLQMVVDESLRIY
PPIFQVLRQAARDYKIEKDNFVIPKGSLVGVPVYAIHHDPEYYPEPHKFDPERFNDENKA
NRHPMAFLPFGQGPRNCIGFRFGLMQTKVALIQLLLNFRVHSSEKTPDPIKFDPDTATLS
SENDMWLKFEKL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g55.t3 Gene3D G3DSA:1.10.630.10 Cytochrome p450 16 492 1.8E-140
2 g55.t3 PANTHER PTHR24292 CYTOCHROME P450 5 492 4.5E-178
3 g55.t3 PANTHER PTHR24292:SF95 CYP6A16, ISOFORM B-RELATED 5 492 4.5E-178
7 g55.t3 PRINTS PR00463 E-class P450 group I signature 86 107 1.5E-22
6 g55.t3 PRINTS PR00463 E-class P450 group I signature 286 303 1.5E-22
10 g55.t3 PRINTS PR00385 P450 superfamily signature 297 314 1.2E-9
8 g55.t3 PRINTS PR00463 E-class P450 group I signature 306 332 1.5E-22
13 g55.t3 PRINTS PR00385 P450 superfamily signature 351 362 1.2E-9
5 g55.t3 PRINTS PR00463 E-class P450 group I signature 392 416 1.5E-22
4 g55.t3 PRINTS PR00463 E-class P450 group I signature 427 437 1.5E-22
11 g55.t3 PRINTS PR00385 P450 superfamily signature 428 437 1.2E-9
9 g55.t3 PRINTS PR00463 E-class P450 group I signature 437 460 1.5E-22
12 g55.t3 PRINTS PR00385 P450 superfamily signature 437 448 1.2E-9
1 g55.t3 Pfam PF00067 Cytochrome P450 42 479 4.2E-105
17 g55.t3 Phobius SIGNAL_PEPTIDE Signal peptide region 1 19 -
18 g55.t3 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 2 -
19 g55.t3 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 3 14 -
20 g55.t3 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 15 19 -
16 g55.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 20 492 -
22 g55.t3 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 430 439 -
14 g55.t3 SUPERFAMILY SSF48264 Cytochrome P450 40 490 4.58E-118
21 g55.t3 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.

Data is missing for g55/g55.t3; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g55.t3.fa.iupred3.txt does not exist

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

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