Gene loci information

Transcript annotation

  • This transcript has been annotated as Cytochrome P450 302a1, mitochondrial.

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 g6875 g6875.t1 isoform g6875.t1 19534290 19536209
chr_2 g6875 g6875.t1 exon g6875.t1.exon1 19534290 19534403
chr_2 g6875 g6875.t1 cds g6875.t1.CDS1 19534290 19534403
chr_2 g6875 g6875.t1 exon g6875.t1.exon2 19534656 19534862
chr_2 g6875 g6875.t1 cds g6875.t1.CDS2 19534656 19534862
chr_2 g6875 g6875.t1 exon g6875.t1.exon3 19534918 19535710
chr_2 g6875 g6875.t1 cds g6875.t1.CDS3 19534918 19535710
chr_2 g6875 g6875.t1 exon g6875.t1.exon4 19535769 19536009
chr_2 g6875 g6875.t1 cds g6875.t1.CDS4 19535769 19536009
chr_2 g6875 g6875.t1 exon g6875.t1.exon5 19536071 19536209
chr_2 g6875 g6875.t1 cds g6875.t1.CDS5 19536071 19536209
chr_2 g6875 g6875.t1 TSS g6875.t1 19536245 19536245
chr_2 g6875 g6875.t1 TTS g6875.t1 NA NA

Sequences

>g6875.t1 Gene=g6875 Length=1494
ATGATCAAGAAGTTTTTTTTGAAAAGAAATTTCCAAACTGAAATTTTGTCAAACAATGAA
GTCAGACCTATCAATTTGATGCCTGGTCCTAAAGGATTTTTGGGATTAGGAACAATTTTA
AACTATGTTAAGCCATTTGGTAGTATCGATTGGGATCAATTGCATATATTGGGAATGGAA
AGATATAAGAAATATGGACCAATTGTATGTGAGAAAATAATGCCTGGTGCTTCAGTTGTA
TGGCTCTATGATCCAGTAGATATTTCAAAAGTTTTAACTGACACTCCTGGAAATCTTCCA
TGCCGTCGCAGTCATCTCGCTCTTGAAAAATTTCGATATGATCGACCTGAAGTTTACAGC
TCTGGTGGTTTACTACCAACAAATGGTGAAAAATGGTGGGAATTAAGATCACAATTCCAA
AAACATATTTCATCGCCAAAGAATGTGAGAAATATTTTACCAAGTACAAATCAAGTAACA
CGAGAATTTATTGAAATGCTGGCATCTAAGTTTGATGCAAACAATACAATTCAAGATATG
GTAACAGAATTTGATAGATTCAGTTTTGAAATGACATGTCTTATTGCATTTGATGAAAGA
ATGTATAGTTTTTCTGAAAGCGAGCGACATCCAAATTCAATATCATCAAGGTTAATTAAA
GCTGGTGATGATACAAGTTGTTCAGTTTTATCAACTGATAATGATTTACAACTTTGGCGA
TTATTTGAAACTGCATCTTATAGAAAATTGAGAGTGGCACAAGAATATATGCAACAAATT
GCTATTGACTTTGTTGATAAAAGAGCTGCTAAACAAACTGATGGAGATTCACTGCTTGAT
CAGTATCTGAAGAATCCAAATTTAAGTAAGAAAGATCTGATCGGAATCTCAAGTGACTTT
TTGCTTGCTGGTGTTCATACGGTATCATTTTCTAGTGCATTTGCTCTCTATCATATTGCA
AAAAATAAGCGTGTTCAAGAGTTAATGCATGAAGAAGCCATAAAAGTTCTTCCATCAAAT
GAAAGTGAAATAACAACACCAATAATGAACAATGAAATTCCATACACAAGAGCAGTGCTT
AAAGAAGTTTTCAGATTGAATCCGATTAGTATTGGTGTAGGAAGAATTTCAAATCAAGAC
ATGGTGTTAGGTGGATACCTCATACCTAAAAATACAAGAATTGTGACACAAAATTACATC
TCATGTCGACTGGATGAATATTTTCCAAAACCATTACAATTTATACCTGAGCGATGGATT
AAAATAAATAGAGAAAAATCAAATATTAATCCATATTTAGTAATTCCATTCGGTCAAGGA
ATGCGTTCGTGCATTGCAAGAAGATTTGCTGAACAAACAATGCTTGTGTTTTTATTAAGG
CTACTTCGTGAATATAAAATTGAATGGAAAGGAATCGAAAACTTGGGTATATTAACTAAA
TTGATCAATAGACCAAACTCAGATGTGACAATTAAATTTGAAAAAAGGTTTTGA

>g6875.t1 Gene=g6875 Length=497
MIKKFFLKRNFQTEILSNNEVRPINLMPGPKGFLGLGTILNYVKPFGSIDWDQLHILGME
RYKKYGPIVCEKIMPGASVVWLYDPVDISKVLTDTPGNLPCRRSHLALEKFRYDRPEVYS
SGGLLPTNGEKWWELRSQFQKHISSPKNVRNILPSTNQVTREFIEMLASKFDANNTIQDM
VTEFDRFSFEMTCLIAFDERMYSFSESERHPNSISSRLIKAGDDTSCSVLSTDNDLQLWR
LFETASYRKLRVAQEYMQQIAIDFVDKRAAKQTDGDSLLDQYLKNPNLSKKDLIGISSDF
LLAGVHTVSFSSAFALYHIAKNKRVQELMHEEAIKVLPSNESEITTPIMNNEIPYTRAVL
KEVFRLNPISIGVGRISNQDMVLGGYLIPKNTRIVTQNYISCRLDEYFPKPLQFIPERWI
KINREKSNINPYLVIPFGQGMRSCIARRFAEQTMLVFLLRLLREYKIEWKGIENLGILTK
LINRPNSDVTIKFEKRF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g6875.t1 Gene3D G3DSA:1.10.630.10 Cytochrome p450 16 497 3.7E-104
2 g6875.t1 PANTHER PTHR24305 CYTOCHROME P450 16 496 5.9E-181
3 g6875.t1 PANTHER PTHR24305:SF6 CYTOCHROME P450 302A1, MITOCHONDRIAL 16 496 5.9E-181
9 g6875.t1 PRINTS PR00463 E-class P450 group I signature 62 81 2.2E-12
5 g6875.t1 PRINTS PR00463 E-class P450 group I signature 292 309 2.2E-12
10 g6875.t1 PRINTS PR00385 P450 superfamily signature 303 320 3.0E-8
4 g6875.t1 PRINTS PR00463 E-class P450 group I signature 312 338 2.2E-12
11 g6875.t1 PRINTS PR00385 P450 superfamily signature 358 369 3.0E-8
8 g6875.t1 PRINTS PR00463 E-class P450 group I signature 397 421 2.2E-12
7 g6875.t1 PRINTS PR00463 E-class P450 group I signature 434 444 2.2E-12
12 g6875.t1 PRINTS PR00385 P450 superfamily signature 435 444 3.0E-8
6 g6875.t1 PRINTS PR00463 E-class P450 group I signature 444 467 2.2E-12
13 g6875.t1 PRINTS PR00385 P450 superfamily signature 444 455 3.0E-8
1 g6875.t1 Pfam PF00067 Cytochrome P450 28 469 8.8E-68
17 g6875.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 299 -
19 g6875.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 300 320 -
18 g6875.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 321 497 -
15 g6875.t1 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 437 446 -
14 g6875.t1 SUPERFAMILY SSF48264 Cytochrome P450 22 496 1.01E-83

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

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. There were no conditions that were differentially expressed