Gene loci information

Transcript annotation

  • This transcript has been annotated as Cytochrome P450 6A1.

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 g4848 g4848.t1 TTS g4848.t1 5390806 5390806
chr_2 g4848 g4848.t1 isoform g4848.t1 5390919 5394427
chr_2 g4848 g4848.t1 exon g4848.t1.exon1 5390919 5391075
chr_2 g4848 g4848.t1 cds g4848.t1.CDS1 5390919 5391075
chr_2 g4848 g4848.t1 exon g4848.t1.exon2 5391130 5391388
chr_2 g4848 g4848.t1 cds g4848.t1.CDS2 5391130 5391388
chr_2 g4848 g4848.t1 exon g4848.t1.exon3 5391463 5391636
chr_2 g4848 g4848.t1 cds g4848.t1.CDS3 5391463 5391636
chr_2 g4848 g4848.t1 exon g4848.t1.exon4 5391702 5392050
chr_2 g4848 g4848.t1 cds g4848.t1.CDS4 5391702 5392050
chr_2 g4848 g4848.t1 exon g4848.t1.exon5 5392115 5392622
chr_2 g4848 g4848.t1 cds g4848.t1.CDS5 5392115 5392622
chr_2 g4848 g4848.t1 exon g4848.t1.exon6 5394183 5394427
chr_2 g4848 g4848.t1 cds g4848.t1.CDS6 5394183 5394427
chr_2 g4848 g4848.t1 TSS g4848.t1 5394595 5394595

Sequences

>g4848.t1 Gene=g4848 Length=1692
ATGCAAGGAGTTGGCACAAAATGTCATTCATATGACCTTTTTCGTGACATCTACAATGAA
TTTAAAGAGAAAGACGTTATTGCGGGATTATATAATTTTGATCAATTAGTATATATGATT
ATTGACCTTGAACTTGTCAAGAATATTTTAGTTCGTGATTTCAATTATTTTTTCAATCGA
AAAATGTATGTCAATGAAGAAGGTGAACCTTTGACTGGTCATTTGTTTTCATTAAGAGCC
AGAAGAAAATTTAATTTTTTTAAAGAACGTGGAATACCCTATGTAGAACCATCATTTCCA
CTTGGAAATTTTCAAGGAGTCGGCTCAAAATATCATTCATTTGATGTATTTCGTGACATT
TATGATAAACTCAAGGGCAAAGATGTCATCGCTGGAGTTTACAGTTTTACTCAACCTGTT
TATTTAATTATGGATGTTGAACTTGTCAAAAATGTTTTAATTCGTGATTTCAATACTTTT
ATTAATCGTGGTGGTTTCGTGAATGAAAAAGATGAACCTTTGACTGGTCATTTGTTTTCC
TTAAAAGATGACAAATGGAGATTTTTGAGGAACAAGCTATCGCCGGCTTTTACTTCTGGA
AAAATGAAAGCTATGTATTACACAATTAGTGACAAAGGAAAAGATTATGTTGATTTAGTT
GACAATGTTCTAAAAGAAGGCAAAGCAATAAATATCAAGGAAATCACAAATTGCTATACA
GTCGATGTTGTAGCTTCAGTTGCTTTTGGCATGGAATCAAACACAATGAAAGGAGAACAT
CCAGAATTATTAAATATTTTCAAAGAACTTTTTGGTCCAGATGGAACTAGTTTTTTGAAA
TTTTTCTTTTTAAATGCTTTCCCAAATTTTTCCAAAACTATCAAACTTAGAGTTTTCTCC
AAAGATATTTCGGACTTTTTCATTAATGTTATTAGTCGAAATATTGAAAATCGTGAAAAA
ACAAATGACAACAGACAAGATTTCTTAAACATGTTGATTCAGTTGAAGAACAAAGGATCA
ATTGATGGAGAATTTTCAACTGAAAACAGAAAAATTACTTTGAATGACGCTTTGGCTCAA
GCATTTGTTTTCTATTTTGCAAGTGCTGATGCTTCAAGTACAACGATTTCTTTTGCATTG
GCTGAACTAGCACATCACAGTGAAATACAAGAAAGATTAAGAACGGAAATTTTAGAAAAG
ACTAAAGGAAAAGAAAATGATGAAATTAGTTATGAAACATTGCAAGAAATGACTTATTTG
GGTCAAGTAGTAAATGAAACACTTCGAATGTACACAATGGGATCAATTTTATTAAGACAA
GCTAATGAAGATTATAAAATTCCAAACTCAAAACATGTTATTCCAAAAGGTGCAGATGTT
TTTGTTCCAATGATTGGACTTCACTTTGATGATAGATATTGGAAAAATCCATACAAATTC
GATCCTGAAAGATTCACACCAGAAGAAATCGCAAAAAGACCAAACCATGTTTATCTTCCA
TTTGGTGATGGAATGAGAAATTGTATCGGAATGAGATATGCACTCTTAACTGTAAAATTT
GCTCTTGCAACAATTTTGAGAAATTTCAAAGTCACACCAAATCCAAAAATGAAATATCCA
ATTAAATTTAATCCCAAGAATCCTTTAATGGAACCAGATGGTGGTTTTTGGTTAAATATA
GAACGAATTTAA

>g4848.t1 Gene=g4848 Length=563
MQGVGTKCHSYDLFRDIYNEFKEKDVIAGLYNFDQLVYMIIDLELVKNILVRDFNYFFNR
KMYVNEEGEPLTGHLFSLRARRKFNFFKERGIPYVEPSFPLGNFQGVGSKYHSFDVFRDI
YDKLKGKDVIAGVYSFTQPVYLIMDVELVKNVLIRDFNTFINRGGFVNEKDEPLTGHLFS
LKDDKWRFLRNKLSPAFTSGKMKAMYYTISDKGKDYVDLVDNVLKEGKAINIKEITNCYT
VDVVASVAFGMESNTMKGEHPELLNIFKELFGPDGTSFLKFFFLNAFPNFSKTIKLRVFS
KDISDFFINVISRNIENREKTNDNRQDFLNMLIQLKNKGSIDGEFSTENRKITLNDALAQ
AFVFYFASADASSTTISFALAELAHHSEIQERLRTEILEKTKGKENDEISYETLQEMTYL
GQVVNETLRMYTMGSILLRQANEDYKIPNSKHVIPKGADVFVPMIGLHFDDRYWKNPYKF
DPERFTPEEIAKRPNHVYLPFGDGMRNCIGMRYALLTVKFALATILRNFKVTPNPKMKYP
IKFNPKNPLMEPDGGFWLNIERI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
18 g4848.t1 Coils Coil Coil 318 338 -
17 g4848.t1 Gene3D G3DSA:1.10.630.10 Cytochrome p450 78 563 8.0E-124
2 g4848.t1 PANTHER PTHR24292 CYTOCHROME P450 6 80 1.6E-179
4 g4848.t1 PANTHER PTHR24292:SF95 CYP6A16, ISOFORM B-RELATED 6 80 1.6E-179
3 g4848.t1 PANTHER PTHR24292 CYTOCHROME P450 81 562 1.6E-179
5 g4848.t1 PANTHER PTHR24292:SF95 CYP6A16, ISOFORM B-RELATED 81 562 1.6E-179
7 g4848.t1 PRINTS PR00463 E-class P450 group I signature 148 169 5.2E-16
11 g4848.t1 PRINTS PR00385 P450 superfamily signature 367 384 2.4E-9
9 g4848.t1 PRINTS PR00463 E-class P450 group I signature 376 402 5.2E-16
14 g4848.t1 PRINTS PR00385 P450 superfamily signature 422 433 2.4E-9
10 g4848.t1 PRINTS PR00463 E-class P450 group I signature 463 487 5.2E-16
8 g4848.t1 PRINTS PR00463 E-class P450 group I signature 498 508 5.2E-16
12 g4848.t1 PRINTS PR00385 P450 superfamily signature 499 508 2.4E-9
6 g4848.t1 PRINTS PR00463 E-class P450 group I signature 508 531 5.2E-16
13 g4848.t1 PRINTS PR00385 P450 superfamily signature 508 519 2.4E-9
1 g4848.t1 Pfam PF00067 Cytochrome P450 101 553 5.6E-91
16 g4848.t1 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 501 510 -
15 g4848.t1 SUPERFAMILY SSF48264 Cytochrome P450 84 561 6.16E-106

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