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.t2 TTS g4848.t2 5390806 5390806
chr_2 g4848 g4848.t2 isoform g4848.t2 5390919 5392622
chr_2 g4848 g4848.t2 exon g4848.t2.exon1 5390919 5391075
chr_2 g4848 g4848.t2 cds g4848.t2.CDS1 5390919 5391075
chr_2 g4848 g4848.t2 exon g4848.t2.exon2 5391130 5391388
chr_2 g4848 g4848.t2 cds g4848.t2.CDS2 5391130 5391388
chr_2 g4848 g4848.t2 exon g4848.t2.exon3 5391463 5391636
chr_2 g4848 g4848.t2 cds g4848.t2.CDS3 5391463 5391636
chr_2 g4848 g4848.t2 exon g4848.t2.exon4 5391702 5392050
chr_2 g4848 g4848.t2 cds g4848.t2.CDS4 5391702 5392050
chr_2 g4848 g4848.t2 exon g4848.t2.exon5 5392115 5392622
chr_2 g4848 g4848.t2 cds g4848.t2.CDS5 5392115 5392438
chr_2 g4848 g4848.t2 TSS g4848.t2 5392735 5392735

Sequences

>g4848.t2 Gene=g4848 Length=1447
AAAATTTAATTTTTTTAAAGAACGTGGAATACCCTATGTAGAACCATCATTTCCACTTGG
AAATTTTCAAGGAGTCGGCTCAAAATATCATTCATTTGATGTATTTCGTGACATTTATGA
TAAACTCAAGGGCAAAGATGTCATCGCTGGAGTTTACAGTTTTACTCAACCTGTTTATTT
AATTATGGATGTTGAACTTGTCAAAAATGTTTTAATTCGTGATTTCAATACTTTTATTAA
TCGTGGTGGTTTCGTGAATGAAAAAGATGAACCTTTGACTGGTCATTTGTTTTCCTTAAA
AGATGACAAATGGAGATTTTTGAGGAACAAGCTATCGCCGGCTTTTACTTCTGGAAAAAT
GAAAGCTATGTATTACACAATTAGTGACAAAGGAAAAGATTATGTTGATTTAGTTGACAA
TGTTCTAAAAGAAGGCAAAGCAATAAATATCAAGGAAATCACAAATTGCTATACAGTCGA
TGTTGTAGCTTCAGTTGCTTTTGGCATGGAATCAAACACAATGAAAGGAGAACATCCAGA
ATTATTAAATATTTTCAAAGAACTTTTTGGTCCAGATGGAACTAGTTTTTTGAAATTTTT
CTTTTTAAATGCTTTCCCAAATTTTTCCAAAACTATCAAACTTAGAGTTTTCTCCAAAGA
TATTTCGGACTTTTTCATTAATGTTATTAGTCGAAATATTGAAAATCGTGAAAAAACAAA
TGACAACAGACAAGATTTCTTAAACATGTTGATTCAGTTGAAGAACAAAGGATCAATTGA
TGGAGAATTTTCAACTGAAAACAGAAAAATTACTTTGAATGACGCTTTGGCTCAAGCATT
TGTTTTCTATTTTGCAAGTGCTGATGCTTCAAGTACAACGATTTCTTTTGCATTGGCTGA
ACTAGCACATCACAGTGAAATACAAGAAAGATTAAGAACGGAAATTTTAGAAAAGACTAA
AGGAAAAGAAAATGATGAAATTAGTTATGAAACATTGCAAGAAATGACTTATTTGGGTCA
AGTAGTAAATGAAACACTTCGAATGTACACAATGGGATCAATTTTATTAAGACAAGCTAA
TGAAGATTATAAAATTCCAAACTCAAAACATGTTATTCCAAAAGGTGCAGATGTTTTTGT
TCCAATGATTGGACTTCACTTTGATGATAGATATTGGAAAAATCCATACAAATTCGATCC
TGAAAGATTCACACCAGAAGAAATCGCAAAAAGACCAAACCATGTTTATCTTCCATTTGG
TGATGGAATGAGAAATTGTATCGGAATGAGATATGCACTCTTAACTGTAAAATTTGCTCT
TGCAACAATTTTGAGAAATTTCAAAGTCACACCAAATCCAAAAATGAAATATCCAATTAA
ATTTAATCCCAAGAATCCTTTAATGGAACCAGATGGTGGTTTTTGGTTAAATATAGAACG
AATTTAA

>g4848.t2 Gene=g4848 Length=420
MDVELVKNVLIRDFNTFINRGGFVNEKDEPLTGHLFSLKDDKWRFLRNKLSPAFTSGKMK
AMYYTISDKGKDYVDLVDNVLKEGKAINIKEITNCYTVDVVASVAFGMESNTMKGEHPEL
LNIFKELFGPDGTSFLKFFFLNAFPNFSKTIKLRVFSKDISDFFINVISRNIENREKTND
NRQDFLNMLIQLKNKGSIDGEFSTENRKITLNDALAQAFVFYFASADASSTTISFALAEL
AHHSEIQERLRTEILEKTKGKENDEISYETLQEMTYLGQVVNETLRMYTMGSILLRQANE
DYKIPNSKHVIPKGADVFVPMIGLHFDDRYWKNPYKFDPERFTPEEIAKRPNHVYLPFGD
GMRNCIGMRYALLTVKFALATILRNFKVTPNPKMKYPIKFNPKNPLMEPDGGFWLNIERI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g4848.t2 Coils Coil Coil 175 195 -
15 g4848.t2 Gene3D G3DSA:1.10.630.10 Cytochrome p450 1 420 6.3E-114
2 g4848.t2 PANTHER PTHR24292 CYTOCHROME P450 1 419 3.4E-141
3 g4848.t2 PANTHER PTHR24292:SF95 CYP6A16, ISOFORM B-RELATED 1 419 3.4E-141
5 g4848.t2 PRINTS PR00463 E-class P450 group I signature 5 26 1.4E-16
9 g4848.t2 PRINTS PR00385 P450 superfamily signature 224 241 8.7E-10
6 g4848.t2 PRINTS PR00463 E-class P450 group I signature 233 259 1.4E-16
10 g4848.t2 PRINTS PR00385 P450 superfamily signature 279 290 8.7E-10
8 g4848.t2 PRINTS PR00463 E-class P450 group I signature 320 344 1.4E-16
4 g4848.t2 PRINTS PR00463 E-class P450 group I signature 355 365 1.4E-16
12 g4848.t2 PRINTS PR00385 P450 superfamily signature 356 365 8.7E-10
7 g4848.t2 PRINTS PR00463 E-class P450 group I signature 365 388 1.4E-16
11 g4848.t2 PRINTS PR00385 P450 superfamily signature 365 376 8.7E-10
1 g4848.t2 Pfam PF00067 Cytochrome P450 2 410 1.4E-87
14 g4848.t2 ProSitePatterns PS00086 Cytochrome P450 cysteine heme-iron ligand signature. 358 367 -
13 g4848.t2 SUPERFAMILY SSF48264 Cytochrome P450 2 418 2.36E-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