General information for g6793.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Tryptophan 5-hydroxylase 1.
Parent gene
- The parent gene g6793 is located on chr_2: 18722558..18724746 (+ strand)
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 | g6793 | g6793.t2 | TSS | g6793.t2 | 18721216 | 18721216 |
| chr_2 | g6793 | g6793.t2 | isoform | g6793.t2 | 18721472 | 18724746 |
| chr_2 | g6793 | g6793.t2 | exon | g6793.t2.exon1 | 18721472 | 18721585 |
| chr_2 | g6793 | g6793.t2 | cds | g6793.t2.CDS1 | 18721472 | 18721585 |
| chr_2 | g6793 | g6793.t2 | exon | g6793.t2.exon2 | 18721834 | 18722022 |
| chr_2 | g6793 | g6793.t2 | cds | g6793.t2.CDS2 | 18721834 | 18722022 |
| chr_2 | g6793 | g6793.t2 | exon | g6793.t2.exon3 | 18722116 | 18722438 |
| chr_2 | g6793 | g6793.t2 | cds | g6793.t2.CDS3 | 18722116 | 18722438 |
| chr_2 | g6793 | g6793.t2 | exon | g6793.t2.exon4 | 18722508 | 18722558 |
| chr_2 | g6793 | g6793.t2 | cds | g6793.t2.CDS4 | 18722508 | 18722558 |
| chr_2 | g6793 | g6793.t2 | exon | g6793.t2.exon5 | 18722665 | 18722827 |
| chr_2 | g6793 | g6793.t2 | cds | g6793.t2.CDS5 | 18722665 | 18722827 |
| chr_2 | g6793 | g6793.t2 | exon | g6793.t2.exon6 | 18723645 | 18723882 |
| chr_2 | g6793 | g6793.t2 | cds | g6793.t2.CDS6 | 18723645 | 18723882 |
| chr_2 | g6793 | g6793.t2 | exon | g6793.t2.exon7 | 18723979 | 18724109 |
| chr_2 | g6793 | g6793.t2 | cds | g6793.t2.CDS7 | 18723979 | 18724109 |
| chr_2 | g6793 | g6793.t2 | exon | g6793.t2.exon8 | 18724165 | 18724614 |
| chr_2 | g6793 | g6793.t2 | cds | g6793.t2.CDS8 | 18724165 | 18724614 |
| chr_2 | g6793 | g6793.t2 | exon | g6793.t2.exon9 | 18724687 | 18724746 |
| chr_2 | g6793 | g6793.t2 | cds | g6793.t2.CDS9 | 18724687 | 18724746 |
| chr_2 | g6793 | g6793.t2 | TTS | g6793.t2 | 18724903 | 18724903 |
Sequences
>g6793.t2 Gene=g6793 Length=1719
ATGTCTGCATCAGGGAAAAGTCTTTTGGGACTTTGGCTCTATCGGAGTGGTGAACAGGAA
TGGGCTGTGAAAGAAGGCTCACCTATTCATAAACCAAAGGATTTAATAGGAATTCAAAAT
GAAGAAACAATAAACCTTGATGAAAAAAATGAAGATGGATCCATTTCAACATCTGATAGA
ACATCAATTATTTTCACTCTTAAGCATCAAGTTGGTGCATTAGCTCGAGCATTGCAAGTG
TTTCAGGAGCTTGGTATAAATGTTTTACACATTGAGTTGCATTCAGAGAAAGAAACTGAG
ACTGCAGACGTCTTAGTAGATATTGAATGTGATGCAAAGCATTTGGATCATGTAGTAAGA
AGACTTAAACGTGAAGTACAATCGGTCAACTATGCTTCAGCAATTGTCAATGACGAGTAT
CCGCCACCTACACCACTTTCAAAATGCAACAGCTTTGACTTTTCTGATACATTCTGTTGG
TTTCCAAGAAAAATTTCTGATTTAGATCGTGCACAAAATGTTCTTATGTATGGCTCTGAT
CTCGATGCTGACCATCCTGGCTTTAAAGATCCAGTTTATAGAAAAAGACGTGAACAATTT
GCAGCAATTGCTAATTCATATAAACATGGCTCACCCATTCCAAAAATACAATATACATCC
GAGGAAATACGAACATGGGGCGTCGTTTTTCGCGAACTGCATAAACTTTATGTTAAGCAT
GCTGTTCCTGAATATATGGAGAATTGGCCTCAACTTGTGAAATATTGCGGATATAGAGAA
GACAATTTGCCACAACTTCAAGACATTAACGTTNAATCTCTTTTATTACATAGTTATGAG
CATGCTGTTCCTGAATATATGGAGAATTGGCCTCAACTTGTTAAATATTGCGGATATAGA
GAAGACAATTTGCCACAACTTCAAGACATTAACGTTTTCTTGAAACGAAAGACAGGATTT
CAAGTGAGACCTGTTGCTGGATATCTTTCTCCTCGTGACTTTTTGTCTGGCTTAGCATTT
CGCGTATTCCATTGCACTCAATATATTCGACACTCTTCAGATCCATTTTATACACCGGAG
CCCGATTGCTGTCATGAATTACTCGGTCATATGCCTCTACTCGCAAATCCATCTTTTGCA
CAATTCTCGCAAGAAATCGGACTAGCTTCATTAGGAGCAAGTGATGAAGATGTCTCAAAA
TTAGCCACACTTTATTTTTTCACTGTTGAATTTGGTCTTTGTAAACAAACTGATGGATCT
TTTAAAGTTTATGGCGCTGGTCTTTTATCATCTGTTGCTGAGCTCCAACATGCAATTACG
GCAACAGATAAAATTAAGAAATTTGACCCAGAGATAACATGTTATGAAGAATGCATTGTT
ACCGCATATCAGAATGCTTACTATTATACTGATAGTTTTGAGGAAGCAAAGGAGAAGCTG
AGAGATTTTGCTTGTAGCATTCAACGGCCATTCATGGTAAGATATAATCCATACACCCAA
TCAGTTGAAGTACTTAGCAATGCAAAGAAGATTACTGCGGTTGTGAGTGAATTGAGAGGA
GACTTATCAATTGTTTCGACAGCTTTGAAAAAAATATCTGCTTTGGACGAGACTTTAGAT
GTCGATTCGCTATCAAACATGCTATTGCAAGGAATTCAAATCAATCCAGATAAATCACCG
GTGTCAGAAGGATCTGACAATTCTCAAAAAATTCATTAA
>g6793.t2 Gene=g6793 Length=572
MSASGKSLLGLWLYRSGEQEWAVKEGSPIHKPKDLIGIQNEETINLDEKNEDGSISTSDR
TSIIFTLKHQVGALARALQVFQELGINVLHIELHSEKETETADVLVDIECDAKHLDHVVR
RLKREVQSVNYASAIVNDEYPPPTPLSKCNSFDFSDTFCWFPRKISDLDRAQNVLMYGSD
LDADHPGFKDPVYRKRREQFAAIANSYKHGSPIPKIQYTSEEIRTWGVVFRELHKLYVKH
AVPEYMENWPQLVKYCGYREDNLPQLQDINVXSLLLHSYEHAVPEYMENWPQLVKYCGYR
EDNLPQLQDINVFLKRKTGFQVRPVAGYLSPRDFLSGLAFRVFHCTQYIRHSSDPFYTPE
PDCCHELLGHMPLLANPSFAQFSQEIGLASLGASDEDVSKLATLYFFTVEFGLCKQTDGS
FKVYGAGLLSSVAELQHAITATDKIKKFDPEITCYEECIVTAYQNAYYYTDSFEEAKEKL
RDFACSIQRPFMVRYNPYTQSVEVLSNAKKITAVVSELRGDLSIVSTALKKISALDETLD
VDSLSNMLLQGIQINPDKSPVSEGSDNSQKIH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g6793.t2 | Gene3D | G3DSA:1.10.800.10 | Phenylalanine Hydroxylase | 46 | 274 | 6.8E-72 |
| 13 | g6793.t2 | Gene3D | G3DSA:1.10.800.10 | Phenylalanine Hydroxylase | 275 | 537 | 1.7E-118 |
| 5 | g6793.t2 | PANTHER | PTHR11473:SF37 | GH12537P | 45 | 271 | 1.6E-242 |
| 7 | g6793.t2 | PANTHER | PTHR11473 | AROMATIC AMINO ACID HYDROXYLASE | 45 | 271 | 1.6E-242 |
| 4 | g6793.t2 | PANTHER | PTHR11473:SF37 | GH12537P | 280 | 534 | 1.6E-242 |
| 6 | g6793.t2 | PANTHER | PTHR11473 | AROMATIC AMINO ACID HYDROXYLASE | 280 | 534 | 1.6E-242 |
| 16 | g6793.t2 | PIRSF | PIRSF000336 | TH | 19 | 275 | 5.0E-68 |
| 15 | g6793.t2 | PIRSF | PIRSF000336 | TH | 271 | 536 | 1.8E-140 |
| 8 | g6793.t2 | PRINTS | PR00372 | Biopterin-dependent aromatic amino acid hydroxylase signature | 186 | 205 | 4.8E-15 |
| 9 | g6793.t2 | PRINTS | PR00372 | Biopterin-dependent aromatic amino acid hydroxylase signature | 489 | 507 | 4.8E-15 |
| 1 | g6793.t2 | Pfam | PF01842 | ACT domain | 61 | 124 | 2.2E-8 |
| 3 | g6793.t2 | Pfam | PF00351 | Biopterin-dependent aromatic amino acid hydroxylase | 160 | 270 | 8.8E-45 |
| 2 | g6793.t2 | Pfam | PF00351 | Biopterin-dependent aromatic amino acid hydroxylase | 280 | 530 | 1.2E-121 |
| 17 | g6793.t2 | ProSitePatterns | PS00367 | Biopterin-dependent aromatic amino acid hydroxylases signature. | 361 | 372 | - |
| 19 | g6793.t2 | ProSiteProfiles | PS51671 | ACT domain profile. | 62 | 141 | 12.75 |
| 18 | g6793.t2 | ProSiteProfiles | PS51410 | Biopterin-dependent aromatic amino acid hydroxylase family profile. | 146 | 533 | 120.407 |
| 12 | g6793.t2 | SUPERFAMILY | SSF55021 | ACT-like | 53 | 131 | 4.58E-13 |
| 10 | g6793.t2 | SUPERFAMILY | SSF56534 | Aromatic aminoacid monoxygenases, catalytic and oligomerization domains | 159 | 270 | 2.09E-33 |
| 11 | g6793.t2 | SUPERFAMILY | SSF56534 | Aromatic aminoacid monoxygenases, catalytic and oligomerization domains | 278 | 532 | 3.66E-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:0009072 | aromatic amino acid family metabolic process | BP |
| GO:0005506 | iron ion binding | MF |
| GO:0016714 | oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, reduced pteridine as one donor, and incorporation of one atom of oxygen | MF |
| GO:0004497 | monooxygenase activity | MF |
| GO:0055114 | NA | NA |
KEGG
Orthology
- This transcript has been annotated with K00502 (tryptophan 5-monooxygenase)
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.
