General information for g8199.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Tyrosine decarboxylase.
Parent gene
- The parent gene g8199 is located on chr_2: 29039559..29042382 (+ 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 | g8199 | g8199.t1 | isoform | g8199.t1 | 29039559 | 29042382 |
| chr_2 | g8199 | g8199.t1 | exon | g8199.t1.exon1 | 29039559 | 29039873 |
| chr_2 | g8199 | g8199.t1 | cds | g8199.t1.CDS1 | 29039559 | 29039873 |
| chr_2 | g8199 | g8199.t1 | exon | g8199.t1.exon2 | 29039960 | 29039981 |
| chr_2 | g8199 | g8199.t1 | cds | g8199.t1.CDS2 | 29039960 | 29039981 |
| chr_2 | g8199 | g8199.t1 | exon | g8199.t1.exon3 | 29040047 | 29040076 |
| chr_2 | g8199 | g8199.t1 | cds | g8199.t1.CDS3 | 29040047 | 29040076 |
| chr_2 | g8199 | g8199.t1 | exon | g8199.t1.exon4 | 29040547 | 29040854 |
| chr_2 | g8199 | g8199.t1 | cds | g8199.t1.CDS4 | 29040547 | 29040854 |
| chr_2 | g8199 | g8199.t1 | exon | g8199.t1.exon5 | 29040973 | 29041170 |
| chr_2 | g8199 | g8199.t1 | cds | g8199.t1.CDS5 | 29040973 | 29041170 |
| chr_2 | g8199 | g8199.t1 | exon | g8199.t1.exon6 | 29041247 | 29041754 |
| chr_2 | g8199 | g8199.t1 | cds | g8199.t1.CDS6 | 29041247 | 29041754 |
| chr_2 | g8199 | g8199.t1 | exon | g8199.t1.exon7 | 29041811 | 29042057 |
| chr_2 | g8199 | g8199.t1 | cds | g8199.t1.CDS7 | 29041811 | 29042057 |
| chr_2 | g8199 | g8199.t1 | exon | g8199.t1.exon8 | 29042118 | 29042382 |
| chr_2 | g8199 | g8199.t1 | cds | g8199.t1.CDS8 | 29042118 | 29042382 |
| chr_2 | g8199 | g8199.t1 | TSS | g8199.t1 | NA | NA |
| chr_2 | g8199 | g8199.t1 | TTS | g8199.t1 | NA | NA |
Sequences
>g8199.t1 Gene=g8199 Length=1893
ATGGATAGTAAAGAATTTCGTAAGCGAGGTACTGAAATGGTAGAATACATTTGTCAGTAT
CTTGAAACGCTAGAAAATAGACGAGTAACGCCTTCAGTTGAACCAGGATATTTACGAAAT
TTATTGCCAAATGAAGCACCTTATAAACCAGAGCCATGGGAAAAAATAATGGATGATGTT
GAAACAAAAATTATGCCTGGTGTAACACATTGGCAGCATCCTCGATTTCATGCATATTTC
CCAGCCGGTAATTCATTTCCTTCTATATTAGGAGATATGTTAGGTGATGCTATTGGATGT
ATTGGATTTTCCTGGGCTGCAAGTCCGGCTTGCACAGAACTTGAAACAATTGTATTGGAC
TGGCTAGGCAAAGCAATTGGACTACCGGATGCATTTTTGGCGTTAAAAGAAGGCAGCAAA
GGAGGTGGCGTAATTCAAACTTCAGCTTCTGAGTGTATACTCGTTACAATGTTAGCAGCA
AGAGCACAAGCAATAAAATATTTAAAACAACAACATCCATTTGTCGAGGAAACTCAATTG
CTATCAAAACTTATGGCTTATTGTTCAAAAGAAGCGCACAGCTGTGTTGAAAAGGCAGCA
ATGATTAGTTTTGTAAAACTTCGAATTTTAGAACCAGATGAGAAAAGCAGTTTGCGAGCT
GATACATTAAAAAAAGCAATGGAAGAAGATGAATTACAAGGTCTTATTCCTTTTTTCGTA
TCAACTACGCTTGGTACAACTGGTTCGTGTGGCTTTGATGCTTTAGAGGAAATTGGCAGA
GCTTTGCGTAAATTCCCAAATGTTTGGCTTCATGTTGATGCAGCATATGCCGGAAATGCT
TTTATATGTCCAGAATTAAAATATATTCTTAAGGGTATCGAGTACGCAGACTCGTTTAAC
ACTAATCCAAATAAATGGCTTCTAACAAACTTCGATTGCTCCACGTTATGGGTACGTGAC
AGAATTCGTTTAACATCAGCACTTGTTGTCGACCCATTGTATCTAAAGCATGGCTATTCT
GACGCTACAATTGATTATAGACATTGGGGTGTTCCTTTAAGTCGTCGTTTTCGATCATTA
AAACTTTGGTTTGTTTTGCGAACCTACGGTATCTCCGGTTTGCAAGAATACATAAGACAT
CACATTCGGCTTGCAAAAAGATTTGAGCAACATGTGCTAAAAGATAAACGTTTTGAGGTC
TGTAACGAAGTCAAATTAGGACTTGTTTGCTTTCGCTTAAAAGGTTCTGATAAACTAAAT
GAGAAACTTTTGAGCATTATTAATGGATCGGGAAAATTACACATGGTACCAGCATCGGTC
AATGATCGTTACATTATACGATTCTGTGCTGTAGCTCAAAATGCTTCAGATAATGACATT
GATTACGCATGGGAAACAATTACAGATTTTGCCACAGAGCTTCTCGAAAAAGAGCAAGAC
GATGATTTCGTTGAAATTACTGAAGATCCACGCAAAAAACATACACTTGCTCAAAAACGA
TCATTCTTTGTTCGGATGGTTAGCGATCCAAAGATGTATAATCCAGGAATCAATACACCG
AGAATTTCTACGGAGATTGCATCACCAACAAGAGATGGAACAATGGTCACTCTTCAATCG
CCACCACATGAGTCATCGTGGATATCATGGCCATTGGCGTTTCTGTTTAACAGTACCGAT
GAAGGTAGCAGCGGAAAAAATGATGTTACGTTAAGATTTCGCCATCTAGATGTAAAAATG
GGTTCTTCACGTCGAAATTCTGCTACAGGCAACTCTTCTCCATCGCCAGAAGGTGATAAT
GGTATATTAAAATCTCCAAAGAAATCACCTCAGCTATCGCGTAAGAGGGGCACTTCACCA
AATCCGCGTCCATCTGATGGAAATTTATCTTAA
>g8199.t1 Gene=g8199 Length=630
MDSKEFRKRGTEMVEYICQYLETLENRRVTPSVEPGYLRNLLPNEAPYKPEPWEKIMDDV
ETKIMPGVTHWQHPRFHAYFPAGNSFPSILGDMLGDAIGCIGFSWAASPACTELETIVLD
WLGKAIGLPDAFLALKEGSKGGGVIQTSASECILVTMLAARAQAIKYLKQQHPFVEETQL
LSKLMAYCSKEAHSCVEKAAMISFVKLRILEPDEKSSLRADTLKKAMEEDELQGLIPFFV
STTLGTTGSCGFDALEEIGRALRKFPNVWLHVDAAYAGNAFICPELKYILKGIEYADSFN
TNPNKWLLTNFDCSTLWVRDRIRLTSALVVDPLYLKHGYSDATIDYRHWGVPLSRRFRSL
KLWFVLRTYGISGLQEYIRHHIRLAKRFEQHVLKDKRFEVCNEVKLGLVCFRLKGSDKLN
EKLLSIINGSGKLHMVPASVNDRYIIRFCAVAQNASDNDIDYAWETITDFATELLEKEQD
DDFVEITEDPRKKHTLAQKRSFFVRMVSDPKMYNPGINTPRISTEIASPTRDGTMVTLQS
PPHESSWISWPLAFLFNSTDEGSSGKNDVTLRFRHLDVKMGSSRRNSATGNSSPSPEGDN
GILKSPKKSPQLSRKRGTSPNPRPSDGNLS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 17 | g8199.t1 | CDD | cd06450 | DOPA_deC_like | 76 | 469 | 5.09062E-123 |
| 15 | g8199.t1 | Gene3D | G3DSA:1.20.1340.10 | dopa decarboxylase | 1 | 81 | 7.5E-39 |
| 16 | g8199.t1 | Gene3D | G3DSA:3.40.640.10 | - | 82 | 379 | 2.3E-114 |
| 14 | g8199.t1 | Gene3D | G3DSA:3.90.1150.10 | Aspartate Aminotransferase | 380 | 485 | 2.4E-37 |
| 21 | g8199.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 580 | 630 | - |
| 20 | g8199.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 582 | 599 | - |
| 19 | g8199.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 612 | 630 | - |
| 2 | g8199.t1 | PANTHER | PTHR11999 | GROUP II PYRIDOXAL-5-PHOSPHATE DECARBOXYLASE | 1 | 516 | 9.7E-260 |
| 3 | g8199.t1 | PANTHER | PTHR11999:SF144 | MIP05841P | 1 | 516 | 9.7E-260 |
| 5 | g8199.t1 | PRINTS | PR00800 | Aromatic-L-amino-acid decarboxylase signature | 6 | 25 | 2.0E-82 |
| 12 | g8199.t1 | PRINTS | PR00800 | Aromatic-L-amino-acid decarboxylase signature | 29 | 46 | 2.0E-82 |
| 4 | g8199.t1 | PRINTS | PR00800 | Aromatic-L-amino-acid decarboxylase signature | 47 | 66 | 2.0E-82 |
| 9 | g8199.t1 | PRINTS | PR00800 | Aromatic-L-amino-acid decarboxylase signature | 73 | 92 | 2.0E-82 |
| 10 | g8199.t1 | PRINTS | PR00800 | Aromatic-L-amino-acid decarboxylase signature | 94 | 112 | 2.0E-82 |
| 8 | g8199.t1 | PRINTS | PR00800 | Aromatic-L-amino-acid decarboxylase signature | 113 | 132 | 2.0E-82 |
| 6 | g8199.t1 | PRINTS | PR00800 | Aromatic-L-amino-acid decarboxylase signature | 141 | 161 | 2.0E-82 |
| 7 | g8199.t1 | PRINTS | PR00800 | Aromatic-L-amino-acid decarboxylase signature | 352 | 367 | 2.0E-82 |
| 11 | g8199.t1 | PRINTS | PR00800 | Aromatic-L-amino-acid decarboxylase signature | 395 | 414 | 2.0E-82 |
| 1 | g8199.t1 | Pfam | PF00282 | Pyridoxal-dependent decarboxylase conserved domain | 35 | 414 | 5.1E-149 |
| 18 | g8199.t1 | ProSitePatterns | PS00392 | DDC / GAD / HDC / TyrDC pyridoxal-phosphate attachment site. | 298 | 319 | - |
| 13 | g8199.t1 | SUPERFAMILY | SSF53383 | PLP-dependent transferases | 1 | 475 | 7.9E-141 |
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:0019752 | carboxylic acid metabolic process | BP |
| GO:0016831 | carboxy-lyase activity | MF |
| GO:0006520 | cellular amino acid metabolic process | BP |
| GO:0003824 | catalytic activity | MF |
| GO:0030170 | pyridoxal phosphate binding | MF |
KEGG
Orthology
- This transcript has been annotated with K22329 (tyrosine decarboxylase)
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.
