General information for g6140.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as S-adenosylmethionine decarboxylase proenzyme.
Parent gene
- The parent gene g6140 is located on chr_2: 14465019..14466163 (- 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 | g6140 | g6140.t5 | isoform | g6140.t5 | 14451588 | 14452219 |
| chr_2 | g6140 | g6140.t5 | exon | g6140.t5.exon1 | 14451588 | 14451688 |
| chr_2 | g6140 | g6140.t5 | cds | g6140.t5.CDS1 | 14451590 | 14451688 |
| chr_2 | g6140 | g6140.t5 | exon | g6140.t5.exon2 | 14451748 | 14452219 |
| chr_2 | g6140 | g6140.t5 | cds | g6140.t5.CDS2 | 14451748 | 14452209 |
| chr_2 | g6140 | g6140.t5 | TSS | g6140.t5 | NA | NA |
| chr_2 | g6140 | g6140.t5 | TTS | g6140.t5 | NA | NA |
Sequences
>g6140.t5 Gene=g6140 Length=573
TGAGAGCAGCATGTTTGTTTCCAAGCGAAGATGGATTTTAAAGACATGTGGCACAACCAC
ACCACTACAGTGCTTGGAACCGCTTTTGCAGATGGCATTTGAAATTGGCGGTTATTCTGA
GATCGAAGATTTGTTTTACTCGCGCAAAAATTATAAAAAGCCAGAATTGCAGGTGTCACC
ACATCGTGGATTTGAAGAAGAAGTCGCTTTCCTCGATCAATTTTTTGATGACGGTCGCGC
CTACTGCTTAGGCTCGGTCAACCGCGATTGTTGGTATTTGTACACTCTCAGCAGACGTGG
TGTGGGTGAGGCTTTAGTCAATGAAATGTCGCTTGCCAACAACATGATTATTGAATCACT
TGAGGTTCCGGATCCTGATCAAACAATTGAAGTGTTGATGACTGATTTAGACCCAAAGGT
CATGGCAATTTTCACCAAACCCAATTCATCTGATGCAAAAGAAGCAACTCTTCAATCTGG
AATCAACAAGATCATTCCAGGAATGATAATCGATGACTATCTCTTCGATCCATGCGGCTA
TTCAATGAATGGAGTTTCAAAGAACGTAAGTAG
>g6140.t5 Gene=g6140 Length=187
MFVSKRRWILKTCGTTTPLQCLEPLLQMAFEIGGYSEIEDLFYSRKNYKKPELQVSPHRG
FEEEVAFLDQFFDDGRAYCLGSVNRDCWYLYTLSRRGVGEALVNEMSLANNMIIESLEVP
DPDQTIEVLMTDLDPKVMAIFTKPNSSDAKEATLQSGINKIIPGMIIDDYLFDPCGYSMN
GVSKNVS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g6140.t5 | Gene3D | G3DSA:3.60.90.10 | - | 1 | 187 | 0 |
| 2 | g6140.t5 | PANTHER | PTHR11570:SF0 | S-ADENOSYLMETHIONINE DECARBOXYLASE PROENZYME | 1 | 185 | 0 |
| 3 | g6140.t5 | PANTHER | PTHR11570 | S-ADENOSYLMETHIONINE DECARBOXYLASE | 1 | 185 | 0 |
| 1 | g6140.t5 | Pfam | PF01536 | Adenosylmethionine decarboxylase | 1 | 185 | 0 |
| 4 | g6140.t5 | SUPERFAMILY | SSF56276 | S-adenosylmethionine decarboxylase | 1 | 182 | 0 |
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:0004014 | adenosylmethionine decarboxylase activity | MF |
| GO:0006597 | spermine biosynthetic process | BP |
| GO:0008295 | spermidine biosynthetic process | BP |
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.
