General information for g2603.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Protein phosphatase 1D.
Parent gene
- The parent gene g2603 is located on chr_3: 19010038..19010961 (- 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_3 | g2603 | g2603.t6 | isoform | g2603.t6 | 19008389 | 19009495 |
| chr_3 | g2603 | g2603.t6 | exon | g2603.t6.exon1 | 19008389 | 19008393 |
| chr_3 | g2603 | g2603.t6 | cds | g2603.t6.CDS1 | 19008391 | 19008393 |
| chr_3 | g2603 | g2603.t6 | exon | g2603.t6.exon2 | 19008453 | 19008898 |
| chr_3 | g2603 | g2603.t6 | cds | g2603.t6.CDS2 | 19008453 | 19008898 |
| chr_3 | g2603 | g2603.t6 | exon | g2603.t6.exon3 | 19009320 | 19009495 |
| chr_3 | g2603 | g2603.t6 | cds | g2603.t6.CDS3 | 19009320 | 19009341 |
| chr_3 | g2603 | g2603.t6 | TSS | g2603.t6 | 19010126 | 19010126 |
| chr_3 | g2603 | g2603.t6 | TTS | g2603.t6 | NA | NA |
Sequences
>g2603.t6 Gene=g2603 Length=627
TGATGAAGGTAATTGAATATTTTTCATATTTATTATAGTTATGTTATTTATTTATTAGTT
TAAACTTTAAAGTCATTTGTCTTCAAAATTATAATAATTTTTAATCTTTTTAGATATTCT
GCAAGCAATTAAGGAAGGTTTTAATGAATGTCACATGGCCATGTGGAGGGACTTAGACAA
CTGGCCACCAACAAGTAGTGGACTCCCAAGTACGGCTGGTACAACAGCTAGCATAGCATT
TATTCGTAAAGGTAAATTGTATATTGGGCATTGTGGAGATTCTGGAATAGTGCTTGCAAA
AGAACAACATGACTCATCGTGGAAAGCAGTGCCGCTAACGCTTGATCATAAACCCGATAG
CATTTTAGAAAAGCAGCGTATTGAAGCTTGTGGAGGAAAAGTTGTTGAAAAACAAGGAAT
TCATAGAGTAGTATGGTATCGTCCAAAATATCCACATCAAGGACCAATAAGAAGAAATAC
AAGGATCGAAGAGATTCCTTTTTTAGCTGTTGCTCGTTCGTTAGGAGACTTGTGGTCCTA
CAATTTGAAAACTCAAAAATTTATGGTTTCACCAGAACCCGATGTTTCAGTTTATGAGAT
AAATACGCTCACTGACAAGTTAATGTC
>g2603.t6 Gene=g2603 Length=157
MAMWRDLDNWPPTSSGLPSTAGTTASIAFIRKGKLYIGHCGDSGIVLAKEQHDSSWKAVP
LTLDHKPDSILEKQRIEACGGKVVEKQGIHRVVWYRPKYPHQGPIRRNTRIEEIPFLAVA
RSLGDLWSYNLKTQKFMVSPEPDVSVYEINTLTDKLM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g2603.t6 | CDD | cd00143 | PP2Cc | 13 | 156 | 0.000 |
| 5 | g2603.t6 | Gene3D | G3DSA:3.60.40.10 | Phosphatase 2c; Domain 1 | 2 | 157 | 0.000 |
| 2 | g2603.t6 | PANTHER | PTHR47992 | ALPHABET, ISOFORM E-RELATED | 2 | 155 | 0.000 |
| 3 | g2603.t6 | PANTHER | PTHR47992:SF79 | PROTEIN PHOSPHATASE 1D | 2 | 155 | 0.000 |
| 1 | g2603.t6 | Pfam | PF00481 | Protein phosphatase 2C | 12 | 156 | 0.000 |
| 6 | g2603.t6 | ProSiteProfiles | PS51746 | PPM-type phosphatase domain profile. | 1 | 157 | 19.701 |
| 4 | g2603.t6 | SUPERFAMILY | SSF81606 | PP2C-like | 18 | 151 | 0.000 |
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:0016791 | phosphatase activity | MF |
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.
