General information for g7611.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Phosphoserine phosphatase.
Parent gene
- The parent gene g7611 is located on chr_2: 24927729..24928196 (+ 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 | g7611 | g7611.t1 | TSS | g7611.t1 | 24926678 | 24926678 |
| chr_2 | g7611 | g7611.t1 | isoform | g7611.t1 | 24926883 | 24928196 |
| chr_2 | g7611 | g7611.t1 | exon | g7611.t1.exon1 | 24926883 | 24926890 |
| chr_2 | g7611 | g7611.t1 | cds | g7611.t1.CDS1 | 24926883 | 24926890 |
| chr_2 | g7611 | g7611.t1 | exon | g7611.t1.exon2 | 24927072 | 24927503 |
| chr_2 | g7611 | g7611.t1 | cds | g7611.t1.CDS2 | 24927072 | 24927503 |
| chr_2 | g7611 | g7611.t1 | exon | g7611.t1.exon3 | 24927702 | 24927780 |
| chr_2 | g7611 | g7611.t1 | cds | g7611.t1.CDS3 | 24927702 | 24927780 |
| chr_2 | g7611 | g7611.t1 | exon | g7611.t1.exon4 | 24927867 | 24928196 |
| chr_2 | g7611 | g7611.t1 | cds | g7611.t1.CDS4 | 24927867 | 24928196 |
| chr_2 | g7611 | g7611.t1 | TTS | g7611.t1 | 24928300 | 24928300 |
Sequences
>g7611.t1 Gene=g7611 Length=849
ATGAATCGTTGGAATAAATCGATCGTCAGTCTGGTTGCAATTGCTTCACCATCCACATCG
ACAAATAGTAGTGCCCAAGTAATCATGCCTCAAATACAATCTTTAGTTCGTAATCTTACA
ACTACTGTCACAACAACCGGTTCAAAAACAACAGCTGAAAATAAAAGCAAACGCGTATTG
GAAGCTAAACGAATTATTCAATCAGCTGATATTGTTTGCTTTGATGTTGATTCAACTGTA
ATAAAAGAAGAAGGTATCGACGAATTAGCAGAATTTTGTGGTAAAGGTGAAGAGGTATCG
AATCTGACAAAGGAAGCGATGGGTGGTGCAATGACATTCCAAGAGGCTCTACGTCGAAGA
TTGGATATAATCAAACCAACACAATCGCAAATAAGACAGTTTTTACTGGAAAAGCCTAGC
ACATTGTCTCCTCGTATCAAAGAATTTATTGAGTATCTCAAGAGCCATGGTAAAAAAATT
TATTTAATCTCGGGTGGTTTTCATTCGTTGATAGATCCTGTGTGTCAAGAACTTGAAATT
CCACTTACAAACTTGTTTGCTAACAAATTGTTATTTGATTTTAATGGAAATTATGCTGGA
TTTGATATCAATCAGCCGACATCAAGAAGCGGAGGTAAAGGAGACGCAATCGCGCAAATA
AGAATGGCTAATAGCAGTCAGCTTATTGAAAATGATCGAAAGACAATTGTCATGATTGGT
GATGGAGCAACTGATTTAGAAAGTTCACCTCCTGCTGATTATTTCATTGGTTATGGTGGA
AATGTCATTAGAGAACCCGTACGAGAACGTGCACTTTATTTTGTTACAGACTTTTCTCAA
TTAATGTGA
>g7611.t1 Gene=g7611 Length=282
MNRWNKSIVSLVAIASPSTSTNSSAQVIMPQIQSLVRNLTTTVTTTGSKTTAENKSKRVL
EAKRIIQSADIVCFDVDSTVIKEEGIDELAEFCGKGEEVSNLTKEAMGGAMTFQEALRRR
LDIIKPTQSQIRQFLLEKPSTLSPRIKEFIEYLKSHGKKIYLISGGFHSLIDPVCQELEI
PLTNLFANKLLFDFNGNYAGFDINQPTSRSGGKGDAIAQIRMANSSQLIENDRKTIVMIG
DGATDLESSPPADYFIGYGGNVIREPVRERALYFVTDFSQLM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g7611.t1 | CDD | cd04309 | HAD_PSP_eu | 70 | 278 | 3.33405E-114 |
| 6 | g7611.t1 | Gene3D | G3DSA:3.40.50.1000 | - | 72 | 275 | 3.1E-68 |
| 7 | g7611.t1 | Gene3D | G3DSA:1.10.150.210 | Phosphoserine phosphatase; domain 2 | 85 | 201 | 3.1E-68 |
| 2 | g7611.t1 | PANTHER | PTHR43344:SF2 | PHOSPHOSERINE PHOSPHATASE | 20 | 282 | 1.5E-83 |
| 3 | g7611.t1 | PANTHER | PTHR43344 | PHOSPHOSERINE PHOSPHATASE | 20 | 282 | 1.5E-83 |
| 1 | g7611.t1 | Pfam | PF00702 | haloacid dehalogenase-like hydrolase | 70 | 248 | 2.8E-10 |
| 9 | g7611.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 25 | - |
| 10 | g7611.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 7 | - |
| 11 | g7611.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 8 | 16 | - |
| 12 | g7611.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 17 | 25 | - |
| 8 | g7611.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 26 | 282 | - |
| 4 | g7611.t1 | SUPERFAMILY | SSF56784 | HAD-like | 63 | 281 | 5.41E-51 |
| 14 | g7611.t1 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 25 | - |
| 5 | g7611.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 25 | - |
| 16 | g7611.t1 | TIGRFAM | TIGR00338 | serB: phosphoserine phosphatase SerB | 61 | 271 | 1.1E-48 |
| 15 | g7611.t1 | TIGRFAM | TIGR01488 | HAD-SF-IB: HAD phosphoserine phosphatase-like hydrolase, family IB | 72 | 248 | 3.3E-33 |
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:0004647 | NA | NA |
| GO:0006564 | L-serine biosynthetic process | BP |
KEGG
Orthology
- This transcript has been annotated with K01079 (phosphoserine phosphatase)
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.
