General information for g6125.t19
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Phosphoglycerate kinase.
Parent gene
- The parent gene g6125 is located on chr_2: 14396643..14397863 (- 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 | g6125 | g6125.t19 | TTS | g6125.t19 | 14396087 | 14396087 |
| chr_2 | g6125 | g6125.t19 | isoform | g6125.t19 | 14396253 | 14397863 |
| chr_2 | g6125 | g6125.t19 | exon | g6125.t19.exon1 | 14396253 | 14396278 |
| chr_2 | g6125 | g6125.t19 | exon | g6125.t19.exon2 | 14396347 | 14396506 |
| chr_2 | g6125 | g6125.t19 | cds | g6125.t19.CDS1 | 14396481 | 14396506 |
| chr_2 | g6125 | g6125.t19 | exon | g6125.t19.exon3 | 14396592 | 14397486 |
| chr_2 | g6125 | g6125.t19 | cds | g6125.t19.CDS2 | 14396592 | 14397486 |
| chr_2 | g6125 | g6125.t19 | exon | g6125.t19.exon4 | 14397602 | 14397710 |
| chr_2 | g6125 | g6125.t19 | cds | g6125.t19.CDS3 | 14397602 | 14397710 |
| chr_2 | g6125 | g6125.t19 | exon | g6125.t19.exon5 | 14397802 | 14397863 |
| chr_2 | g6125 | g6125.t19 | cds | g6125.t19.CDS4 | 14397802 | 14397863 |
| chr_2 | g6125 | g6125.t19 | TSS | g6125.t19 | 14397935 | 14397935 |
Sequences
>g6125.t19 Gene=g6125 Length=1252
ATGGCTCTCAACAAATTAAGCATCGAAAACTTGGATTTAGCAGGAAAGCGAGTGTTGATG
CGCGTTGATTTCAACGTTCCCATTAAAGAAGGTAAAATTACAAGCAACCAACGTATTGTG
GCAGCATTAGAATCTATTAAATATGCATTGGATAAAGGAGCTAAATCAGTCGTCTTGTGC
TCTCACTTGGGACGACCTGATGGCAATAAAAATCCAAAATACACCATGGCTCCTGTTGCT
GATGAGTTGAAAAAATTGTTAGGAAAGGATGTCAAATTTATTAATGATTGTGTCGGACCT
GAGGTTGAAGCTATTTGTGCAGATCCACCAACAGGCTCAGTAATTTTGTTGGAAAATCTT
CGCTTTTACATTGAAGAAGAGGGAAAAGGTGTTGATGCAAGTGGTGCTAAAGTGAAGGCA
AACGCAGACAAAGTCAAAGAATTCCGTGCAAGCCTTGCTAAGCTCGGAGACGTCTATATA
AATGATGCATTTGGCACAGCTCATCGTGCTCATTCATCAATGATGGGTGAAGGCTATTCA
CAACGTGCAGCTGGTTTCTTGATGAACAAAGAATTGCGTTACTTCTCAAAGGCTCTCGAC
AACCCAGCACGTCCATTTTTGGCAATTCTCGGCGGCGCTAAAGTTGCTGACAAAATTCAA
CTAATTGAGAATTTATTGGATAAAGTTAATGAAATGATTATTGGTGGTGGAATGGCATTC
ACTTTTTTGAAAGTATTGAACAATATGGAAATTGGTGGCTCATTGTTTGACGAGGAAGGC
GCCAAAATTGTACAAAACTTAGTCGAGAAGGCAAAGAAAAATAATGTGCAGCTTCATTTG
CCAGTCGATTTTGTTACTGGTTCAAAGTTCGGTGAAGACGCTGAAGTTGGCGAAGCATCA
GTTGAAAGTGGAATTCCTGCAGGATGGATGGGACTTGATGTTGGTCCGAAGACTCGTGAG
CTATTTGCTGCTCCAGTCGCTCGTGCAAAGGTCATCGTTTGGAATGGTCCATGTGGTGTT
TTTGAATTCCCTAATTTTGCAAAAGGAACAAAAGCTTTGATGGTAAGATGCTGTTGTAGA
TGTAACTGCTAAAGGAGCTATTACAATTATTGGTGGAGGTGATACAGCAAGTTGCTGTGC
AAAGTGGGGAACAGAATCTAAAGTCTCTCATGTTTCAACTGGTGGTGGTGCAAGTTTGGA
ATTACTCGAAGGAAAAACTTTACCAGGTGTTGCTGCATTATCAAATGCTTAA
>g6125.t19 Gene=g6125 Length=363
MALNKLSIENLDLAGKRVLMRVDFNVPIKEGKITSNQRIVAALESIKYALDKGAKSVVLC
SHLGRPDGNKNPKYTMAPVADELKKLLGKDVKFINDCVGPEVEAICADPPTGSVILLENL
RFYIEEEGKGVDASGAKVKANADKVKEFRASLAKLGDVYINDAFGTAHRAHSSMMGEGYS
QRAAGFLMNKELRYFSKALDNPARPFLAILGGAKVADKIQLIENLLDKVNEMIIGGGMAF
TFLKVLNNMEIGGSLFDEEGAKIVQNLVEKAKKNNVQLHLPVDFVTGSKFGEDAEVGEAS
VESGIPAGWMGLDVGPKTRELFAAPVARAKVIVWNGPCGVFEFPNFAKGTKALMVRCCCR
CNC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g6125.t19 | CDD | cd00318 | Phosphoglycerate_kinase | 8 | 354 | 0.0 |
| 12 | g6125.t19 | Gene3D | G3DSA:3.40.50.1260 | - | 2 | 187 | 7.5E-77 |
| 13 | g6125.t19 | Gene3D | G3DSA:3.40.50.1260 | - | 194 | 360 | 2.0E-61 |
| 2 | g6125.t19 | PANTHER | PTHR11406:SF0 | PHOSPHOGLYCERATE KINASE | 3 | 357 | 1.0E-174 |
| 3 | g6125.t19 | PANTHER | PTHR11406 | PHOSPHOGLYCERATE KINASE | 3 | 357 | 1.0E-174 |
| 14 | g6125.t19 | PIRSF | PIRSF000724 | Pgk | 1 | 359 | 1.3E-113 |
| 9 | g6125.t19 | PRINTS | PR00477 | Phosphoglycerate kinase family signature | 12 | 28 | 1.5E-79 |
| 10 | g6125.t19 | PRINTS | PR00477 | Phosphoglycerate kinase family signature | 33 | 55 | 1.5E-79 |
| 6 | g6125.t19 | PRINTS | PR00477 | Phosphoglycerate kinase family signature | 112 | 127 | 1.5E-79 |
| 8 | g6125.t19 | PRINTS | PR00477 | Phosphoglycerate kinase family signature | 155 | 177 | 1.5E-79 |
| 5 | g6125.t19 | PRINTS | PR00477 | Phosphoglycerate kinase family signature | 184 | 206 | 1.5E-79 |
| 4 | g6125.t19 | PRINTS | PR00477 | Phosphoglycerate kinase family signature | 207 | 226 | 1.5E-79 |
| 7 | g6125.t19 | PRINTS | PR00477 | Phosphoglycerate kinase family signature | 331 | 356 | 1.5E-79 |
| 1 | g6125.t19 | Pfam | PF00162 | Phosphoglycerate kinase | 8 | 354 | 5.4E-128 |
| 16 | g6125.t19 | ProSitePatterns | PS00111 | Phosphoglycerate kinase signature. | 17 | 27 | - |
| 11 | g6125.t19 | SUPERFAMILY | SSF53748 | Phosphoglycerate kinase | 3 | 354 | 1.41E-136 |
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:0006096 | glycolytic process | BP |
| GO:0004618 | phosphoglycerate kinase 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. There were no conditions that were differentially expressed