General information for g11700.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Delta-1-pyrroline-5-carboxylate synthase.
Parent gene
- The parent gene g11700 is located on chr_1: 17870794..17874538 (- 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_1 | g11700 | g11700.t2 | TTS | g11700.t2 | 17869854 | 17869854 |
| chr_1 | g11700 | g11700.t2 | isoform | g11700.t2 | 17870092 | 17874538 |
| chr_1 | g11700 | g11700.t2 | exon | g11700.t2.exon1 | 17870092 | 17870508 |
| chr_1 | g11700 | g11700.t2 | cds | g11700.t2.CDS1 | 17870092 | 17870508 |
| chr_1 | g11700 | g11700.t2 | exon | g11700.t2.exon2 | 17870575 | 17870708 |
| chr_1 | g11700 | g11700.t2 | cds | g11700.t2.CDS2 | 17870575 | 17870708 |
| chr_1 | g11700 | g11700.t2 | exon | g11700.t2.exon3 | 17870773 | 17871263 |
| chr_1 | g11700 | g11700.t2 | cds | g11700.t2.CDS3 | 17870773 | 17871263 |
| chr_1 | g11700 | g11700.t2 | exon | g11700.t2.exon4 | 17871332 | 17871805 |
| chr_1 | g11700 | g11700.t2 | cds | g11700.t2.CDS4 | 17871332 | 17871805 |
| chr_1 | g11700 | g11700.t2 | exon | g11700.t2.exon5 | 17871889 | 17872028 |
| chr_1 | g11700 | g11700.t2 | cds | g11700.t2.CDS5 | 17871889 | 17872028 |
| chr_1 | g11700 | g11700.t2 | exon | g11700.t2.exon6 | 17872876 | 17873045 |
| chr_1 | g11700 | g11700.t2 | cds | g11700.t2.CDS6 | 17872876 | 17873045 |
| chr_1 | g11700 | g11700.t2 | exon | g11700.t2.exon7 | 17873113 | 17873178 |
| chr_1 | g11700 | g11700.t2 | cds | g11700.t2.CDS7 | 17873113 | 17873178 |
| chr_1 | g11700 | g11700.t2 | exon | g11700.t2.exon8 | 17873254 | 17873602 |
| chr_1 | g11700 | g11700.t2 | cds | g11700.t2.CDS8 | 17873254 | 17873602 |
| chr_1 | g11700 | g11700.t2 | exon | g11700.t2.exon9 | 17874431 | 17874538 |
| chr_1 | g11700 | g11700.t2 | cds | g11700.t2.CDS9 | 17874431 | 17874538 |
| chr_1 | g11700 | g11700.t2 | TSS | g11700.t2 | 17874671 | 17874671 |
Sequences
>g11700.t2 Gene=g11700 Length=2349
ATGAAGCAAATTTTTATGAAAAACTTAAATAAGGTCAATTTGTCAGCATCTAGTTTCATT
AATAAATATGTTAGTAGGTCAATGTGTCATGTTAGTGCAGGAGGGAATAAATCCATTGAT
AAAAGGATGCTGCAAACGGCTGATCGAAGACAATCGACCTTTACAGACCGTTCCCAATTA
CGTTATGCCAAACGATTGGTCATTAAACTTGGTAGTGCTGTTATTACACGTGAGGATCAA
AATGGCTTAGCTTTGGGTCGATTGGCATCAATTGTAGAGCAAGTGGCAGAATGTCAACTA
GAAGGTCGAGAATGTATCATGGTGACGAGTGGTGCTGTAGCTTTTGGGAAACAGAAGCTA
GCCCAAGAGCTTTTAATGACACTAACAATGAGAGAAACATTGCACCCGCAGGGAGAAGCA
AATCATACTTTGGAGCCCCGAGCAGCTGCTGCTGTTGGACAATCTGGATTGATGAGTTTG
TATGAAGCAATGTTTGCACAGTATGGTGTTAGAATAGCACAAGTGTTGCTTACAAAACCA
GACTTTTACAATGAAGAAACTCGAAAGAATTTATTCTCTACACTGAGTGAATTAATCAGC
TTGAATATTGTGCCGATTATAAACACGAATGATGCTGTATCACCACCAATGTTTGTAGTT
GAAGAAGAGGTCCCGGTCAAAGGATCAAAACGAGGTATTTCTATAAAAGACAACGATTCA
TTAGCAGCAATGTTATCAGCAGAAATTCATTCTGATCTATTAATTCTCATGTCGGATGTT
GATGGAATTTATAACAAGCCGCCATGGGAGGATAATGCGAGATTATTGCACGTTTTCTCT
CGTGATGATCGTCAAAAAATACGTTTTGGTAAAAAATCCAAAGTTGGTACTGGTGGCATG
GATTCTAAACTTAATGCTGCAACATGGGCACTTGATAGAGGTGTCAGCGTGGTTATTTGT
AATGGAAGCCAAGATAATGCTATTAAAGAAATTGTTGAAGGTAGAAAAGTTGGAACATTT
TTTACAGAATCCACAAGTGGATCAATGCAAGTAGACATTCTTGCCGATAATGCTAGAAAT
GGTTGCAGAATTCTTCAAAACCTTTCTCCAAATGAACGTGCTGGATGTGTGAATACTCTT
GCTGACTTGTTATTAGCAAAGCAACAATTTATACTTGATGCAAATGAAAAAGATTTAGCT
GAAGCACAAAAAAATGGACTTGCTAAACCATTGCTATCACGCCTATCACTTTCACCACAA
AAATTACGAAGTCTTAGTACTGGACTCAAGCAAATTGCTGAATCAAGTCACAGCATTGTT
GGACGTATATTGCGACATACGAAATTGGCCGATGGCTTAATGTTGAAACAAATTACAGTG
CCAATTGGCGTTTTATTGGTAATTTTTGAATCACGTCCAGACTCTTTACCACAAGTAGCA
GCTTTGTCAATTGCAAGTGCAAATGGTTTACTTTTGAAAGGTGGCAAGGAAGCGTCCCAT
AGCAATAAAGCACTCATGGAATTAGTAAAAGAAGCTCTTTCTACAGTTGGTGCAACCAAT
GCAATATCACTCGTTTCGACACGTGAAGAAATATCAGATTTACTTGGTATGGAAAAACAC
ATTGATCTTATTATTCCACGCGGTTCTTCCGAACTGGTTAGAACGATCCAAAGTCAGTCA
CAAAGAATACCCGTCTTGGGTCATGCTGAAGGCATCTGTCATGTGTATGTTGATCGAGAG
GCAGAACTTGCCAAGGCATTGAAAATAGTTCGCGATGCTAAATGTGATTATCCTGCAGCT
TGCAATGCTATGGAAACATTACTGATCCATGAAGATTTATTTATGAATTCAAATGCTTCA
TTCTTTCATGATGTATGCAATATGTTGAAAAAAGAAGGTGTGACAATATATTCGGGACCA
AAATTAAATCAACATCTGACATTCGGACCACCACAAGCAAAAACAATGAAACATGAATAC
AGCGATCTTGCTTGTTGCATAGAAATTGTCAAAGATGTTGAAGAAGCAATCGAACATATT
AACCGTTTTGGAAGTTCACACACAGATGTTATCATTACTGAAAATAAGGAATCTGCAGAA
TATTTTCAAAAACAAGTTGATTCAGCCTGCGTTTTCCACAACGCTTCATCAAGATTTGCC
GATGGCTATCGTTTTGGACTCGGTGCAGAAGTAGGAATTTCAACTGCAAGGATTCATGCA
CGTGGACCAGTTGGTGTTGAAGGACTATTAAGCACAAAATGGATTTTGGATGGAGTTGAC
CACACAGCAGCTGAATTTAGTGAAAACGGTTCAAGACATTTTGTTCATGAGCCACTTAAA
TTGGATTAA
>g11700.t2 Gene=g11700 Length=782
MKQIFMKNLNKVNLSASSFINKYVSRSMCHVSAGGNKSIDKRMLQTADRRQSTFTDRSQL
RYAKRLVIKLGSAVITREDQNGLALGRLASIVEQVAECQLEGRECIMVTSGAVAFGKQKL
AQELLMTLTMRETLHPQGEANHTLEPRAAAAVGQSGLMSLYEAMFAQYGVRIAQVLLTKP
DFYNEETRKNLFSTLSELISLNIVPIINTNDAVSPPMFVVEEEVPVKGSKRGISIKDNDS
LAAMLSAEIHSDLLILMSDVDGIYNKPPWEDNARLLHVFSRDDRQKIRFGKKSKVGTGGM
DSKLNAATWALDRGVSVVICNGSQDNAIKEIVEGRKVGTFFTESTSGSMQVDILADNARN
GCRILQNLSPNERAGCVNTLADLLLAKQQFILDANEKDLAEAQKNGLAKPLLSRLSLSPQ
KLRSLSTGLKQIAESSHSIVGRILRHTKLADGLMLKQITVPIGVLLVIFESRPDSLPQVA
ALSIASANGLLLKGGKEASHSNKALMELVKEALSTVGATNAISLVSTREEISDLLGMEKH
IDLIIPRGSSELVRTIQSQSQRIPVLGHAEGICHVYVDREAELAKALKIVRDAKCDYPAA
CNAMETLLIHEDLFMNSNASFFHDVCNMLKKEGVTIYSGPKLNQHLTFGPPQAKTMKHEY
SDLACCIEIVKDVEEAIEHINRFGSSHTDVIITENKESAEYFQKQVDSACVFHNASSRFA
DGYRFGLGAEVGISTARIHARGPVGVEGLLSTKWILDGVDHTAAEFSENGSRHFVHEPLK
LD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 19 | g11700.t2 | CDD | cd04256 | AAK_P5CS_ProBA | 57 | 342 | 3.68403E-165 |
| 18 | g11700.t2 | CDD | cd07079 | ALDH_F18-19_ProA-GPR | 354 | 758 | 0.0 |
| 14 | g11700.t2 | Gene3D | G3DSA:3.40.1160.10 | - | 53 | 348 | 3.0E-93 |
| 15 | g11700.t2 | Gene3D | G3DSA:3.40.605.10 | Aldehyde Dehydrogenase; Chain A | 363 | 758 | 5.9E-157 |
| 16 | g11700.t2 | Gene3D | G3DSA:3.40.309.10 | Aldehyde Dehydrogenase; Chain A | 570 | 721 | 5.9E-157 |
| 5 | g11700.t2 | Hamap | MF_00456 | Glutamate 5-kinase [proB]. | 64 | 346 | 29.781664 |
| 6 | g11700.t2 | Hamap | MF_00412 | Gamma-glutamyl phosphate reductase [proA]. | 350 | 763 | 32.328148 |
| 3 | g11700.t2 | PANTHER | PTHR11063 | GLUTAMATE SEMIALDEHYDE DEHYDROGENASE | 61 | 779 | 3.2E-297 |
| 4 | g11700.t2 | PANTHER | PTHR11063:SF8 | DELTA-1-PYRROLINE-5-CARBOXYLATE SYNTHASE | 61 | 779 | 3.2E-297 |
| 17 | g11700.t2 | PIRSF | PIRSF036429 | P5C_synthetase | 6 | 782 | 0.0 |
| 9 | g11700.t2 | PRINTS | PR00474 | Glutamate 5-kinase family signature | 102 | 116 | 1.3E-52 |
| 8 | g11700.t2 | PRINTS | PR00474 | Glutamate 5-kinase family signature | 150 | 178 | 1.3E-52 |
| 11 | g11700.t2 | PRINTS | PR00474 | Glutamate 5-kinase family signature | 190 | 211 | 1.3E-52 |
| 10 | g11700.t2 | PRINTS | PR00474 | Glutamate 5-kinase family signature | 237 | 264 | 1.3E-52 |
| 7 | g11700.t2 | PRINTS | PR00474 | Glutamate 5-kinase family signature | 295 | 315 | 1.3E-52 |
| 1 | g11700.t2 | Pfam | PF00696 | Amino acid kinase family | 64 | 321 | 8.7E-38 |
| 2 | g11700.t2 | Pfam | PF00171 | Aldehyde dehydrogenase family | 345 | 616 | 9.8E-11 |
| 20 | g11700.t2 | ProSitePatterns | PS00902 | Glutamate 5-kinase signature. | 293 | 310 | - |
| 21 | g11700.t2 | ProSitePatterns | PS01223 | Gamma-glutamyl phosphate reductase signature. | 670 | 692 | - |
| 13 | g11700.t2 | SUPERFAMILY | SSF53633 | Carbamate kinase-like | 64 | 342 | 3.8E-50 |
| 12 | g11700.t2 | SUPERFAMILY | SSF53720 | ALDH-like | 350 | 761 | 8.27E-93 |
| 24 | g11700.t2 | TIGRFAM | TIGR01092 | P5CS: delta l-pyrroline-5-carboxylate synthetase | 57 | 779 | 5.6E-291 |
| 22 | g11700.t2 | TIGRFAM | TIGR01027 | proB: glutamate 5-kinase | 64 | 346 | 3.0E-63 |
| 23 | g11700.t2 | TIGRFAM | TIGR00407 | proA: glutamate-5-semialdehyde dehydrogenase | 358 | 753 | 4.1E-132 |
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:0016620 | oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor | MF |
| GO:0006561 | proline biosynthetic process | BP |
| GO:0004350 | glutamate-5-semialdehyde dehydrogenase activity | MF |
| GO:0003824 | catalytic activity | MF |
| GO:0055114 | NA | NA |
| GO:0005737 | cytoplasm | CC |
| GO:0004349 | glutamate 5-kinase activity | MF |
| GO:0016491 | oxidoreductase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K12657 (delta-1-pyrroline-5-carboxylate synthetase)
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. There were no conditions that were differentially expressed