General information for g11700.t1
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.t1 | TTS | g11700.t1 | 17869854 | 17869854 |
| chr_1 | g11700 | g11700.t1 | isoform | g11700.t1 | 17870092 | 17874538 |
| chr_1 | g11700 | g11700.t1 | exon | g11700.t1.exon1 | 17870092 | 17870508 |
| chr_1 | g11700 | g11700.t1 | cds | g11700.t1.CDS1 | 17870092 | 17870508 |
| chr_1 | g11700 | g11700.t1 | exon | g11700.t1.exon2 | 17870575 | 17870708 |
| chr_1 | g11700 | g11700.t1 | cds | g11700.t1.CDS2 | 17870575 | 17870708 |
| chr_1 | g11700 | g11700.t1 | exon | g11700.t1.exon3 | 17870773 | 17871263 |
| chr_1 | g11700 | g11700.t1 | cds | g11700.t1.CDS3 | 17870773 | 17871263 |
| chr_1 | g11700 | g11700.t1 | exon | g11700.t1.exon4 | 17871332 | 17871805 |
| chr_1 | g11700 | g11700.t1 | cds | g11700.t1.CDS4 | 17871332 | 17871805 |
| chr_1 | g11700 | g11700.t1 | exon | g11700.t1.exon5 | 17871889 | 17872028 |
| chr_1 | g11700 | g11700.t1 | cds | g11700.t1.CDS5 | 17871889 | 17872028 |
| chr_1 | g11700 | g11700.t1 | exon | g11700.t1.exon6 | 17872228 | 17872260 |
| chr_1 | g11700 | g11700.t1 | cds | g11700.t1.CDS6 | 17872228 | 17872260 |
| chr_1 | g11700 | g11700.t1 | exon | g11700.t1.exon7 | 17872876 | 17873045 |
| chr_1 | g11700 | g11700.t1 | cds | g11700.t1.CDS7 | 17872876 | 17873045 |
| chr_1 | g11700 | g11700.t1 | exon | g11700.t1.exon8 | 17873113 | 17873178 |
| chr_1 | g11700 | g11700.t1 | cds | g11700.t1.CDS8 | 17873113 | 17873178 |
| chr_1 | g11700 | g11700.t1 | exon | g11700.t1.exon9 | 17873254 | 17873602 |
| chr_1 | g11700 | g11700.t1 | cds | g11700.t1.CDS9 | 17873254 | 17873602 |
| chr_1 | g11700 | g11700.t1 | exon | g11700.t1.exon10 | 17874431 | 17874538 |
| chr_1 | g11700 | g11700.t1 | cds | g11700.t1.CDS10 | 17874431 | 17874538 |
| chr_1 | g11700 | g11700.t1 | TSS | g11700.t1 | 17874671 | 17874671 |
Sequences
>g11700.t1 Gene=g11700 Length=2382
ATGAAGCAAATTTTTATGAAAAACTTAAATAAGGTCAATTTGTCAGCATCTAGTTTCATT
AATAAATATGTTAGTAGGTCAATGTGTCATGTTAGTGCAGGAGGGAATAAATCCATTGAT
AAAAGGATGCTGCAAACGGCTGATCGAAGACAATCGACCTTTACAGACCGTTCCCAATTA
CGTTATGCCAAACGATTGGTCATTAAACTTGGTAGTGCTGTTATTACACGTGAGGATCAA
AATGGCTTAGCTTTGGGTCGATTGGCATCAATTGTAGAGCAAGTGGCAGAATGTCAACTA
GAAGGTCGAGAATGTATCATGGTGACGAGTGGTGCTGTAGCTTTTGGGAAACAGAAGCTA
GCCCAAGAGCTTTTAATGACACTAACAATGAGAGAAACATTGCACCCGCAGGGAGAAGCA
AATCATACTTTGGAGCCCCGAGCAGCTGCTGCTGTTGGACAATCTGGATTGATGAGTTTG
TATGAAGCAATGTTTGCACAGTATGGTGTTAGAATAGCACAAGTGTTGCTTACAAAACCA
GACTTTTACAATGAAGAAACTCGAAAGAATTTATTCTCTACACTGAGTGAATTAATCAGC
TTGAATATTGTGCCGATTATAAACACGAATGATGCTGTATCACCACCAATGTTTGTAGTT
GAAGAAGAGGTCCCGGTCAAAGGATCAAAACGAAGCAATTTATACGAGATTGATCATAAT
GATAAAGGTATTTCTATAAAAGACAACGATTCATTAGCAGCAATGTTATCAGCAGAAATT
CATTCTGATCTATTAATTCTCATGTCGGATGTTGATGGAATTTATAACAAGCCGCCATGG
GAGGATAATGCGAGATTATTGCACGTTTTCTCTCGTGATGATCGTCAAAAAATACGTTTT
GGTAAAAAATCCAAAGTTGGTACTGGTGGCATGGATTCTAAACTTAATGCTGCAACATGG
GCACTTGATAGAGGTGTCAGCGTGGTTATTTGTAATGGAAGCCAAGATAATGCTATTAAA
GAAATTGTTGAAGGTAGAAAAGTTGGAACATTTTTTACAGAATCCACAAGTGGATCAATG
CAAGTAGACATTCTTGCCGATAATGCTAGAAATGGTTGCAGAATTCTTCAAAACCTTTCT
CCAAATGAACGTGCTGGATGTGTGAATACTCTTGCTGACTTGTTATTAGCAAAGCAACAA
TTTATACTTGATGCAAATGAAAAAGATTTAGCTGAAGCACAAAAAAATGGACTTGCTAAA
CCATTGCTATCACGCCTATCACTTTCACCACAAAAATTACGAAGTCTTAGTACTGGACTC
AAGCAAATTGCTGAATCAAGTCACAGCATTGTTGGACGTATATTGCGACATACGAAATTG
GCCGATGGCTTAATGTTGAAACAAATTACAGTGCCAATTGGCGTTTTATTGGTAATTTTT
GAATCACGTCCAGACTCTTTACCACAAGTAGCAGCTTTGTCAATTGCAAGTGCAAATGGT
TTACTTTTGAAAGGTGGCAAGGAAGCGTCCCATAGCAATAAAGCACTCATGGAATTAGTA
AAAGAAGCTCTTTCTACAGTTGGTGCAACCAATGCAATATCACTCGTTTCGACACGTGAA
GAAATATCAGATTTACTTGGTATGGAAAAACACATTGATCTTATTATTCCACGCGGTTCT
TCCGAACTGGTTAGAACGATCCAAAGTCAGTCACAAAGAATACCCGTCTTGGGTCATGCT
GAAGGCATCTGTCATGTGTATGTTGATCGAGAGGCAGAACTTGCCAAGGCATTGAAAATA
GTTCGCGATGCTAAATGTGATTATCCTGCAGCTTGCAATGCTATGGAAACATTACTGATC
CATGAAGATTTATTTATGAATTCAAATGCTTCATTCTTTCATGATGTATGCAATATGTTG
AAAAAAGAAGGTGTGACAATATATTCGGGACCAAAATTAAATCAACATCTGACATTCGGA
CCACCACAAGCAAAAACAATGAAACATGAATACAGCGATCTTGCTTGTTGCATAGAAATT
GTCAAAGATGTTGAAGAAGCAATCGAACATATTAACCGTTTTGGAAGTTCACACACAGAT
GTTATCATTACTGAAAATAAGGAATCTGCAGAATATTTTCAAAAACAAGTTGATTCAGCC
TGCGTTTTCCACAACGCTTCATCAAGATTTGCCGATGGCTATCGTTTTGGACTCGGTGCA
GAAGTAGGAATTTCAACTGCAAGGATTCATGCACGTGGACCAGTTGGTGTTGAAGGACTA
TTAAGCACAAAATGGATTTTGGATGGAGTTGACCACACAGCAGCTGAATTTAGTGAAAAC
GGTTCAAGACATTTTGTTCATGAGCCACTTAAATTGGATTAA
>g11700.t1 Gene=g11700 Length=793
MKQIFMKNLNKVNLSASSFINKYVSRSMCHVSAGGNKSIDKRMLQTADRRQSTFTDRSQL
RYAKRLVIKLGSAVITREDQNGLALGRLASIVEQVAECQLEGRECIMVTSGAVAFGKQKL
AQELLMTLTMRETLHPQGEANHTLEPRAAAAVGQSGLMSLYEAMFAQYGVRIAQVLLTKP
DFYNEETRKNLFSTLSELISLNIVPIINTNDAVSPPMFVVEEEVPVKGSKRSNLYEIDHN
DKGISIKDNDSLAAMLSAEIHSDLLILMSDVDGIYNKPPWEDNARLLHVFSRDDRQKIRF
GKKSKVGTGGMDSKLNAATWALDRGVSVVICNGSQDNAIKEIVEGRKVGTFFTESTSGSM
QVDILADNARNGCRILQNLSPNERAGCVNTLADLLLAKQQFILDANEKDLAEAQKNGLAK
PLLSRLSLSPQKLRSLSTGLKQIAESSHSIVGRILRHTKLADGLMLKQITVPIGVLLVIF
ESRPDSLPQVAALSIASANGLLLKGGKEASHSNKALMELVKEALSTVGATNAISLVSTRE
EISDLLGMEKHIDLIIPRGSSELVRTIQSQSQRIPVLGHAEGICHVYVDREAELAKALKI
VRDAKCDYPAACNAMETLLIHEDLFMNSNASFFHDVCNMLKKEGVTIYSGPKLNQHLTFG
PPQAKTMKHEYSDLACCIEIVKDVEEAIEHINRFGSSHTDVIITENKESAEYFQKQVDSA
CVFHNASSRFADGYRFGLGAEVGISTARIHARGPVGVEGLLSTKWILDGVDHTAAEFSEN
GSRHFVHEPLKLD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 18 | g11700.t1 | CDD | cd04256 | AAK_P5CS_ProBA | 57 | 353 | 1.82273E-162 |
| 17 | g11700.t1 | CDD | cd07079 | ALDH_F18-19_ProA-GPR | 365 | 769 | 0.0 |
| 13 | g11700.t1 | Gene3D | G3DSA:3.40.1160.10 | - | 53 | 359 | 1.7E-92 |
| 14 | g11700.t1 | Gene3D | G3DSA:3.40.605.10 | Aldehyde Dehydrogenase; Chain A | 374 | 769 | 6.1E-157 |
| 15 | g11700.t1 | Gene3D | G3DSA:3.40.309.10 | Aldehyde Dehydrogenase; Chain A | 581 | 732 | 6.1E-157 |
| 5 | g11700.t1 | Hamap | MF_00456 | Glutamate 5-kinase [proB]. | 64 | 357 | 29.588291 |
| 6 | g11700.t1 | Hamap | MF_00412 | Gamma-glutamyl phosphate reductase [proA]. | 361 | 774 | 32.328148 |
| 3 | g11700.t1 | PANTHER | PTHR11063 | GLUTAMATE SEMIALDEHYDE DEHYDROGENASE | 61 | 790 | 1.8E-296 |
| 4 | g11700.t1 | PANTHER | PTHR11063:SF8 | DELTA-1-PYRROLINE-5-CARBOXYLATE SYNTHASE | 61 | 790 | 1.8E-296 |
| 16 | g11700.t1 | PIRSF | PIRSF036429 | P5C_synthetase | 6 | 793 | 0.0 |
| 8 | g11700.t1 | PRINTS | PR00474 | Glutamate 5-kinase family signature | 102 | 116 | 3.9E-37 |
| 7 | g11700.t1 | PRINTS | PR00474 | Glutamate 5-kinase family signature | 150 | 178 | 3.9E-37 |
| 10 | g11700.t1 | PRINTS | PR00474 | Glutamate 5-kinase family signature | 190 | 211 | 3.9E-37 |
| 9 | g11700.t1 | PRINTS | PR00474 | Glutamate 5-kinase family signature | 306 | 326 | 3.9E-37 |
| 1 | g11700.t1 | Pfam | PF00696 | Amino acid kinase family | 64 | 332 | 3.4E-36 |
| 2 | g11700.t1 | Pfam | PF00171 | Aldehyde dehydrogenase family | 356 | 627 | 1.0E-10 |
| 19 | g11700.t1 | ProSitePatterns | PS00902 | Glutamate 5-kinase signature. | 304 | 321 | - |
| 20 | g11700.t1 | ProSitePatterns | PS01223 | Gamma-glutamyl phosphate reductase signature. | 681 | 703 | - |
| 12 | g11700.t1 | SUPERFAMILY | SSF53633 | Carbamate kinase-like | 64 | 353 | 4.58E-49 |
| 11 | g11700.t1 | SUPERFAMILY | SSF53720 | ALDH-like | 361 | 772 | 8.55E-93 |
| 22 | g11700.t1 | TIGRFAM | TIGR01092 | P5CS: delta l-pyrroline-5-carboxylate synthetase | 57 | 790 | 9.2E-289 |
| 21 | g11700.t1 | TIGRFAM | TIGR00407 | proA: glutamate-5-semialdehyde dehydrogenase | 369 | 764 | 4.2E-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