General information for g11622.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Delta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial.
Parent gene
- The parent gene g11622 is located on chr_1: 17483890..17485437 (+ 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 | g11622 | g11622.t6 | TSS | g11622.t6 | 17482591 | 17482591 |
| chr_1 | g11622 | g11622.t6 | isoform | g11622.t6 | 17482779 | 17484768 |
| chr_1 | g11622 | g11622.t6 | exon | g11622.t6.exon1 | 17482779 | 17482820 |
| chr_1 | g11622 | g11622.t6 | exon | g11622.t6.exon2 | 17482945 | 17483678 |
| chr_1 | g11622 | g11622.t6 | cds | g11622.t6.CDS1 | 17483150 | 17483678 |
| chr_1 | g11622 | g11622.t6 | exon | g11622.t6.exon3 | 17483732 | 17483828 |
| chr_1 | g11622 | g11622.t6 | cds | g11622.t6.CDS2 | 17483732 | 17483828 |
| chr_1 | g11622 | g11622.t6 | exon | g11622.t6.exon4 | 17483887 | 17484563 |
| chr_1 | g11622 | g11622.t6 | cds | g11622.t6.CDS3 | 17483887 | 17484563 |
| chr_1 | g11622 | g11622.t6 | exon | g11622.t6.exon5 | 17484620 | 17484768 |
| chr_1 | g11622 | g11622.t6 | cds | g11622.t6.CDS4 | 17484620 | 17484768 |
| chr_1 | g11622 | g11622.t6 | TTS | g11622.t6 | 17484921 | 17484921 |
Sequences
>g11622.t6 Gene=g11622 Length=1699
ATGCTAATGTTGAGAAAAACCTTTGTTTCAAATTTAAGGTAAACCTCGATATATTTCGTC
GGTTGTTCCAGAACATAATTTAAAAGATTTCGATGTGAAAAATGAGCCAATTTTAGGGTA
TAAAAAAGGTTCAACAGAACGGAATGAATTAGTTAAAGCTCTTGAAGAAGCTAAATCAAA
TGTTGCTGATTGTCCTATTATCATTGGTGGAGAAGAATTTCGTACAAACGATGTTCGTTA
TCAAGTTATGCCACATGATCATAAGCATCAAATTGCAAGATTTTATTATGCCGATGCGAA
TTTGATCCAAAAAGCAATCAACAAGTCTATCGAAATGCAACCGAAATGGGATCGTACACC
ATTGAAAGAGCGTGTAGAAATTTGGGATCGTGCTGCATCACTTATGGCTAACAAGTATAG
GCAAAAGCTTAATGCAGCTACAATGCTTGGTCAGTCAAAGACAGCCATTCAAGCCGAAAT
CGATTCTGCAGCAGAACTTATCGATTTTATTCGCTTCAATGTTTTCTTTTTAAAAGAAAA
TGCCAAATATCAACCAATTAGCGAGGATATCAAAGTGACTAAGAATTCAGTGCGATTCCG
TGGAATTGATGGTTTTGTTGCAGCTATTTCACCGTTTAATTTTACTGCTATCGGAGGAAA
TCTTTCATATACACCGGCATTAGTTGGTAATTCAGTCTTATGGAAACCATCTGACACTGC
TGTATTATCAAATTGGACAATTTACGAAATAATGAGAGAAGCTGGTGTACCAGAAGGTGT
TGTTAATTTTATTCCTGCTGATGGTCCAATATTTGGTGATACAATTACCAAGTCGAAATA
TCTTGGAGGTATTAATTTTACTGGTTCAGTTCCAACTTTCAATCGTCTTTGGAGACAAGT
GGGTGAAAATATTGAAAATTATATAAATTATCCTAAATTAATTGGCGAGTGCGGTGGAAA
AAATTATCACTTTGTGCATCCTAGTGCAGATATTGAAACTGTTGTTACTGCTACTATTCG
TTCTGCATTTGAATATTGTGGTCAAAAATGCTCTGCTTGTTCGCGTGCATATATTCCAGA
ATCACTTTGGCCAAAGATAAAAGAAGGATTGCTACACGAACGTGCAAAATTAAAAGTCGG
AGATGTTACTGATTTCTCAACTTTTATGGGTGCAGTCATTGACGAAAAAGCATTTAATAG
AATCAAATCTTATATTGACTACGCAAAAAGCTCTAACAATTTAGAGATTATCGGAGGTGG
TGGTTATGACAATAGTAAAGGTTATTTCATTGAACCAACCATCGTTCAAACTAAAGATCC
TAAAGATAAGATCATGATTGAGGAGATTTTTGGACCAGTACTTACAATCTATGTATATGC
TGATAAAGATCTCGATTCAACAATGAAACTTGTTGGAAACTCAACACAATTTGCATTAAC
TGGTGCTGTATTTTCTACAAACGAGTCATTTTTAAAACGTGCACTTGAAGAGTTTAAAAT
GACTGCTGGAAACTTTTATATTAACGATAAATCAACTGGCAGTGTTGTTGGACAACAACC
ATTTGGAGGATCACGTATGAGTGGCACAAACGATAAAGCAGGTGGTCCTCATTATGCTAT
TCGATGGACAACAATACAATCAATAAAAGAGACATTTGTTCCATTACGGGATATAGATTA
TCCATATATGCGAGAATAA
>g11622.t6 Gene=g11622 Length=483
MPHDHKHQIARFYYADANLIQKAINKSIEMQPKWDRTPLKERVEIWDRAASLMANKYRQK
LNAATMLGQSKTAIQAEIDSAAELIDFIRFNVFFLKENAKYQPISEDIKVTKNSVRFRGI
DGFVAAISPFNFTAIGGNLSYTPALVGNSVLWKPSDTAVLSNWTIYEIMREAGVPEGVVN
FIPADGPIFGDTITKSKYLGGINFTGSVPTFNRLWRQVGENIENYINYPKLIGECGGKNY
HFVHPSADIETVVTATIRSAFEYCGQKCSACSRAYIPESLWPKIKEGLLHERAKLKVGDV
TDFSTFMGAVIDEKAFNRIKSYIDYAKSSNNLEIIGGGGYDNSKGYFIEPTIVQTKDPKD
KIMIEEIFGPVLTIYVYADKDLDSTMKLVGNSTQFALTGAVFSTNESFLKRALEEFKMTA
GNFYINDKSTGSVVGQQPFGGSRMSGTNDKAGGPHYAIRWTTIQSIKETFVPLRDIDYPY
MRE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g11622.t6 | CDD | cd07123 | ALDH_F4-17_P5CDH | 1 | 472 | 0.0 |
| 7 | g11622.t6 | Coils | Coil | Coil | 481 | 483 | - |
| 5 | g11622.t6 | Gene3D | G3DSA:3.40.605.10 | Aldehyde Dehydrogenase; Chain A | 1 | 467 | 8.6E-201 |
| 6 | g11622.t6 | Gene3D | G3DSA:3.40.309.10 | Aldehyde Dehydrogenase; Chain A | 238 | 435 | 8.6E-201 |
| 2 | g11622.t6 | PANTHER | PTHR14516 | 1-PYRROLINE-5-CARBOXYLATE DEHYDROGENASE FAMILY MEMBER | 2 | 482 | 1.6E-263 |
| 3 | g11622.t6 | PANTHER | PTHR14516:SF6 | DELTA-1-PYRROLINE-5-CARBOXYLATE DEHYDROGENASE, MITOCHONDRIAL-LIKE PROTEIN | 2 | 482 | 1.6E-263 |
| 1 | g11622.t6 | Pfam | PF00171 | Aldehyde dehydrogenase family | 5 | 465 | 6.3E-102 |
| 9 | g11622.t6 | ProSitePatterns | PS00070 | Aldehyde dehydrogenases cysteine active site. | 261 | 272 | - |
| 4 | g11622.t6 | SUPERFAMILY | SSF53720 | ALDH-like | 6 | 467 | 2.88E-113 |
| 10 | g11622.t6 | TIGRFAM | TIGR01236 | D1pyr5carbox1: 1-pyrroline-5-carboxylate dehydrogenase | 1 | 481 | 1.2E-216 |
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:0010133 | proline catabolic process to glutamate | BP |
| GO:0055114 | NA | NA |
| GO:0016491 | oxidoreductase activity | MF |
| GO:0003842 | 1-pyrroline-5-carboxylate dehydrogenase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K00294 (1-pyrroline-5-carboxylate dehydrogenase)
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