General information for g11622.t3
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.t3 | TSS | g11622.t3 | 17482591 | 17482591 |
| chr_1 | g11622 | g11622.t3 | isoform | g11622.t3 | 17482779 | 17483890 |
| chr_1 | g11622 | g11622.t3 | exon | g11622.t3.exon1 | 17482779 | 17482816 |
| chr_1 | g11622 | g11622.t3 | cds | g11622.t3.CDS1 | 17482779 | 17482816 |
| chr_1 | g11622 | g11622.t3 | exon | g11622.t3.exon2 | 17482945 | 17483890 |
| chr_1 | g11622 | g11622.t3 | cds | g11622.t3.CDS2 | 17482945 | 17483692 |
| chr_1 | g11622 | g11622.t3 | TTS | g11622.t3 | NA | NA |
Sequences
>g11622.t3 Gene=g11622 Length=984
ATGCTAATGTTGAGAAAAACCTTTGTTTCAAATTTAAGACCTCGATATATTTCGTCGGTT
GTTCCAGAACATAATTTAAAAGATTTCGATGTGAAAAATGAGCCAATTTTAGGGTATAAA
AAAGGTTCAACAGAACGGAATGAATTAGTTAAAGCTCTTGAAGAAGCTAAATCAAATGTT
GCTGATTGTCCTATTATCATTGGTGGAGAAGAATTTCGTACAAACGATGTTCGTTATCAA
GTTATGCCACATGATCATAAGCATCAAATTGCAAGATTTTATTATGCCGATGCGAATTTG
ATCCAAAAAGCAATCAACAAGTCTATCGAAATGCAACCGAAATGGGATCGTACACCATTG
AAAGAGCGTGTAGAAATTTGGGATCGTGCTGCATCACTTATGGCTAACAAGTATAGGCAA
AAGCTTAATGCAGCTACAATGCTTGGTCAGTCAAAGACAGCCATTCAAGCCGAAATCGAT
TCTGCAGCAGAACTTATCGATTTTATTCGCTTCAATGTTTTCTTTTTAAAAGAAAATGCC
AAATATCAACCAATTAGCGAGGATATCAAAGTGACTAAGAATTCAGTGCGATTCCGTGGA
ATTGATGGTTTTGTTGCAGCTATTTCACCGTTTAATTTTACTGCTATCGGAGGAAATCTT
TCATATACACCGGCATTAGTTGGTAATTCAGTCTTATGGAAACCATCTGACACTGCTGTA
TTATCAAATTGGACAATTTACGAAATAATGAGAGAAGCTGGTGTACCAGAAGGTATTGTC
AATTAAGTTTTTAAAAAAAATTTATTATAATTTTTATAATTGAAGGTGTTGTTAATTTTA
TTCCTGCTGATGGTCCAATATTTGGTGATACAATTACCAAGTCGAAATATCTTGGAGGTA
TTAATTTTACTGGTTCAGTTCCGTAAGTTGAAATAAAGTAAATCAATATTCTTTATAAAC
TTTTAGTTTTTTATTTGTAGAACT
>g11622.t3 Gene=g11622 Length=261
MLMLRKTFVSNLRPRYISSVVPEHNLKDFDVKNEPILGYKKGSTERNELVKALEEAKSNV
ADCPIIIGGEEFRTNDVRYQVMPHDHKHQIARFYYADANLIQKAINKSIEMQPKWDRTPL
KERVEIWDRAASLMANKYRQKLNAATMLGQSKTAIQAEIDSAAELIDFIRFNVFFLKENA
KYQPISEDIKVTKNSVRFRGIDGFVAAISPFNFTAIGGNLSYTPALVGNSVLWKPSDTAV
LSNWTIYEIMREAGVPEGIVN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g11622.t3 | Gene3D | G3DSA:3.40.605.10 | Aldehyde Dehydrogenase; Chain A | 64 | 261 | 0 |
| 2 | g11622.t3 | PANTHER | PTHR14516 | 1-PYRROLINE-5-CARBOXYLATE DEHYDROGENASE FAMILY MEMBER | 13 | 261 | 0 |
| 3 | g11622.t3 | PANTHER | PTHR14516:SF6 | DELTA-1-PYRROLINE-5-CARBOXYLATE DEHYDROGENASE, MITOCHONDRIAL-LIKE PROTEIN | 13 | 261 | 0 |
| 1 | g11622.t3 | Pfam | PF00171 | Aldehyde dehydrogenase family | 79 | 261 | 0 |
| 4 | g11622.t3 | SUPERFAMILY | SSF53720 | ALDH-like | 29 | 261 | 0 |
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:0055114 | NA | NA |
| GO:0016491 | oxidoreductase 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.
