Gene loci information

Transcript annotation

  • This transcript has been annotated as Delta-1-pyrroline-5-carboxylate dehydrogenase, mitochondrial.

Parent gene

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.t1 TSS g11622.t1 17482591 17482591
chr_1 g11622 g11622.t1 isoform g11622.t1 17482779 17484768
chr_1 g11622 g11622.t1 exon g11622.t1.exon1 17482779 17482816
chr_1 g11622 g11622.t1 cds g11622.t1.CDS1 17482779 17482816
chr_1 g11622 g11622.t1 exon g11622.t1.exon2 17482945 17483678
chr_1 g11622 g11622.t1 cds g11622.t1.CDS2 17482945 17483678
chr_1 g11622 g11622.t1 exon g11622.t1.exon3 17483732 17483828
chr_1 g11622 g11622.t1 cds g11622.t1.CDS3 17483732 17483828
chr_1 g11622 g11622.t1 exon g11622.t1.exon4 17483887 17484563
chr_1 g11622 g11622.t1 cds g11622.t1.CDS4 17483887 17484563
chr_1 g11622 g11622.t1 exon g11622.t1.exon5 17484620 17484768
chr_1 g11622 g11622.t1 cds g11622.t1.CDS5 17484620 17484768
chr_1 g11622 g11622.t1 TTS g11622.t1 17484921 17484921

Sequences

>g11622.t1 Gene=g11622 Length=1695
ATGCTAATGTTGAGAAAAACCTTTGTTTCAAATTTAAGACCTCGATATATTTCGTCGGTT
GTTCCAGAACATAATTTAAAAGATTTCGATGTGAAAAATGAGCCAATTTTAGGGTATAAA
AAAGGTTCAACAGAACGGAATGAATTAGTTAAAGCTCTTGAAGAAGCTAAATCAAATGTT
GCTGATTGTCCTATTATCATTGGTGGAGAAGAATTTCGTACAAACGATGTTCGTTATCAA
GTTATGCCACATGATCATAAGCATCAAATTGCAAGATTTTATTATGCCGATGCGAATTTG
ATCCAAAAAGCAATCAACAAGTCTATCGAAATGCAACCGAAATGGGATCGTACACCATTG
AAAGAGCGTGTAGAAATTTGGGATCGTGCTGCATCACTTATGGCTAACAAGTATAGGCAA
AAGCTTAATGCAGCTACAATGCTTGGTCAGTCAAAGACAGCCATTCAAGCCGAAATCGAT
TCTGCAGCAGAACTTATCGATTTTATTCGCTTCAATGTTTTCTTTTTAAAAGAAAATGCC
AAATATCAACCAATTAGCGAGGATATCAAAGTGACTAAGAATTCAGTGCGATTCCGTGGA
ATTGATGGTTTTGTTGCAGCTATTTCACCGTTTAATTTTACTGCTATCGGAGGAAATCTT
TCATATACACCGGCATTAGTTGGTAATTCAGTCTTATGGAAACCATCTGACACTGCTGTA
TTATCAAATTGGACAATTTACGAAATAATGAGAGAAGCTGGTGTACCAGAAGGTGTTGTT
AATTTTATTCCTGCTGATGGTCCAATATTTGGTGATACAATTACCAAGTCGAAATATCTT
GGAGGTATTAATTTTACTGGTTCAGTTCCAACTTTCAATCGTCTTTGGAGACAAGTGGGT
GAAAATATTGAAAATTATATAAATTATCCTAAATTAATTGGCGAGTGCGGTGGAAAAAAT
TATCACTTTGTGCATCCTAGTGCAGATATTGAAACTGTTGTTACTGCTACTATTCGTTCT
GCATTTGAATATTGTGGTCAAAAATGCTCTGCTTGTTCGCGTGCATATATTCCAGAATCA
CTTTGGCCAAAGATAAAAGAAGGATTGCTACACGAACGTGCAAAATTAAAAGTCGGAGAT
GTTACTGATTTCTCAACTTTTATGGGTGCAGTCATTGACGAAAAAGCATTTAATAGAATC
AAATCTTATATTGACTACGCAAAAAGCTCTAACAATTTAGAGATTATCGGAGGTGGTGGT
TATGACAATAGTAAAGGTTATTTCATTGAACCAACCATCGTTCAAACTAAAGATCCTAAA
GATAAGATCATGATTGAGGAGATTTTTGGACCAGTACTTACAATCTATGTATATGCTGAT
AAAGATCTCGATTCAACAATGAAACTTGTTGGAAACTCAACACAATTTGCATTAACTGGT
GCTGTATTTTCTACAAACGAGTCATTTTTAAAACGTGCACTTGAAGAGTTTAAAATGACT
GCTGGAAACTTTTATATTAACGATAAATCAACTGGCAGTGTTGTTGGACAACAACCATTT
GGAGGATCACGTATGAGTGGCACAAACGATAAAGCAGGTGGTCCTCATTATGCTATTCGA
TGGACAACAATACAATCAATAAAAGAGACATTTGTTCCATTACGGGATATAGATTATCCA
TATATGCGAGAATAA

>g11622.t1 Gene=g11622 Length=564
MLMLRKTFVSNLRPRYISSVVPEHNLKDFDVKNEPILGYKKGSTERNELVKALEEAKSNV
ADCPIIIGGEEFRTNDVRYQVMPHDHKHQIARFYYADANLIQKAINKSIEMQPKWDRTPL
KERVEIWDRAASLMANKYRQKLNAATMLGQSKTAIQAEIDSAAELIDFIRFNVFFLKENA
KYQPISEDIKVTKNSVRFRGIDGFVAAISPFNFTAIGGNLSYTPALVGNSVLWKPSDTAV
LSNWTIYEIMREAGVPEGVVNFIPADGPIFGDTITKSKYLGGINFTGSVPTFNRLWRQVG
ENIENYINYPKLIGECGGKNYHFVHPSADIETVVTATIRSAFEYCGQKCSACSRAYIPES
LWPKIKEGLLHERAKLKVGDVTDFSTFMGAVIDEKAFNRIKSYIDYAKSSNNLEIIGGGG
YDNSKGYFIEPTIVQTKDPKDKIMIEEIFGPVLTIYVYADKDLDSTMKLVGNSTQFALTG
AVFSTNESFLKRALEEFKMTAGNFYINDKSTGSVVGQQPFGGSRMSGTNDKAGGPHYAIR
WTTIQSIKETFVPLRDIDYPYMRE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g11622.t1 CDD cd07123 ALDH_F4-17_P5CDH 31 553 0.0
6 g11622.t1 Gene3D G3DSA:3.40.605.10 Aldehyde Dehydrogenase; Chain A 35 548 1.9E-214
7 g11622.t1 Gene3D G3DSA:3.40.309.10 Aldehyde Dehydrogenase; Chain A 319 516 1.9E-214
2 g11622.t1 PANTHER PTHR14516 1-PYRROLINE-5-CARBOXYLATE DEHYDROGENASE FAMILY MEMBER 13 563 2.3E-289
3 g11622.t1 PANTHER PTHR14516:SF6 DELTA-1-PYRROLINE-5-CARBOXYLATE DEHYDROGENASE, MITOCHONDRIAL-LIKE PROTEIN 13 563 2.3E-289
1 g11622.t1 Pfam PF00171 Aldehyde dehydrogenase family 79 546 2.9E-102
5 g11622.t1 ProSitePatterns PS00070 Aldehyde dehydrogenases cysteine active site. 342 353 -
4 g11622.t1 SUPERFAMILY SSF53720 ALDH-like 29 548 2.75E-118
8 g11622.t1 TIGRFAM TIGR01236 D1pyr5carbox1: 1-pyrroline-5-carboxylate dehydrogenase 32 562 2.7E-231

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

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.

Raw TPM values