Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Pyrroline-5-carboxylate reductase.

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_3 g1164 g1164.t15 TTS g1164.t15 8449137 8449137
chr_3 g1164 g1164.t15 isoform g1164.t15 8449273 8450228
chr_3 g1164 g1164.t15 exon g1164.t15.exon1 8449273 8449554
chr_3 g1164 g1164.t15 cds g1164.t15.CDS1 8449273 8449554
chr_3 g1164 g1164.t15 exon g1164.t15.exon2 8449612 8450228
chr_3 g1164 g1164.t15 cds g1164.t15.CDS2 8449612 8449857
chr_3 g1164 g1164.t15 TSS g1164.t15 8450294 8450294

Sequences

>g1164.t15 Gene=g1164 Length=899
ATGACGAATAGAATCTTAAAAATCGGATTTTTAGGAGCTGGAAAAATGGCGCAAGCATTG
AGCAAGGGCTTTATAAAATCAGGTCTCTCTCATTATATTTTTTTTCATTTCTTCAACATA
TTTTAGATTAATAATCAATATTAAATACAGGCTTATTAAGTAGTCAGCATTTAATTGCAA
GCGCACATCCATCAGATGAGGCCTCATTAAAAGCTTTTCGAGATGATTTAAAAGCAGAAG
CAGTGACACAAAATCAATTGGTTGTTGAGAAATCTGAAATTATTTTTATATCAACGAAGC
CAAATGTAGTCAAAACTGTTTTGCACGATGTTAAAGCTCTAAGTTCGGGCAAACTTTTTA
TTTCAATCGCTATGGGAACAACGTTAGATGAGATTCAGAAAATATTAGCACATGATTCGA
GAATTATTAGAGTAATGCCAAATATACCTGCAACTGTTCTTGAATCGTGCTCTGTTTTTG
TTCGAGGTAAAAATGCGACAGACGACGATGCCAATATAGTTCAAAAGTTATTAAAATCGA
TTGGAACATGTGAAGAATTGACGACAGAATCTTTGATGGATGTCTGTACTGGACTTTCTG
GAAGTGGACCAGCTTATGTTTTTTTATTAATTGAAAGTCTTGCAGATGGGGGTGTGAAAT
GCGGTCTTCCTAGAGATTTAGCTTATAGATTGGCAGCTCAAACAGTTTTAGGTTCGGGTA
AATTAGTTATTGATTCGAATATTCATCCGGCTATATTAAAAGATAATGTGATGAGCCCTC
TTGGAAGCACAGCTTATGGGGTGCATTATTTAGAGAAAAACAATTTTAGAAATACTATAA
TTGGTGCAGTTGAAGCTGCAACAAATCGATGCCGAGAGATTTCTGGCATCTCAAAATAA

>g1164.t15 Gene=g1164 Length=175
MGTTLDEIQKILAHDSRIIRVMPNIPATVLESCSVFVRGKNATDDDANIVQKLLKSIGTC
EELTTESLMDVCTGLSGSGPAYVFLLIESLADGGVKCGLPRDLAYRLAAQTVLGSGKLVI
DSNIHPAILKDNVMSPLGSTAYGVHYLEKNNFRNTIIGAVEAATNRCREISGISK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g1164.t15 Gene3D G3DSA:3.40.50.720 - 1 68 0.0000000
8 g1164.t15 Gene3D G3DSA:1.10.3730.10 - 69 172 0.0000000
4 g1164.t15 Hamap MF_01925 Pyrroline-5-carboxylate reductase [proC]. 1 170 17.1017170
2 g1164.t15 PANTHER PTHR11645 PYRROLINE-5-CARBOXYLATE REDUCTASE 2 171 0.0000000
3 g1164.t15 PANTHER PTHR11645:SF0 PYRROLINE-5-CARBOXYLATE REDUCTASE 2 2 171 0.0000000
1 g1164.t15 Pfam PF14748 Pyrroline-5-carboxylate reductase dimerisation 66 169 0.0000000
5 g1164.t15 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 2 62 0.0000022
6 g1164.t15 SUPERFAMILY SSF48179 6-phosphogluconate dehydrogenase C-terminal domain-like 66 171 0.0000000
9 g1164.t15 TIGRFAM TIGR00112 proC: pyrroline-5-carboxylate reductase 2 170 0.0000000

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:0006561 proline biosynthetic process BP
GO:0055114 NA NA
GO:0004735 pyrroline-5-carboxylate reductase 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. There were no conditions that were differentially expressed