Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t16 TTS g1164.t16 8449137 8449137
chr_3 g1164 g1164.t16 isoform g1164.t16 8449273 8450228
chr_3 g1164 g1164.t16 exon g1164.t16.exon1 8449273 8450078
chr_3 g1164 g1164.t16 cds g1164.t16.CDS1 8449273 8450078
chr_3 g1164 g1164.t16 exon g1164.t16.exon2 8450147 8450228
chr_3 g1164 g1164.t16 cds g1164.t16.CDS2 8450147 8450228
chr_3 g1164 g1164.t16 TSS g1164.t16 8450294 8450294

Sequences

>g1164.t16 Gene=g1164 Length=888
ATGACGAATAGAATCTTAAAAATCGGATTTTTAGGAGCTGGAAAAATGGCGCAAGCATTG
AGCAAGGGCTTTATAAAATCAGGCTTATTAAGTAGTCAGCATTTAATTGCAAGCGCACAT
CCATCAGATGAGGCCTCATTAAAAGCTTTTCGAGATGATTTAAAAGCAGAAGCAGTGACA
CAAAATCAATTGGTTGTTGAGAAATCTGAAATTATTTTTATATCAACGAAGCCAAATGTA
GTCAAAACTGTTTTGCACGATGTTAAAGCTCTAAGTTCGGGCAAACTTTTTATTTCAATC
GCTATGGGAACAACGTTAGATGAGATTCAGAAAATATTAGCACATGATTCGAGAATTATT
AGAGTAATGCCAAATATACCTGCAACTGTTCTTGAATCGTGCTCTGTTTTTGTTCGAGGT
AAAAATGCGACAGACGACGATGCCAATATAGTTCAAAAGTTATTAAAATCGATTGGAACA
TGTGAAGAATTGACGACAGAATCTTTGATGGATGTCTGTACTGGACTTTCTGGAAGTGGA
CCAGCTTATGTACTCATTAATGAAATTTTTTTATCATTAACGTTTTTTATAAGCATATTA
TTGCAGGTTTTTTTATTAATTGAAAGTCTTGCAGATGGGGGTGTGAAATGCGGTCTTCCT
AGAGATTTAGCTTATAGATTGGCAGCTCAAACAGTTTTAGGTTCGGGTAAATTAGTTATT
GATTCGAATATTCATCCGGCTATATTAAAAGATAATGTGATGAGCCCTCTTGGAAGCACA
GCTTATGGGGTGCATTATTTAGAGAAAAACAATTTTAGAAATACTATAATTGGTGCAGTT
GAAGCTGCAACAAATCGATGCCGAGAGATTTCTGGCATCTCAAAATAA

>g1164.t16 Gene=g1164 Length=295
MTNRILKIGFLGAGKMAQALSKGFIKSGLLSSQHLIASAHPSDEASLKAFRDDLKAEAVT
QNQLVVEKSEIIFISTKPNVVKTVLHDVKALSSGKLFISIAMGTTLDEIQKILAHDSRII
RVMPNIPATVLESCSVFVRGKNATDDDANIVQKLLKSIGTCEELTTESLMDVCTGLSGSG
PAYVLINEIFLSLTFFISILLQVFLLIESLADGGVKCGLPRDLAYRLAAQTVLGSGKLVI
DSNIHPAILKDNVMSPLGSTAYGVHYLEKNNFRNTIIGAVEAATNRCREISGISK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g1164.t16 Gene3D G3DSA:3.40.50.720 - 4 168 1.1E-45
9 g1164.t16 Gene3D G3DSA:1.10.3730.10 - 169 187 2.4E-5
10 g1164.t16 Gene3D G3DSA:1.10.3730.10 - 200 293 3.6E-28
5 g1164.t16 Hamap MF_01925 Pyrroline-5-carboxylate reductase [proC]. 6 290 23.102356
3 g1164.t16 PANTHER PTHR11645 PYRROLINE-5-CARBOXYLATE REDUCTASE 6 291 5.6E-85
4 g1164.t16 PANTHER PTHR11645:SF0 PYRROLINE-5-CARBOXYLATE REDUCTASE 2 6 291 5.6E-85
15 g1164.t16 PIRSF PIRSF000193 P5CR 6 192 9.7E-51
14 g1164.t16 PIRSF PIRSF000193 P5CR 201 292 2.4E-23
1 g1164.t16 Pfam PF03807 NADP oxidoreductase coenzyme F420-dependent 7 102 4.6E-18
2 g1164.t16 Pfam PF14748 Pyrroline-5-carboxylate reductase dimerisation 203 289 5.9E-26
12 g1164.t16 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 188 -
13 g1164.t16 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 189 207 -
11 g1164.t16 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 208 295 -
6 g1164.t16 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 7 163 3.41E-28
7 g1164.t16 SUPERFAMILY SSF48179 6-phosphogluconate dehydrogenase C-terminal domain-like 203 291 5.1E-26

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

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