Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 3-oxoacyl-[acyl-carrier-protein] reductase FabG.

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 g13463 g13463.t4 TTS g13463.t4 30324843 30324843
chr_1 g13463 g13463.t4 isoform g13463.t4 30324897 30325774
chr_1 g13463 g13463.t4 exon g13463.t4.exon1 30324897 30325021
chr_1 g13463 g13463.t4 cds g13463.t4.CDS1 30324897 30325021
chr_1 g13463 g13463.t4 exon g13463.t4.exon2 30325077 30325774
chr_1 g13463 g13463.t4 cds g13463.t4.CDS2 30325077 30325380
chr_1 g13463 g13463.t4 TSS g13463.t4 30325862 30325862

Sequences

>g13463.t4 Gene=g13463 Length=823
ATGGAGTTTGAAGGAAAAGTTGTGATTATAACCGGAGCATCAAGTGGAATTGGGGCTCAA
ACTGCAAAGGATTTTTCAAAACTAAATGCAAATGTTGTTCTCGTAGGACGAAATGCAGAA
AATTTAAAGGCGATCGCTGCTGAGTGTACTGCAGCAGATAAAACGCTTATCGTGCAGGCT
GACGTTAATTTGGACGATGATTGTAAAAAGATTATCAATGAAACAATTAATAAGTGGGGC
AGAATTGATGTACTTGTTAATAGTGCTGGAATAATTGAAACAGGTGAGAATTTAAATTGA
ACCCAAATTGATCTAATTAGTTGAATGAACTGCAACTATAGGTAGCATCGAAAATACATC
AATTGAGCAGTATGATCGAGTCATGAATACAAATATGAGATCTATTTACTTGCTCACAAT
GCTTGCGGTGCCTTATTTGGTTGCTACACAGGGAAATATCGTCAATGTATCGAGCGTAAA
TGGAATTCGAAGCTTCGCTGGCGTGCTCGCATATAATTTGTCAAAAGCGTGTGTCGATCA
ATTTACAAGATGCACTGCACTTGAACTAGCTGCTAAAAATGTTCGTGTCAATTCAGTAAA
TCCAGGTGTTATTATCACAAATATCCATAAAAGAGGAGGAATGAATGATGAAACTTATGC
TGCATTTTTAGAAAGATCTAAAACTACGCATCCATTAGGCCGTCCAGGAACAGTTGATGA
AGTGTCAGAAGTCATCACTTTCCTTGCAAGTTCTAAAGCAAGTTTTATAACTGGTGCTCA
AGTTCCTATCGATGGTGGTCGTCATGCAACATGTCTTCGTTAA

>g13463.t4 Gene=g13463 Length=142
MRSIYLLTMLAVPYLVATQGNIVNVSSVNGIRSFAGVLAYNLSKACVDQFTRCTALELAA
KNVRVNSVNPGVIITNIHKRGGMNDETYAAFLERSKTTHPLGRPGTVDEVSEVITFLASS
KASFITGAQVPIDGGRHATCLR

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g13463.t4 Gene3D G3DSA:3.40.50.720 - 1 141 2.3E-42
2 g13463.t4 PANTHER PTHR43975 ZGC:101858 2 141 2.4E-59
8 g13463.t4 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 14 30 2.7E-24
3 g13463.t4 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature 20 28 3.1E-5
4 g13463.t4 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature 40 59 3.1E-5
7 g13463.t4 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 40 59 2.7E-24
5 g13463.t4 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 61 78 2.7E-24
6 g13463.t4 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 100 120 2.7E-24
1 g13463.t4 Pfam PF13561 Enoyl-(Acyl carrier protein) reductase 2 137 6.7E-34
13 g13463.t4 Phobius SIGNAL_PEPTIDE Signal peptide region 1 17 -
14 g13463.t4 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 3 -
15 g13463.t4 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 4 12 -
16 g13463.t4 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 13 17 -
12 g13463.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 18 142 -
9 g13463.t4 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 2 138 2.02E-40
10 g13463.t4 SignalP_EUK SignalP-noTM SignalP-noTM 1 18 -
17 g13463.t4 SignalP_GRAM_NEGATIVE SignalP-noTM SignalP-noTM 1 17 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

## [1] "No matching GO terms"

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