Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Inactive hydroxysteroid dehydrogenase-like protein 1.

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_2 g4726 g4726.t2 isoform g4726.t2 4395932 4396673
chr_2 g4726 g4726.t2 exon g4726.t2.exon1 4395932 4396091
chr_2 g4726 g4726.t2 cds g4726.t2.CDS1 4395932 4396091
chr_2 g4726 g4726.t2 exon g4726.t2.exon2 4396141 4396263
chr_2 g4726 g4726.t2 cds g4726.t2.CDS2 4396141 4396263
chr_2 g4726 g4726.t2 exon g4726.t2.exon3 4396317 4396673
chr_2 g4726 g4726.t2 cds g4726.t2.CDS3 4396317 4396672
chr_2 g4726 g4726.t2 TSS g4726.t2 NA NA
chr_2 g4726 g4726.t2 TTS g4726.t2 NA NA

Sequences

>g4726.t2 Gene=g4726 Length=640
ATGCTCTCAACATTTCTGCAATTTATTGGTGCTTACGCATTAATTTTATACTTAATTGAC
AATTTTAAATCGCCATTTAAAATTTTTCTTTGTAATTTGTGTGAATTTTTGAAGATTACT
AAGAAAAAAAGTTTAAGTGAGAATTTTGGAGAATGGGCCGTTGTAACTGGATCAACAGAT
GGAATTGGAAGACAATATGCAAAAGAATTAGCAAAAAATGGCATGAACATCATTTTAATA
TCAAGATCAGAATCAAAATTGATTGAAGTAGCAAAGGAAATTGAATCAACATATTCAGTA
AAAACAAAATACATTGTAGCAGATTTTGGCATAGGCAGAGAAATTTATGGCAAAATAAAA
CAAGAACTTTCATCATTTGATATTGGAATTTTAGTCAATAATGTTGGAACTTTTCATGAT
TATCCCGAATATTTTGATAAAGTTTCTGATGATGTTTTATGGAAAATAATCAATGTAAAT
GTTGCAGCAATGACAATATTAACGAGATTTATTGTTCCACAAATGAAAAAGAATAAACGT
GGAATAATTGTGAACGTTAGCTCAGGTGCAGAACATCAACCAACTCCATTAGGTTCAATT
TATTGTGCTAGCAAAGTTTATGTGAAATTTTTCACTTTAG

>g4726.t2 Gene=g4726 Length=213
MLSTFLQFIGAYALILYLIDNFKSPFKIFLCNLCEFLKITKKKSLSENFGEWAVVTGSTD
GIGRQYAKELAKNGMNIILISRSESKLIEVAKEIESTYSVKTKYIVADFGIGREIYGKIK
QELSSFDIGILVNNVGTFHDYPEYFDKVSDDVLWKIINVNVAAMTILTRFIVPQMKKNKR
GIIVNVSSGAEHQPTPLGSIYCASKVYVKFFTL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
21 g4726.t2 CDD cd05356 17beta-HSD1_like_SDR_c 50 212 1.39367E-85
12 g4726.t2 Gene3D G3DSA:3.40.50.720 - 45 213 4.8E-41
2 g4726.t2 PANTHER PTHR43899:SF9 MIP25013P-RELATED 2 212 5.2E-86
3 g4726.t2 PANTHER PTHR43899 RH59310P 2 212 5.2E-86
20 g4726.t2 PIRSF PIRSF000126 11-beta-HSD1 3 213 7.3E-77
9 g4726.t2 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 52 69 7.0E-12
6 g4726.t2 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature 126 137 6.3E-5
10 g4726.t2 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 126 137 7.0E-12
8 g4726.t2 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 175 191 7.0E-12
4 g4726.t2 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature 181 189 6.3E-5
5 g4726.t2 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature 201 213 6.3E-5
7 g4726.t2 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 201 213 7.0E-12
1 g4726.t2 Pfam PF00106 short chain dehydrogenase 52 212 3.2E-34
15 g4726.t2 Phobius SIGNAL_PEPTIDE Signal peptide region 1 13 -
16 g4726.t2 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 1 -
17 g4726.t2 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 2 9 -
19 g4726.t2 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 10 13 -
14 g4726.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 14 151 -
18 g4726.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 152 172 -
13 g4726.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 173 213 -
11 g4726.t2 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 50 212 3.01E-39

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