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 g4625 g4625.t2 isoform g4625.t2 3666802 3667857
chr_2 g4625 g4625.t2 exon g4625.t2.exon1 3666802 3667312
chr_2 g4625 g4625.t2 TTS g4625.t2 3666810 3666810
chr_2 g4625 g4625.t2 cds g4625.t2.CDS1 3667211 3667312
chr_2 g4625 g4625.t2 exon g4625.t2.exon2 3667369 3667857
chr_2 g4625 g4625.t2 cds g4625.t2.CDS2 3667369 3667836
chr_2 g4625 g4625.t2 TSS g4625.t2 NA NA

Sequences

>g4625.t2 Gene=g4625 Length=1000
ATAAAAGAAGAATTAAAGTCAATGGACATTGGTGTGCTGGTCAATAATGTTGGACGAATG
TATGATTTTCCAGACGATTTAGATCACATTTCGGAAGAACTTTTATGGCAAATTATCAAT
ATTAATATTGGTGCAGTTACAATGATGTCAAGAATTTTTATTCCACAAATGAAAGCAAAT
CAACGAGGAATGATTGTCAACATTTCATCAGGTTCAGAATGTCAACCAACTCCATTGATG
ACTGTTTATGCATCATCTAAAGTTTATATTAGAAATTTCACATTAGCATTAAGAAAAGAA
CTTGAAGAACACAATGTACAAGTACAGTTGGTGACACCAATGTTTGTGCAGACCAAAATG
AACAATTATTCAACATCTGTGATGAAAGGAAGCATCTTAGTGCCAGATGTTGAGTCATAT
ACACGCTCAGCTGTTTTTACATTAGGAAAAAGCTCGCAAACAAATGGATATTGGAGTCAT
GGTCTTCAATATGGCTGTATGAAGCTTGTGCCAGAGTTTATTAGGACTTGCGTCTCGTTT
AGAATGAACAAAAAATTCAGAGATGAATATTATGCACAACAAACGATATGACAAGTGTGA
AACTGTGAAATTCAAAATTTGCTAAGAGGCCTAATATTAATTATTATTTACATGGGAAGT
GTAATAGAATATAATGACAGTTATTTTTTTAAAAAATTTCAATGCATAGCAAAAATAAAT
TTTCATAAAAATTGTTTTTAATTGCTTTTCTTAAAAATGCTACATTTGAGCTTTTTAAGT
TATTATATTTATTGGAAACAAATCAACAAAATACATTTTTAGAAAATTCTTCCAAACTTG
TGTAACGTATTTTTTCAAAATTTAAAAATTATCGGTCAAAATTAAACAGTTTGTTTCAAA
AACCATTTCTATTGCACTTCCTATTATTATTTGATATCTTTTGTTGATGAAAAATTATTC
TTAAAACAAAATAAAAAAAATATTTTTTTAAGAAAAACTC

>g4625.t2 Gene=g4625 Length=189
MDIGVLVNNVGRMYDFPDDLDHISEELLWQIININIGAVTMMSRIFIPQMKANQRGMIVN
ISSGSECQPTPLMTVYASSKVYIRNFTLALRKELEEHNVQVQLVTPMFVQTKMNNYSTSV
MKGSILVPDVESYTRSAVFTLGKSSQTNGYWSHGLQYGCMKLVPEFIRTCVSFRMNKKFR
DEYYAQQTI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g4625.t2 CDD cd05356 17beta-HSD1_like_SDR_c 1 167 1.37334E-67
12 g4625.t2 Gene3D G3DSA:3.40.50.720 - 2 139 2.2E-28
2 g4625.t2 PANTHER PTHR43899:SF9 MIP25013P-RELATED 1 187 2.7E-77
3 g4625.t2 PANTHER PTHR43899 RH59310P 1 187 2.7E-77
16 g4625.t2 PIRSF PIRSF000126 11-beta-HSD1 1 186 2.8E-62
4 g4625.t2 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature 1 11 3.8E-7
8 g4625.t2 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 1 11 1.6E-10
10 g4625.t2 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 50 66 1.6E-10
6 g4625.t2 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature 56 64 3.8E-7
5 g4625.t2 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature 76 95 3.8E-7
9 g4625.t2 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 76 95 1.6E-10
7 g4625.t2 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 97 114 1.6E-10
1 g4625.t2 Pfam PF00106 short chain dehydrogenase 3 118 2.2E-26
14 g4625.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 26 -
15 g4625.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 27 47 -
13 g4625.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 48 189 -
18 g4625.t2 ProSitePatterns PS00061 Short-chain dehydrogenases/reductases family signature. 63 91 -
11 g4625.t2 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 3 172 4.25E-29

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:0055114 NA NA
GO:0016491 oxidoreductase 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