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.t3 TTS g4625.t3 3666810 3666810
chr_2 g4625 g4625.t3 isoform g4625.t3 3667631 3671298
chr_2 g4625 g4625.t3 exon g4625.t3.exon1 3667631 3667928
chr_2 g4625 g4625.t3 cds g4625.t3.CDS1 3667633 3667928
chr_2 g4625 g4625.t3 exon g4625.t3.exon2 3667984 3668106
chr_2 g4625 g4625.t3 cds g4625.t3.CDS2 3667984 3668106
chr_2 g4625 g4625.t3 exon g4625.t3.exon3 3671091 3671298
chr_2 g4625 g4625.t3 cds g4625.t3.CDS3 3671091 3671298
chr_2 g4625 g4625.t3 TSS g4625.t3 3671535 3671535

Sequences

>g4625.t3 Gene=g4625 Length=629
ATGGAATCTTTATTTCAAATGATTACCAATGTAGTATTTAATGCGAATGTGCCATTATAT
TTAATTGCTTTAATTGGAGCATGGGCTTTAATATGGTGGACATATGATAATTTTAAATCA
GTGATACAAATTATTAAAAGCATTCTAACACCATACTTTCAGCCTAATGAAAATAAAGGC
TTTGTTGAAAAATATGGAAAATGGGCAGTTATTACTGGTGCAACTGATGGCATTGGTAAG
CAATATTCTAAAGAACTAGCAAAACATGGCATGAATATCGTTCTAATCTCAAGAACTGAG
TCAAAATTGATTGAAGTCGCTAAAGAAATCGAGTCAATGTACTCGGTAAAGACAAAGTAT
GTGGCTGTTGACTTTGGCAATGGCAAAGAAATCTATGAAAAAATAAAAGAAGAATTAAAG
TCAATGGACATTGGTGTGCTGGTCAATAATGTTGGACGAATGTATGATTTTCCAGACGAT
TTAGATCACATTTCGGAAGAACTTTTATGGCAAATTATCAATATTAATATTGGTGCAGTT
ACAATGATGTCAAGAATTTTTATTCCACAAATGAAAGCAAATCAACGAGGAATGATTGTC
AACATTTCATCAGGTTCAGAATGTCAACC

>g4625.t3 Gene=g4625 Length=209
MESLFQMITNVVFNANVPLYLIALIGAWALIWWTYDNFKSVIQIIKSILTPYFQPNENKG
FVEKYGKWAVITGATDGIGKQYSKELAKHGMNIVLISRTESKLIEVAKEIESMYSVKTKY
VAVDFGNGKEIYEKIKEELKSMDIGVLVNNVGRMYDFPDDLDHISEELLWQIININIGAV
TMMSRIFIPQMKANQRGMIVNISSGSECQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
15 g4625.t3 CDD cd05356 17beta-HSD1_like_SDR_c 66 209 2.80851E-73
8 g4625.t3 Gene3D G3DSA:3.40.50.720 - 61 209 3.4E-35
2 g4625.t3 PANTHER PTHR43899:SF9 MIP25013P-RELATED 19 209 5.0E-80
3 g4625.t3 PANTHER PTHR43899 RH59310P 19 209 5.0E-80
14 g4625.t3 PIRSF PIRSF000126 11-beta-HSD1 19 209 5.6E-70
6 g4625.t3 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 68 85 2.5E-8
5 g4625.t3 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 142 153 2.5E-8
4 g4625.t3 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 191 207 2.5E-8
1 g4625.t3 Pfam PF00106 short chain dehydrogenase 67 205 3.9E-28
10 g4625.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
12 g4625.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 33 -
11 g4625.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 34 167 -
13 g4625.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 168 188 -
9 g4625.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 189 209 -
7 g4625.t3 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 65 205 1.25E-32
16 g4625.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 13 35 -

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