Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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 g4622 g4622.t4 TTS g4622.t4 3658632 3658632
chr_2 g4622 g4622.t4 isoform g4622.t4 3658693 3660327
chr_2 g4622 g4622.t4 exon g4622.t4.exon1 3658693 3659057
chr_2 g4622 g4622.t4 cds g4622.t4.CDS1 3658843 3659057
chr_2 g4622 g4622.t4 exon g4622.t4.exon2 3659118 3659474
chr_2 g4622 g4622.t4 cds g4622.t4.CDS2 3659118 3659474
chr_2 g4622 g4622.t4 exon g4622.t4.exon3 3659841 3660327
chr_2 g4622 g4622.t4 cds g4622.t4.CDS3 3659841 3660045
chr_2 g4622 g4622.t4 TSS g4622.t4 NA NA

Sequences

>g4622.t4 Gene=g4622 Length=1209
ATGTCTCTTGATTTTGGTATGTAGTAAAATTAATGTTAGGAATTTTTTCAGAATACAATT
CAAACTCCTTTTGGTAATGCCTTTCGTTAATTTAACTTGACTCATAAAAATTTATTACAG
ATCAATACTTTTAATTAAAAACTTTTAAATGTCTTAGTTTATGAGTCAATAACATTTATA
AATTTTCATCTGTATCAATAAAGTGTCAAAATATATTGTCAATGCTCATCTCATAAGTAA
TTTATTTGTATCAAAGAAGTAGTCATTATAAGAAGTTCAAAAATGTTCTACTCTTATATT
TTATTTTTAATAAATTATCTCTTTTTAATAATTTATTATTTTTTAATATTTGTTGGTGTA
GCAAATTTTTGTTATTATTTGTGCCATTGTTTAAAATCACCACTTGATATAACTTTGAAT
ATTTTAAAATCTTTATTTTTTTCATCAGAAAGAAAAAGTTTTAGTGAAAAATATGGTGAA
TGGGCAGAACAAGAACATTCAGTAGAAGTAAAATATATTTTTGCAGACTTCAGTAAAGGA
AAAGAAGTTTATGAAGAACTCAAAAAAGAACTTTTATCACTTGATATTGGAATTCTTATC
AATAATGTTGGAATTTTTCATGAATATCCAAATTATTTTGATTTAATTTCTGAAGATTTA
ATTTGGAAACTTTTAGAAATTAACGTTAAAGCAACAACAATGATGTCAAGAATGATTATT
CCACAAATGAAGAGCAAGAAACGTGGATTGATCATTAATATTTCATCAGTTATCGCCACT
TGTCCTATGCCTTTAGCTACTATTTATTCAGCTAGTAAACTTTATGTTCACTTCTTTACT
TTAGCACTTCGAAAAGAACTCGAAAAATATGGAGTTCAAGTTCAACTTATTTCACCTTCA
TTAGTTGCAACTAAAATTAACAGTTTCTCAAAATTCCTAGAAACAAAGAGTTTTATTATA
CCAGACGCAGAAACTTTTGCAAAAAATGCAGTTTTTACTTTTGGTAAAACATCTCAAACG
ACTGGTTATTGGAAACATGCACTTTTGGTGATAAAATAATCTTATTACATAAATTTATAT
TTTTTAAAAAAATTTTTTTATCAGGCGGCTTTTTGTAAATTAGGTTCACAAGCAATGAAC
ACATTTTGCTTTCATGAAGTAGGAAAAATAGTCAGAGAAGAATATTTGAGAAACAAAAAA
ACATCATGA

>g4622.t4 Gene=g4622 Length=258
MFYSYILFLINYLFLIIYYFLIFVGVANFCYYLCHCLKSPLDITLNILKSLFFSSERKSF
SEKYGEWAEQEHSVEVKYIFADFSKGKEVYEELKKELLSLDIGILINNVGIFHEYPNYFD
LISEDLIWKLLEINVKATTMMSRMIIPQMKSKKRGLIINISSVIATCPMPLATIYSASKL
YVHFFTLALRKELEKYGVQVQLISPSLVATKINSFSKFLETKSFIIPDAETFAKNAVFTF
GKTSQTTGYWKHALLVIK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
20 g4622.t4 CDD cd05356 17beta-HSD1_like_SDR_c 69 255 3.16924E-75
12 g4622.t4 Gene3D G3DSA:3.40.50.720 - 55 253 2.6E-32
2 g4622.t4 PANTHER PTHR43899:SF9 MIP25013P-RELATED 70 254 5.5E-77
3 g4622.t4 PANTHER PTHR43899 RH59310P 70 254 5.5E-77
18 g4622.t4 PIRSF PIRSF000126 11-beta-HSD1 16 69 6.4
19 g4622.t4 PIRSF PIRSF000126 11-beta-HSD1 62 257 1.0E-64
6 g4622.t4 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature 100 111 2.7E-8
10 g4622.t4 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 100 111 4.8E-12
9 g4622.t4 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 149 165 4.8E-12
5 g4622.t4 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature 155 163 2.7E-8
4 g4622.t4 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature 175 194 2.7E-8
8 g4622.t4 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 175 194 4.8E-12
7 g4622.t4 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 196 213 4.8E-12
1 g4622.t4 Pfam PF00106 short chain dehydrogenase 73 214 6.6E-30
15 g4622.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
17 g4622.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 34 -
13 g4622.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 35 155 -
16 g4622.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 156 177 -
14 g4622.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 178 258 -
23 g4622.t4 ProSitePatterns PS00061 Short-chain dehydrogenases/reductases family signature. 162 190 -
11 g4622.t4 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 69 249 4.17E-32
22 g4622.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 5 27 -
21 g4622.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 155 177 -

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