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.t3 TTS g4622.t3 3658632 3658632
chr_2 g4622 g4622.t3 isoform g4622.t3 3658693 3660327
chr_2 g4622 g4622.t3 exon g4622.t3.exon1 3658693 3658797
chr_2 g4622 g4622.t3 cds g4622.t3.CDS1 3658693 3658797
chr_2 g4622 g4622.t3 exon g4622.t3.exon2 3658855 3659057
chr_2 g4622 g4622.t3 cds g4622.t3.CDS2 3658855 3659057
chr_2 g4622 g4622.t3 exon g4622.t3.exon3 3659118 3659474
chr_2 g4622 g4622.t3 cds g4622.t3.CDS3 3659118 3659474
chr_2 g4622 g4622.t3 exon g4622.t3.exon4 3659841 3660327
chr_2 g4622 g4622.t3 cds g4622.t3.CDS4 3659841 3660045
chr_2 g4622 g4622.t3 TSS g4622.t3 NA NA

Sequences

>g4622.t3 Gene=g4622 Length=1152
ATGTCTCTTGATTTTGGTATGTAGTAAAATTAATGTTAGGAATTTTTTCAGAATACAATT
CAAACTCCTTTTGGTAATGCCTTTCGTTAATTTAACTTGACTCATAAAAATTTATTACAG
ATCAATACTTTTAATTAAAAACTTTTAAATGTCTTAGTTTATGAGTCAATAACATTTATA
AATTTTCATCTGTATCAATAAAGTGTCAAAATATATTGTCAATGCTCATCTCATAAGTAA
TTTATTTGTATCAAAGAAGTAGTCATTATAAGAAGTTCAAAAATGTTCTACTCTTATATT
TTATTTTTAATAAATTATCTCTTTTTAATAATTTATTATTTTTTAATATTTGTTGGTGTA
GCAAATTTTTGTTATTATTTGTGCCATTGTTTAAAATCACCACTTGATATAACTTTGAAT
ATTTTAAAATCTTTATTTTTTTCATCAGAAAGAAAAAGTTTTAGTGAAAAATATGGTGAA
TGGGCAGAACAAGAACATTCAGTAGAAGTAAAATATATTTTTGCAGACTTCAGTAAAGGA
AAAGAAGTTTATGAAGAACTCAAAAAAGAACTTTTATCACTTGATATTGGAATTCTTATC
AATAATGTTGGAATTTTTCATGAATATCCAAATTATTTTGATTTAATTTCTGAAGATTTA
ATTTGGAAACTTTTAGAAATTAACGTTAAAGCAACAACAATGATGTCAAGAATGATTATT
CCACAAATGAAGAGCAAGAAACGTGGATTGATCATTAATATTTCATCAGTTATCGCCACT
TGTCCTATGCCTTTAGCTACTATTTATTCAGCTAGTAAACTTTATGTTCACTTCTTTACT
TTAGCACTTCGAAAAGAACTCGAAAAATATGGAGTTCAAGTTCAACTTATTTCACCTTCA
TTAGTTGCAACTAAAATTAACAGTTTCTCAAAATTCCTAGAAACAAAGAGTTTTATTATA
CCAGACGCAGAAACTTTTGCAAAAAATGCAGTTTTTACTTTTGGTAAAACATCTCAAACG
ACTGGTTATTGGAAACATGCACTTTTGGCGGCTTTTTGTAAATTAGGTTCACAAGCAATG
AACACATTTTGCTTTCATGAAGTAGGAAAAATAGTCAGAGAAGAATATTTGAGAAACAAA
AAAACATCATGA

>g4622.t3 Gene=g4622 Length=289
MFYSYILFLINYLFLIIYYFLIFVGVANFCYYLCHCLKSPLDITLNILKSLFFSSERKSF
SEKYGEWAEQEHSVEVKYIFADFSKGKEVYEELKKELLSLDIGILINNVGIFHEYPNYFD
LISEDLIWKLLEINVKATTMMSRMIIPQMKSKKRGLIINISSVIATCPMPLATIYSASKL
YVHFFTLALRKELEKYGVQVQLISPSLVATKINSFSKFLETKSFIIPDAETFAKNAVFTF
GKTSQTTGYWKHALLAAFCKLGSQAMNTFCFHEVGKIVREEYLRNKKTS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
20 g4622.t3 CDD cd05356 17beta-HSD1_like_SDR_c 69 261 3.85911E-76
12 g4622.t3 Gene3D G3DSA:3.40.50.720 - 55 260 3.3E-32
2 g4622.t3 PANTHER PTHR43899:SF9 MIP25013P-RELATED 70 287 1.8E-81
3 g4622.t3 PANTHER PTHR43899 RH59310P 70 287 1.8E-81
18 g4622.t3 PIRSF PIRSF000126 11-beta-HSD1 17 68 8.7
19 g4622.t3 PIRSF PIRSF000126 11-beta-HSD1 68 285 5.8E-66
6 g4622.t3 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature 100 111 3.6E-8
10 g4622.t3 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 100 111 6.9E-12
9 g4622.t3 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 149 165 6.9E-12
5 g4622.t3 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature 155 163 3.6E-8
4 g4622.t3 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature 175 194 3.6E-8
8 g4622.t3 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 175 194 6.9E-12
7 g4622.t3 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 196 213 6.9E-12
1 g4622.t3 Pfam PF00106 short chain dehydrogenase 73 214 9.0E-30
15 g4622.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
17 g4622.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 34 -
13 g4622.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 35 155 -
16 g4622.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 156 177 -
14 g4622.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 178 289 -
23 g4622.t3 ProSitePatterns PS00061 Short-chain dehydrogenases/reductases family signature. 162 190 -
11 g4622.t3 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 69 250 3.83E-32
22 g4622.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 5 27 -
21 g4622.t3 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