Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Dehydrogenase/reductase SDR family member 11.

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 g8022 g8022.t1 TTS g8022.t1 27934425 27934425
chr_2 g8022 g8022.t1 isoform g8022.t1 27934505 27935332
chr_2 g8022 g8022.t1 exon g8022.t1.exon1 27934505 27934991
chr_2 g8022 g8022.t1 cds g8022.t1.CDS1 27934505 27934991
chr_2 g8022 g8022.t1 exon g8022.t1.exon2 27935052 27935332
chr_2 g8022 g8022.t1 cds g8022.t1.CDS2 27935052 27935332
chr_2 g8022 g8022.t1 TSS g8022.t1 27935341 27935341

Sequences

>g8022.t1 Gene=g8022 Length=768
ATGGCAGACAAGTGGAAAGGAAAAATAGCTGTCATTACAGGCAGTTCATCTGGCATTGGC
TTTGCTACATTCCAACAATTTATAAAAAATGGAATAATCACAATTGGATTAGATATCAAC
ATTGAAAAAACTATTGAATACATCAATCAAGAAGAAATTTCTAATGGATTCGCATATGAA
TGTGATATCTCAAACGAAAACTCAGTTGCCAAAATTTTTAGTGAAATTAAAAATAAATTC
AGTTTTATCCATATTTTGATCAACAACGCGGGAATAGGAAGAAAAGCAGAAGTACTCGAT
GATGACGAAGAATCTCTGAGGAATATGAATCTAGTAATTGATACGAATTTCCGTGGTTTG
TTGCACTGTACGAGACAATCATTTAAATTAATGTCAGCATCGAATGACTATGGTTTAATC
ATAAACATAAACTCTATAACTGGTCATTTAGTGCCATTTACAAGTTTTTCAATGAATGTT
TACAGCCCAACAAAATTTGCCGGTCGTGCTTTAACTGAAAGCATTAGACATGAATTGTTT
AGAAATGGAAATAAAAAAATTCGCATTGGTAATATATCTCCAGGGCTCGTTGAAAGTAAC
TTTGCAGCATCTAGCAAATATTTTGATGAACTTGAACAGCACAGTTTTTCAGATGTTCCT
CTTTTGAAACCAATCGAAATTGCTAAATGTATTATGTTTATACTCAGTACTCCATATGAG
GTCAATATCAATGACATAATAATCAGATCAACTGGAGAGCAGTTTTAA

>g8022.t1 Gene=g8022 Length=255
MADKWKGKIAVITGSSSGIGFATFQQFIKNGIITIGLDINIEKTIEYINQEEISNGFAYE
CDISNENSVAKIFSEIKNKFSFIHILINNAGIGRKAEVLDDDEESLRNMNLVIDTNFRGL
LHCTRQSFKLMSASNDYGLIININSITGHLVPFTSFSMNVYSPTKFAGRALTESIRHELF
RNGNKKIRIGNISPGLVESNFAASSKYFDELEQHSFSDVPLLKPIEIAKCIMFILSTPYE
VNINDIIIRSTGEQF

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g8022.t1 Gene3D G3DSA:3.40.50.720 - 1 254 0e+00
2 g8022.t1 PANTHER PTHR43115 DEHYDROGENASE/REDUCTASE SDR FAMILY MEMBER 11 4 255 0e+00
6 g8022.t1 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 9 26 0e+00
3 g8022.t1 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature 81 92 1e-07
7 g8022.t1 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 81 92 0e+00
10 g8022.t1 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 132 148 0e+00
4 g8022.t1 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature 138 146 1e-07
5 g8022.t1 PRINTS PR00080 Short-chain dehydrogenase/reductase (SDR) superfamily signature 161 180 1e-07
11 g8022.t1 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 161 180 0e+00
9 g8022.t1 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 185 202 0e+00
8 g8022.t1 PRINTS PR00081 Glucose/ribitol dehydrogenase family signature 217 237 0e+00
1 g8022.t1 Pfam PF00106 short chain dehydrogenase 8 204 0e+00
12 g8022.t1 SUPERFAMILY SSF51735 NAD(P)-binding Rossmann-fold domains 5 250 0e+00

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