Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Heat shock protein 23.

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_4 g17054 g17054.t4 TTS g17054.t4 12324668 12324668
chr_4 g17054 g17054.t4 isoform g17054.t4 12324809 12325486
chr_4 g17054 g17054.t4 exon g17054.t4.exon1 12324809 12325272
chr_4 g17054 g17054.t4 cds g17054.t4.CDS1 12324809 12325272
chr_4 g17054 g17054.t4 exon g17054.t4.exon2 12325432 12325486
chr_4 g17054 g17054.t4 cds g17054.t4.CDS2 12325432 12325486
chr_4 g17054 g17054.t4 TSS g17054.t4 12325634 12325634

Sequences

>g17054.t4 Gene=g17054 Length=519
ATGGCAAATCTTATTCGTGCACTTTCACTTCTTGATGATCCATTTTATTCATATGTTCCA
CGTACTGCATTGCATTATCATTTACCTACTGGCTACTATCGTCCGTGGCAAATGGCTCGT
CAAGCAATGTCTGAATTGAACAAAGATCAAAAGTCATTGCAATTAGGCAAAGAAGGATTC
CAAGCTTGTGTTGATGTTCAACACTTTAAACCAAATGAAATCTCTGTCAAAGTTCAAGAT
CACACTGTCATAATTGAAGGAAAGCATGAAGAACGAGATGATGCACATGGAACCATTGAA
AGAAGTTTTGTTCGCAAATATGTGTTGCCACAAGAATATGACATGAATACAGTTCAATCG
ACTTTGTCAAGTGATGGAGTTTTGACTATCAAGGCACCACCACCACAAGCTATTGATGGA
CCTAAGGAAAGAAATATTGAAATCACTCATACAAATGCACCAGCTCGTGAAAGTATTAAA
GAAAACAAGTCTGAAGAGAAACAAGCCAATCAAAAATAA

>g17054.t4 Gene=g17054 Length=172
MANLIRALSLLDDPFYSYVPRTALHYHLPTGYYRPWQMARQAMSELNKDQKSLQLGKEGF
QACVDVQHFKPNEISVKVQDHTVIIEGKHEERDDAHGTIERSFVRKYVLPQEYDMNTVQS
TLSSDGVLTIKAPPPQAIDGPKERNIEITHTNAPARESIKENKSEEKQANQK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g17054.t4 CDD cd06526 metazoan_ACD 56 133 1.4118E-41
10 g17054.t4 Gene3D G3DSA:2.60.40.790 - 32 170 1.7E-31
12 g17054.t4 MobiDBLite mobidb-lite consensus disorder prediction 126 172 -
13 g17054.t4 MobiDBLite mobidb-lite consensus disorder prediction 143 172 -
2 g17054.t4 PANTHER PTHR45640:SF23 HEAT SHOCK PROTEIN 22-RELATED 38 163 1.6E-44
3 g17054.t4 PANTHER PTHR45640 HEAT SHOCK PROTEIN HSP-12.2-RELATED 38 163 1.6E-44
8 g17054.t4 PRINTS PR00299 Alpha crystallin signature 54 74 1.2E-19
7 g17054.t4 PRINTS PR00299 Alpha crystallin signature 76 89 1.2E-19
5 g17054.t4 PRINTS PR00299 Alpha crystallin signature 91 110 1.2E-19
4 g17054.t4 PRINTS PR00299 Alpha crystallin signature 113 134 1.2E-19
6 g17054.t4 PRINTS PR00299 Alpha crystallin signature 143 158 1.2E-19
1 g17054.t4 Pfam PF00011 Hsp20/alpha crystallin family 56 148 1.3E-26
14 g17054.t4 ProSiteProfiles PS01031 Small heat shock protein (sHSP) domain profile. 41 149 20.771
9 g17054.t4 SUPERFAMILY SSF49764 HSP20-like chaperones 57 147 1.78E-14

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

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.

Raw TPM values