Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 40S ribosomal protein S3.

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_1 g11600 g11600.t4 TTS g11600.t4 17408974 17408974
chr_1 g11600 g11600.t4 isoform g11600.t4 17409067 17409696
chr_1 g11600 g11600.t4 exon g11600.t4.exon1 17409067 17409574
chr_1 g11600 g11600.t4 cds g11600.t4.CDS1 17409067 17409423
chr_1 g11600 g11600.t4 exon g11600.t4.exon2 17409642 17409696
chr_1 g11600 g11600.t4 TSS g11600.t4 17410361 17410361

Sequences

>g11600.t4 Gene=g11600 Length=563
AACTCAAAATGTTTTGGGTGAAAAAGGTCGTCGTATTCGTGAATTAACAGCTGTTATTCA
ATTTTGCACCCGGTGCAGTTGAATTGTATGCTGAAAAAGTTGCTACCCGTGGTCTCTGCG
CTATTGCACAAGCCGAGTCTCTTCGATACAAACTCATTGGTGGCTTAGCTGTTCGTCGTG
CATGCTATGGTGTTCTTCGCTTCATTATGGAATCAGGAGCTAAGGGCTGCGAAGTTGTTG
TATCTGGCAAACTTAGAGGTCAACGTGCCAAGTCAATGAAATTTGTTGATGGGTTGATGA
TTCATTCAGGTGATCCTTGCAATGACTACGTTGATACAGCCACACGTCATGTCTTATTGA
GACAAGGAGTATTGGGAATTAAGGTCAAAATTATGCTACCATGGGATCCATCAGGCAAAA
TTGGTCCAAAACGACCATTGCCAGATAACGTTTCGGTTGTTGAACCTAAAGATGAGATCG
TATATTTGAAACCTGACACCGAATACAAAGGCAAACCAGCATATATTGGTGCTGAAGAAC
AGCAGCATGTCGAAGCTAAGTAA

>g11600.t4 Gene=g11600 Length=118
MESGAKGCEVVVSGKLRGQRAKSMKFVDGLMIHSGDPCNDYVDTATRHVLLRQGVLGIKV
KIMLPWDPSGKIGPKRPLPDNVSVVEPKDEIVYLKPDTEYKGKPAYIGAEEQQHVEAK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g11600.t4 Gene3D G3DSA:3.30.1140.32 - 1 95 3.4E-51
2 g11600.t4 PANTHER PTHR11760:SF36 40S RIBOSOMAL PROTEIN S3 1 107 1.2E-55
3 g11600.t4 PANTHER PTHR11760 30S/40S RIBOSOMAL PROTEIN S3 1 107 1.2E-55
1 g11600.t4 Pfam PF00189 Ribosomal protein S3, C-terminal domain 1 62 2.8E-17
5 g11600.t4 ProSitePatterns PS00548 Ribosomal protein S3 signature. 21 57 -
4 g11600.t4 SUPERFAMILY SSF54821 Ribosomal protein S3 C-terminal domain 1 65 1.07E-19

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:0006412 translation BP
GO:0003735 structural constituent of ribosome 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