Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 40S ribosomal protein S10b.

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 g9278 g9278.t9 isoform g9278.t9 1398731 1399725
chr_1 g9278 g9278.t9 exon g9278.t9.exon1 1398731 1398781
chr_1 g9278 g9278.t9 TSS g9278.t9 1398732 1398732
chr_1 g9278 g9278.t9 exon g9278.t9.exon2 1399146 1399333
chr_1 g9278 g9278.t9 cds g9278.t9.CDS1 1399146 1399333
chr_1 g9278 g9278.t9 exon g9278.t9.exon3 1399400 1399631
chr_1 g9278 g9278.t9 cds g9278.t9.CDS2 1399400 1399631
chr_1 g9278 g9278.t9 exon g9278.t9.exon4 1399687 1399725
chr_1 g9278 g9278.t9 cds g9278.t9.CDS3 1399687 1399725
chr_1 g9278 g9278.t9 TTS g9278.t9 1399800 1399800

Sequences

>g9278.t9 Gene=g9278 Length=510
TTCTTTTTCTTCGTGAATATCAAAACGTGAAGATATTCAAAGTAATTCAAAATGTTTATG
CCAAAAGCACATAAAGTGGCGATCTATGAACATCTCTTCAAAGAAGGAGTTCTTGTTGCA
CAAAAGGATTTTCATGCACCAAAACATCCCGAACTCGAGAGCGTTCCAAATCTTCATGTA
ATTAAGACTATGCAGTCATTGAAATCAAGAAATCTTGTTAAGGAACAATTTGCATGGAGG
TATCTCACAAATGAAGGCATTGAATATTTGCGTCAATATCTTCATTTGCCACCAGAAATC
GTTCCATCAACATTGAAGCGAACAACTCGCTCAGATGCTGCTCGTCCTCGCGCTGCTCCA
CGTTCAGATGGACCAAAATCAGGAGAAGATCGTCAAGCATACAGACGTGCACCAGGGCAA
TCGTCAGACAAAAAAGCCGATGTTGGTGCTGGTGCAGCTGATATTGAATTGCGTGGTGGA
TTCGGTCGTGGCTCAAGAGGCCCACAGTAA

>g9278.t9 Gene=g9278 Length=152
MFMPKAHKVAIYEHLFKEGVLVAQKDFHAPKHPELESVPNLHVIKTMQSLKSRNLVKEQF
AWRYLTNEGIEYLRQYLHLPPEIVPSTLKRTTRSDAARPRAAPRSDGPKSGEDRQAYRRA
PGQSSDKKADVGAGAADIELRGGFGRGSRGPQ

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g9278.t9 Gene3D G3DSA:1.10.10.10 winged helix repressor DNA binding domain 1 103 2.8E-42
4 g9278.t9 MobiDBLite mobidb-lite consensus disorder prediction 84 152 -
3 g9278.t9 MobiDBLite mobidb-lite consensus disorder prediction 93 125 -
2 g9278.t9 PANTHER PTHR12146 40S RIBOSOMAL PROTEIN S10 1 148 3.5E-50
1 g9278.t9 Pfam PF03501 Plectin/S10 domain 3 91 1.1E-38

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