Gene loci information

Transcript annotation

  • This transcript has been annotated as 40S ribosomal protein S14.

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 g9932 g9932.t17 TSS g9932.t17 6069379 6069379
chr_1 g9932 g9932.t17 isoform g9932.t17 6069414 6070061
chr_1 g9932 g9932.t17 exon g9932.t17.exon1 6069414 6069650
chr_1 g9932 g9932.t17 cds g9932.t17.CDS1 6069414 6069650
chr_1 g9932 g9932.t17 exon g9932.t17.exon2 6069726 6069789
chr_1 g9932 g9932.t17 cds g9932.t17.CDS2 6069726 6069789
chr_1 g9932 g9932.t17 exon g9932.t17.exon3 6069880 6070061
chr_1 g9932 g9932.t17 cds g9932.t17.CDS3 6069880 6069944
chr_1 g9932 g9932.t17 TTS g9932.t17 6070062 6070062

Sequences

>g9932.t17 Gene=g9932 Length=483
ATGGCTCCAAGAAAGAATAAAGTTGCGAAAGAAGAAGTTCAAGTATCACTCGGACCTCAA
GTTCGTGAAGGAGAAATTGTTTTCGGTGTTGCACACATCTATGCTAGTTTCAATGATACT
TTTGTTCATGTCACCGATTTATCAGGCAAAGAAACAATTTCACGCGTTACTGGCGGTATG
AAAGTAAAAGCCGATCGTGATGAGGCATCTCCCTATGCTGCTATGTTGGCTGCACAAGAT
GTTGCTGAAAAATGCAAAACTCTTGGAATCACAGCCCTTCACATTAAATTACGTGCAACT
GATGTCACTCCAATTCCATCAGATTCAACACGCCGAAAGGGTGGCAGACGTGGTCGCCGA
TTGTAAATTAACATCTTTTTGCTGCATAACAAGTTTACTGAACATTCAATATTACTTGCA
TTAACTTTCACCATTCAGATTGAAATGCAAAAAGGCATAAAAATGCATAATAAAGTTATG
AAC

>g9932.t17 Gene=g9932 Length=121
MAPRKNKVAKEEVQVSLGPQVREGEIVFGVAHIYASFNDTFVHVTDLSGKETISRVTGGM
KVKADRDEASPYAAMLAAQDVAEKCKTLGITALHIKLRATDVTPIPSDSTRRKGGRRGRR
L

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g9932.t17 Gene3D G3DSA:3.30.420.80 - 1 99 4.5E-50
9 g9932.t17 Gene3D G3DSA:3.30.420.80 - 100 121 3.6E-6
7 g9932.t17 MobiDBLite mobidb-lite consensus disorder prediction 101 121 -
2 g9932.t17 PANTHER PTHR11759:SF37 BNAA05G27530D PROTEIN 4 100 9.1E-67
4 g9932.t17 PANTHER PTHR11759 40S RIBOSOMAL PROTEIN S14/30S RIBOSOMAL PROTEIN S11 4 100 9.1E-67
3 g9932.t17 PANTHER PTHR11759:SF37 BNAA05G27530D PROTEIN 101 121 9.1E-67
5 g9932.t17 PANTHER PTHR11759 40S RIBOSOMAL PROTEIN S14/30S RIBOSOMAL PROTEIN S11 101 121 9.1E-67
11 g9932.t17 PIRSF PIRSF002131 RPS11p_RPS11a_RPS14e_RPS11o 1 100 1.9E-24
10 g9932.t17 PIRSF PIRSF002131 RPS11p_RPS11a_RPS14e_RPS11o 98 118 0.17
1 g9932.t17 Pfam PF00411 Ribosomal protein S11 29 99 1.2E-25
6 g9932.t17 SUPERFAMILY SSF53137 Translational machinery components 24 119 2.55E-27

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:0005840 ribosome CC
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.

Raw TPM values