Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 60S ribosomal protein L7a.

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 g12102 g12102.t38 TSS g12102.t38 20939009 20939009
chr_1 g12102 g12102.t38 isoform g12102.t38 20939077 20940413
chr_1 g12102 g12102.t38 exon g12102.t38.exon1 20939077 20939091
chr_1 g12102 g12102.t38 cds g12102.t38.CDS1 20939077 20939091
chr_1 g12102 g12102.t38 exon g12102.t38.exon2 20939358 20939631
chr_1 g12102 g12102.t38 cds g12102.t38.CDS2 20939358 20939631
chr_1 g12102 g12102.t38 exon g12102.t38.exon3 20939691 20939850
chr_1 g12102 g12102.t38 cds g12102.t38.CDS3 20939691 20939850
chr_1 g12102 g12102.t38 exon g12102.t38.exon4 20940108 20940413
chr_1 g12102 g12102.t38 cds g12102.t38.CDS4 20940108 20940165
chr_1 g12102 g12102.t38 TTS g12102.t38 20940505 20940505

Sequences

>g12102.t38 Gene=g12102 Length=755
ATGGTCGCTAAAAAGCCAGTAAGCAAAAAGAAGGTTGTTGGTAAAAAAGTGGCTGCTGCT
CCTCTTTCAAAATCAGCAGTACAAAAGAAAACTGCTAGCAATCCATTGTTCGAAAAACGT
CCCAAGAATTATGGTATTGGTCAAAACGTTCAACCAAAACGTGATCTATCACGTTTCGTT
AGATGGCCAAAATATATTCGTATTCAGCGCCATAAAGCTATCTTGCAAAAAAGATTGAAG
GTTCCACCACCAATTAATCAATTTTCTCAAGCTTTAGATAAGCAAACAGCCGTTCAATTA
TTTAAAGTTTTGGAAAAATATCGTCCAGAATCAAAGTTGCAAAAAGCTGCTCGTTTGAAG
AAAAAGGCTGAAGAAAAGGTTGCAGGCAAGGATGATGCTCCATCAAAGAAGAAATTGACA
TTGAGAGCTGGTTGCAACACAGTCACCAATTGGTTCTCTTTTTGCCAGCCTTATGCCGTA
AAATGGGAGTTCCATATTGCATCGTAAAGGGCAAATCACGATTGGGACGTTTGGTTCATC
GCAAAACATGCACAACTTTAGCTTTGTGCAATGTTGATAATGCTGATCGCGCAAACTTCT
CAAAGATCGTGGAATCAATTAAGACCAACTATAATGATCGTTATGATGAAATTCGTCGTC
ATTGGGGTGGTGGTTTACTCGGACCAAAATCAATGGCTCGTATTGCTAAGGTTGAAAAGG
CTAAAGCTCGTGAATTAGCCCAAAAACAAGGATAA

>g12102.t38 Gene=g12102 Length=168
MVAKKPVSKKKVVGKKVAAAPLSKSAVQKKTASNPLFEKRPKNYGIGQNVQPKRDLSRFV
RWPKYIRIQRHKAILQKRLKVPPPINQFSQALDKQTAVQLFKVLEKYRPESKLQKAARLK
KKAEEKVAGKDDAPSKKKLTLRAGCNTVTNWFSFCQPYAVKWEFHIAS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g12102.t38 Gene3D G3DSA:3.30.1330.210 - 62 154 3.6E-34
8 g12102.t38 MobiDBLite mobidb-lite consensus disorder prediction 23 44 -
1 g12102.t38 PANTHER PTHR23105:SF134 - 12 150 1.6E-43
2 g12102.t38 PANTHER PTHR23105 RIBOSOMAL PROTEIN L7AE FAMILY MEMBER 12 150 1.6E-43
7 g12102.t38 PRINTS PR00882 Ribosomal protein L7A family signature 41 58 2.0E-38
4 g12102.t38 PRINTS PR00882 Ribosomal protein L7A family signature 58 75 2.0E-38
6 g12102.t38 PRINTS PR00882 Ribosomal protein L7A family signature 78 97 2.0E-38
3 g12102.t38 PRINTS PR00882 Ribosomal protein L7A family signature 102 115 2.0E-38
5 g12102.t38 PRINTS PR00882 Ribosomal protein L7A family signature 137 157 2.0E-38
9 g12102.t38 SignalP_GRAM_POSITIVE SignalP-TM SignalP-TM 1 19 -

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. There were no conditions that were differentially expressed