General information for g14004.t31
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 60S ribosomal protein L7.
Parent gene
- The parent gene g14004 is located on chr_1: 33960971..33965851 (- strand)
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 | g14004 | g14004.t31 | TTS | g14004.t31 | 33960516 | 33960516 |
| chr_1 | g14004 | g14004.t31 | isoform | g14004.t31 | 33960643 | 33961739 |
| chr_1 | g14004 | g14004.t31 | exon | g14004.t31.exon1 | 33960643 | 33960909 |
| chr_1 | g14004 | g14004.t31 | cds | g14004.t31.CDS1 | 33960643 | 33960909 |
| chr_1 | g14004 | g14004.t31 | exon | g14004.t31.exon2 | 33960977 | 33961163 |
| chr_1 | g14004 | g14004.t31 | cds | g14004.t31.CDS2 | 33960977 | 33961060 |
| chr_1 | g14004 | g14004.t31 | exon | g14004.t31.exon3 | 33961312 | 33961615 |
| chr_1 | g14004 | g14004.t31 | exon | g14004.t31.exon4 | 33961704 | 33961739 |
| chr_1 | g14004 | g14004.t31 | TSS | g14004.t31 | 33961727 | 33961727 |
Sequences
>g14004.t31 Gene=g14004 Length=794
ACTATGCTCTTTCTTTTTTTCCTGAACATTCAAAACAATGGCTCCTACAGCTAAAACGGC
TTCAAAGGATAAGAAACTGCCTGCAGTTCCTGAATCAAAGTTGAAAGATGGAAAACGTCG
ATTGGCATCTCGCGGAAAATTAATTCTCCGTAAACGCATTATTCGATCGAAAGTTGCTCT
TCGCCGTCGTCAAAATCTCGTTCGTGCTGAAAAATATACACGCACATATTTGAAATTGCA
AAAGGATGTCATTGAGCAGGCTCGCGCTGCCAAGAAAGCTGGAAATATTTATATCCCAGC
ATACCCGAAAGTTGCTTTTGTCATCCGTATTCGTGGGTGATGTCAACAAAGTCGCTCCAA
AGGTAAAGAAGGTCTTGCAATTGCTTCGCTTGCGTCAAATCAACAATGCTACATTTGTTA
AGTTGAATAAGGCCACACTCAATATGTTGAGAATTGCTCAACCTTATATCACTTATGGAT
ATCCAACTCTCAAAACAGTTCGTGATTTGATCTATAAGAGAGGTTTCCACGGAGGTCGAC
GCATTCCAATCACTGACAACTTTGTGATTGAACGCAAATTGAAAAAAGGATACAATATTC
AGTGTGTTGAAGATATGGTATATCAAATCTACACATGCGGCCGAGTGTTCAAACAGGTAA
ACAACTTCCTCTGGCCATTCAAACTTAACACACCAACTGGTGGCTGGCGTAAAAAGAACA
ACCACTTTGTTGAAGGAGGAGATTTCGGTAATCGTGAAGATAAAATCAATGAACTCGTTC
AACGTATGGTTTAA
>g14004.t31 Gene=g14004 Length=116
MLRIAQPYITYGYPTLKTVRDLIYKRGFHGGRRIPITDNFVIERKLKKGYNIQCVEDMVY
QIYTCGRVFKQVNNFLWPFKLNTPTGGWRKKNNHFVEGGDFGNREDKINELVQRMV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g14004.t31 | CDD | cd01657 | Ribosomal_L7_archeal_euk | 1 | 116 | 0.0e+00 |
| 3 | g14004.t31 | Gene3D | G3DSA:3.30.1390.20 | - | 41 | 116 | 8.1e-06 |
| 1 | g14004.t31 | PANTHER | PTHR11524 | 60S RIBOSOMAL PROTEIN L7 | 1 | 115 | 0.0e+00 |
| 2 | g14004.t31 | SUPERFAMILY | SSF55129 | Ribosomal protein L30p/L7e | 1 | 116 | 0.0e+00 |
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