General information for g14004.t39
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.t39 | TTS | g14004.t39 | 33960516 | 33960516 |
| chr_1 | g14004 | g14004.t39 | isoform | g14004.t39 | 33960643 | 33963795 |
| chr_1 | g14004 | g14004.t39 | exon | g14004.t39.exon1 | 33960643 | 33960909 |
| chr_1 | g14004 | g14004.t39 | cds | g14004.t39.CDS1 | 33960643 | 33960909 |
| chr_1 | g14004 | g14004.t39 | exon | g14004.t39.exon2 | 33960971 | 33961163 |
| chr_1 | g14004 | g14004.t39 | cds | g14004.t39.CDS2 | 33960971 | 33961060 |
| chr_1 | g14004 | g14004.t39 | exon | g14004.t39.exon3 | 33961312 | 33961615 |
| chr_1 | g14004 | g14004.t39 | exon | g14004.t39.exon4 | 33963735 | 33963795 |
| chr_1 | g14004 | g14004.t39 | TSS | g14004.t39 | NA | NA |
Sequences
>g14004.t39 Gene=g14004 Length=825
TCAGATATTATAAAACAAAATTTAAAAATCGATGTGTTTTGATGCATGTCTCAATATAAA
CAATGGCTCCTACAGCTAAAACGGCTTCAAAGGATAAGAAACTGCCTGCAGTTCCTGAAT
CAAAGTTGAAAGATGGAAAACGTCGATTGGCATCTCGCGGAAAATTAATTCTCCGTAAAC
GCATTATTCGATCGAAAGTTGCTCTTCGCCGTCGTCAAAATCTCGTTCGTGCTGAAAAAT
ATACACGCACATATTTGAAATTGCAAAAGGATGTCATTGAGCAGGCTCGCGCTGCCAAGA
AAGCTGGAAATATTTATATCCCAGCATACCCGAAAGTTGCTTTTGTCATCCGTATTCGTG
GGTGATGTCAACAAAGTCGCTCCAAAGGTAAAGAAGGTCTTGCAATTGCTTCGCTTGCGT
CAAATCAACAATGCTACATTTGTTAAGTTGAATAAGGCCACACTCAATATGTTGAGAATT
GCTCAACCTTATATCACTTATGGATATCCAACTCTCAAAACAGTTCGTGATTTGATCTAT
AAGAGAGGTTTCGTTAAGCACGGAGGTCGACGCATTCCAATCACTGACAACTTTGTGATT
GAACGCAAATTGAAAAAAGGATACAATATTCAGTGTGTTGAAGATATGGTATATCAAATC
TACACATGCGGCCGAGTGTTCAAACAGGTAAACAACTTCCTCTGGCCATTCAAACTTAAC
ACACCAACTGGTGGCTGGCGTAAAAAGAACAACCACTTTGTTGAAGGAGGAGATTTCGGT
AATCGTGAAGATAAAATCAATGAACTCGTTCAACGTATGGTTTAA
>g14004.t39 Gene=g14004 Length=118
MLRIAQPYITYGYPTLKTVRDLIYKRGFVKHGGRRIPITDNFVIERKLKKGYNIQCVEDM
VYQIYTCGRVFKQVNNFLWPFKLNTPTGGWRKKNNHFVEGGDFGNREDKINELVQRMV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g14004.t39 | CDD | cd01657 | Ribosomal_L7_archeal_euk | 1 | 118 | 0 |
| 3 | g14004.t39 | Gene3D | G3DSA:3.30.1390.20 | - | 1 | 106 | 0 |
| 4 | g14004.t39 | Gene3D | G3DSA:1.10.15.30 | - | 15 | 78 | 0 |
| 1 | g14004.t39 | PANTHER | PTHR11524 | 60S RIBOSOMAL PROTEIN L7 | 1 | 117 | 0 |
| 2 | g14004.t39 | SUPERFAMILY | SSF55129 | Ribosomal protein L30p/L7e | 1 | 118 | 0 |
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