General information for g12287.t28
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Elongation factor 2.
Parent gene
- The parent gene g12287 is located on chr_1: 22172800..22173568 (+ 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 | g12287 | g12287.t28 | isoform | g12287.t28 | 22172624 | 22173484 |
| chr_1 | g12287 | g12287.t28 | exon | g12287.t28.exon1 | 22172624 | 22173484 |
| chr_1 | g12287 | g12287.t28 | cds | g12287.t28.CDS1 | 22172751 | 22173107 |
| chr_1 | g12287 | g12287.t28 | TTS | g12287.t28 | 22173564 | 22173564 |
| chr_1 | g12287 | g12287.t28 | TSS | g12287.t28 | NA | NA |
Sequences
>g12287.t28 Gene=g12287 Length=861
AGCTGTTCGTTTCAACATTTATGATGTTACACTGCATGCTGACGCTATCCATCGTGGAGG
TGGTCAAATCATTCCAACAACTCGTCGTTGCTTGTATGCATCATACATCACAGCTTCTCC
ACGTTTGATGGAGCCAGTTTATTTGTGTGAAATTCAATGTCCAGAAGTTGCTGTCGGTGG
TATTTATGGTGTGCTTAATCGTCGTCGTGGTCATGTCTTTGAAGAATCACAAGTTGCCGG
TACACCTATGTTCGTTGTCAAAGCTTATTTGCCTGTAAATGAATCATTTGGATTCACTGC
TGATTTGCGCTCAAATACTGGAGGTCAAGCTTTCCCACAATGTGTATTTGACCATTGGCA
GATCTTCCCAGGTGACCCTAACGAACCATCATCAAAACCATACCAGATTGTGCAAGATAC
AAGAAAACGTAAAGGTCTCAAAGAAGGTTTACCAGATTTGAACCAATACTATGATAAAAT
GTAAAAGTCTTTCCGAGCTTCTTCAGTTATACTTATTATTTTTTCCCTCTTCATTTTTTG
CTTATAATTTTTTGATTTTTATATTTTTATCATAACATTACGCATAAAAGATAAAACAAC
ATCAAAGCAAGAAAAAAGCGTTGATTATTTTATATCAATTAATCGTAATATTGTAATCAA
ACTTAAAATATTTTTTGAGCGTCTTAATATGAGTTAAGTTAAAAGCATTCTCCTATGAAA
ATTAAAAGCGTTTATGAGTTCGCCATAAATATGCTGTTACATCTACGCGCGAAAGTGGTT
GAAATGAAAAAGAATTTCATATAAATATTAACAATGATATCCAGCAACATGGAAGAAAAA
TTAGAACGACGGAAACGGAAA
>g12287.t28 Gene=g12287 Length=118
MEPVYLCEIQCPEVAVGGIYGVLNRRRGHVFEESQVAGTPMFVVKAYLPVNESFGFTADL
RSNTGGQAFPQCVFDHWQIFPGDPNEPSSKPYQIVQDTRKRKGLKEGLPDLNQYYDKM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g12287.t28 | CDD | cd04096 | eEF2_snRNP_like_C | 2 | 81 | 0 |
| 6 | g12287.t28 | Gene3D | G3DSA:3.30.70.240 | - | 1 | 118 | 0 |
| 2 | g12287.t28 | PANTHER | PTHR42908 | TRANSLATION ELONGATION FACTOR-RELATED | 1 | 118 | 0 |
| 3 | g12287.t28 | PANTHER | PTHR42908:SF28 | EUKARYOTIC TRANSLATION ELONGATION FACTOR 2,-LIKE 2-RELATED | 1 | 118 | 0 |
| 1 | g12287.t28 | Pfam | PF00679 | Elongation factor G C-terminus | 1 | 85 | 0 |
| 5 | g12287.t28 | SMART | SM00838 | EFG_C_a | 1 | 88 | 0 |
| 4 | g12287.t28 | SUPERFAMILY | SSF54980 | EF-G C-terminal domain-like | 2 | 116 | 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.
