General information for g12287.t22
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.t22 | TSS | g12287.t22 | 22169829 | 22169829 |
| chr_1 | g12287 | g12287.t22 | isoform | g12287.t22 | 22170545 | 22172062 |
| chr_1 | g12287 | g12287.t22 | exon | g12287.t22.exon1 | 22170545 | 22171575 |
| chr_1 | g12287 | g12287.t22 | cds | g12287.t22.CDS1 | 22170613 | 22171575 |
| chr_1 | g12287 | g12287.t22 | exon | g12287.t22.exon2 | 22171753 | 22172062 |
| chr_1 | g12287 | g12287.t22 | cds | g12287.t22.CDS2 | 22171753 | 22172061 |
| chr_1 | g12287 | g12287.t22 | TTS | g12287.t22 | NA | NA |
Sequences
>g12287.t22 Gene=g12287 Length=1341
GTGTTTGTGTACAAACTGAGACTGTATTGCGTCAAGCTATTGCCGAACGTATTAAGCCAG
TTTTGTTCATGAACAAGATGGACCGTGCTTTGTTGGAATTGCAATTGGATGCTGAAGATT
TGTACCAAACATTCCAACGTATCGTCGAAAACGTCAACGTTATCATCGCCACTTACAGCG
ATGACGATGGTCCAATGGGAGAAGTTCGTGTTGATCCATCAAAGGGTTCAGTCGGTTTCG
GTTCCGGCTTGCACGGATGGGCTTTCACTCTCAAACAATTTTCGGAAATGTATGCAGCTA
AATTCAAGATCGATGTCGTTAAACTCATGAATCGCTTATGGGGTGAAAATTTCTTCAATG
CAAAGACCAAGAAATGGGCAAAGACAAAGGACGATGATAACAAGCGTTCATTTGTCATGT
ATGTATTGGATCCAATTTATAAGGTATTCGATGTCATTATGAATTACAAGAAAGAAGAAA
TTCCTGGCTTATTGGAGAAAATCGGAGTCACACTCAAGCACGAAGACAAAGATAAGGATG
GTAAACAATTATTGAAAGTTGTCATGCGCTCATGGTTGCCAGCTGGTGAAGCTTTACTTC
AAATGATTGCTATTCACTTGCCTTCACCAGTCGTCGCTCAAAAATACCGTATGGAAATGT
TGTATGAGGGACCACTCGATGACGAGGCTGCCGTTGCTGTCAAGAACTGCGATCCAAATG
GTCCATTGATGATGTACGTCTCAAAAATGGTACCAACCAGTGACAAGGGTCGTTTCTATG
CTTTCGGACGTGTGTTCTCCGGAAAAGTTCAAACTGGTCAAAAATGCCGTATAATGGGAC
CAAATTACACACCTGGCAAGAAGGAAGACTTGTACGAAAAATCAATTCAACGTACTATTT
TGATGATGGGTCGTTATGTTGAAGCCATTGAAGATGTTCCATGCGGTAACATTTGCGGTT
TGGTTGGTGTTGATCAATTCTTGGTCAAGACTGGAACAATCACAACATTCAAAGATGCCC
ATAACATGAAGGTCATGAAATTTTCAGTTTCACCTGTCGTGCGTGTTGCTGTCGAGCCTA
AAAATCCAGCTGATTTGCCCAAACTCGTCGAAGGTCTTAAGCGTTTGGCTAAATCCGATC
CTATGGTACAATGTATCATTGAAGAATCTGGCGAACATATTATTGCTGGTGCTGGTGAAT
TGCATTTGGAAATTTGCTTGAAGGACTTGGAAGAAGATCACGCTTGTATCCCATTGAAGA
AATCCGATCCAGTTGTATCGTATCGTGAAACAGTCTCTGATGAATCATCCATGATGTGTT
TATCAAAATCACCAAACAAGC
>g12287.t22 Gene=g12287 Length=424
MNKMDRALLELQLDAEDLYQTFQRIVENVNVIIATYSDDDGPMGEVRVDPSKGSVGFGSG
LHGWAFTLKQFSEMYAAKFKIDVVKLMNRLWGENFFNAKTKKWAKTKDDDNKRSFVMYVL
DPIYKVFDVIMNYKKEEIPGLLEKIGVTLKHEDKDKDGKQLLKVVMRSWLPAGEALLQMI
AIHLPSPVVAQKYRMEMLYEGPLDDEAAVAVKNCDPNGPLMMYVSKMVPTSDKGRFYAFG
RVFSGKVQTGQKCRIMGPNYTPGKKEDLYEKSIQRTILMMGRYVEAIEDVPCGNICGLVG
VDQFLVKTGTITTFKDAHNMKVMKFSVSPVVRVAVEPKNPADLPKLVEGLKRLAKSDPMV
QCIIEESGEHIIAGAGELHLEICLKDLEEDHACIPLKKSDPVVSYRETVSDESSMMCLSK
SPNK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g12287.t22 | CDD | cd03700 | EF2_snRNP_like_II | 220 | 314 | 0 |
| 11 | g12287.t22 | CDD | cd16261 | EF2_snRNP_III | 329 | 400 | 0 |
| 10 | g12287.t22 | Gene3D | G3DSA:3.90.1430.10 | Yeast translation eEF2 (G’ domain) | 68 | 170 | 0 |
| 9 | g12287.t22 | Gene3D | G3DSA:2.40.30.10 | Translation factors | 187 | 326 | 0 |
| 8 | g12287.t22 | Gene3D | G3DSA:3.30.70.870 | Elongation Factor G (Translational Gtpase) | 327 | 404 | 0 |
| 3 | g12287.t22 | PANTHER | PTHR42908:SF29 | EUKARYOTIC TRANSLATION ELONGATION FACTOR 2A, TANDEM DUPLICATE 1-RELATED | 1 | 424 | 0 |
| 4 | g12287.t22 | PANTHER | PTHR42908 | TRANSLATION ELONGATION FACTOR-RELATED | 1 | 424 | 0 |
| 2 | g12287.t22 | Pfam | PF03144 | Elongation factor Tu domain 2 | 237 | 311 | 0 |
| 1 | g12287.t22 | Pfam | PF14492 | Elongation Factor G, domain III | 329 | 390 | 0 |
| 5 | g12287.t22 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 1 | 185 | 0 |
| 7 | g12287.t22 | SUPERFAMILY | SSF50447 | Translation proteins | 186 | 323 | 0 |
| 6 | g12287.t22 | SUPERFAMILY | SSF54980 | EF-G C-terminal domain-like | 326 | 401 | 0 |
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:0005525 | GTP binding | 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.
