Gene loci information

Transcript annotation

  • This transcript has been annotated as Elongation factor 2.

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 g12287 g12287.t18 TSS g12287.t18 22169311 22169311
chr_1 g12287 g12287.t18 isoform g12287.t18 22169848 22172062
chr_1 g12287 g12287.t18 exon g12287.t18.exon1 22169848 22170044
chr_1 g12287 g12287.t18 cds g12287.t18.CDS1 22169860 22170044
chr_1 g12287 g12287.t18 exon g12287.t18.exon2 22170108 22170301
chr_1 g12287 g12287.t18 cds g12287.t18.CDS2 22170108 22170301
chr_1 g12287 g12287.t18 exon g12287.t18.exon3 22170545 22171372
chr_1 g12287 g12287.t18 cds g12287.t18.CDS3 22170545 22171372
chr_1 g12287 g12287.t18 exon g12287.t18.exon4 22171753 22172062
chr_1 g12287 g12287.t18 cds g12287.t18.CDS4 22171753 22171802
chr_1 g12287 g12287.t18 TTS g12287.t18 NA NA

Sequences

>g12287.t18 Gene=g12287 Length=1529
GAAATCCGTGCTATGATGGACAAGAAGAAGAACATCCGTAATATGTCTGTCATTGCTCAT
GTCGATCACGGAAAATCTACTTTAACTGATTCGTTGGTTTCAAAAGCTGGTATTATTGCT
GGTGCAAAAGCTGGTGAAACAAGATTCACAGACACACGCAAGGATGAACAAGAAAGATGT
ATCACAATTAAGTCAACTGCTATCTCTATGTTCTTTGAGTTAGAAGACAAAGATTTGGTT
TTCATTACAAATCCTGATCAACGTGACAAAGAAGAAAAAGGTTTCTTGATTAATTTGATT
GACTCACCCGGTCACGTTGATTTCTCATCAGAAGTCACAGCCGCTCTTCGTGTTACTGAT
GGTGCTCTTGTTGTTGTCGATTGCGTATCAGGTGTTTGTGTACAAACTGAGACTGTATTG
CGTCAAGCTATTGCCGAACGTATTAAGCCAGTTTTGTTCATGAACAAGATGGACCGTGCT
TTGTTGGAATTGCAATTGGATGCTGAAGATTTGTACCAAACATTCCAACGTATCGTCGAA
AACGTCAACGTTATCATCGCCACTTACAGCGATGACGATGGTCCAATGGGAGAAGTTCGT
GTTGATCCATCAAAGGGTTCAGTCGGTTTCGGTTCCGGCTTGCACGGATGGGCTTTCACT
CTCAAACAATTTTCGGAAATGTATGCAGCTAAATTCAAGATCGATGTCGTTAAACTCATG
AATCGCTTATGGGGTGAAAATTTCTTCAATGCAAAGACCAAGAAATGGGCAAAGACAAAG
GACGATGATAACAAGCGTTCATTTGTCATGTATGTATTGGATCCAATTTATAAGGTATTC
GATGTCATTATGAATTACAAGAAAGAAGAAATTCCTGGCTTATTGGAGAAAATCGGAGTC
ACACTCAAGCACGAAGACAAAGATAAGGATGGTAAACAATTATTGAAAGTTGTCATGCGC
TCATGGTTGCCAGCTGGTGAAGCTTTACTTCAAATGATTGCTATTCACTTGCCTTCACCA
GTCGTCGCTCAAAAATACCGTATGGAAATGTTGTATGAGGGACCACTCGATGACGAGGCT
GCCGTTGCTGTCAAGAACTGCGATCCAAATGGTCCATTGATGATGTACGTCTCAAAAATG
GTACCAACCAGTGACAAGGGTCGTTTCTATGCTTTCGGACGTGTGTTCTCCGGAAAAGTT
CAAACTGGTCAAAAATGCCGTCATGAAATTTTCAGTTTCACCTGTCGTGCGTGTTGCTGT
CGAGCCTAAAAATCCAGCTGATTTGCCCAAACTCGTCGAAGGTCTTAAGCGTTTGGCTAA
ATCCGATCCTATGGTACAATGTATCATTGAAGAATCTGGCGAACATATTATTGCTGGTGC
TGGTGAATTGCATTTGGAAATTTGCTTGAAGGACTTGGAAGAAGATCACGCTTGTATCCC
ATTGAAGAAATCCGATCCAGTTGTATCGTATCGTGAAACAGTCTCTGATGAATCATCCAT
GATGTGTTTATCAAAATCACCAAACAAGC

>g12287.t18 Gene=g12287 Length=418
MMDKKKNIRNMSVIAHVDHGKSTLTDSLVSKAGIIAGAKAGETRFTDTRKDEQERCITIK
STAISMFFELEDKDLVFITNPDQRDKEEKGFLINLIDSPGHVDFSSEVTAALRVTDGALV
VVDCVSGVCVQTETVLRQAIAERIKPVLFMNKMDRALLELQLDAEDLYQTFQRIVENVNV
IIATYSDDDGPMGEVRVDPSKGSVGFGSGLHGWAFTLKQFSEMYAAKFKIDVVKLMNRLW
GENFFNAKTKKWAKTKDDDNKRSFVMYVLDPIYKVFDVIMNYKKEEIPGLLEKIGVTLKH
EDKDKDGKQLLKVVMRSWLPAGEALLQMIAIHLPSPVVAQKYRMEMLYEGPLDDEAAVAV
KNCDPNGPLMMYVSKMVPTSDKGRFYAFGRVFSGKVQTGQKCRHEIFSFTCRACCCRA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g12287.t18 CDD cd01885 EF2 9 225 6.72277E-125
11 g12287.t18 Gene3D G3DSA:3.40.50.300 - 2 335 1.1E-162
12 g12287.t18 Gene3D G3DSA:2.40.30.10 Translation factors 38 403 1.1E-162
13 g12287.t18 Gene3D G3DSA:3.90.1430.10 Yeast translation eEF2 (G’ domain) 217 319 1.1E-162
2 g12287.t18 PANTHER PTHR42908:SF29 EUKARYOTIC TRANSLATION ELONGATION FACTOR 2A, TANDEM DUPLICATE 1-RELATED 1 404 9.8E-206
3 g12287.t18 PANTHER PTHR42908 TRANSLATION ELONGATION FACTOR-RELATED 1 404 9.8E-206
7 g12287.t18 PRINTS PR00315 GTP-binding elongation factor signature 10 23 2.0E-14
6 g12287.t18 PRINTS PR00315 GTP-binding elongation factor signature 54 62 2.0E-14
8 g12287.t18 PRINTS PR00315 GTP-binding elongation factor signature 94 104 2.0E-14
5 g12287.t18 PRINTS PR00315 GTP-binding elongation factor signature 110 121 2.0E-14
4 g12287.t18 PRINTS PR00315 GTP-binding elongation factor signature 146 155 2.0E-14
1 g12287.t18 Pfam PF00009 Elongation factor Tu GTP binding domain 6 334 1.3E-67
15 g12287.t18 ProSitePatterns PS00301 Translational (tr)-type guanine nucleotide-binding (G) domain signature. 47 62 -
17 g12287.t18 ProSiteProfiles PS51722 Translational (tr)-type guanine nucleotide-binding (G) domain profile. 6 337 54.195
9 g12287.t18 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 1 334 2.1E-109
10 g12287.t18 SUPERFAMILY SSF50447 Translation proteins 335 404 6.8E-21
16 g12287.t18 TIGRFAM TIGR00231 small_GTP: small GTP-binding protein domain 8 157 1.3E-18

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
GO:0003924 GTPase activity 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. There were no conditions that were differentially expressed