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.t8 TSS g12287.t8 22169311 22169311
chr_1 g12287 g12287.t8 isoform g12287.t8 22169380 22172062
chr_1 g12287 g12287.t8 exon g12287.t8.exon1 22169380 22170044
chr_1 g12287 g12287.t8 cds g12287.t8.CDS1 22169860 22170044
chr_1 g12287 g12287.t8 exon g12287.t8.exon2 22170108 22170301
chr_1 g12287 g12287.t8 cds g12287.t8.CDS2 22170108 22170301
chr_1 g12287 g12287.t8 exon g12287.t8.exon3 22170545 22171575
chr_1 g12287 g12287.t8 cds g12287.t8.CDS3 22170545 22171575
chr_1 g12287 g12287.t8 exon g12287.t8.exon4 22171753 22172062
chr_1 g12287 g12287.t8 cds g12287.t8.CDS4 22171753 22172061
chr_1 g12287 g12287.t8 TTS g12287.t8 NA NA

Sequences

>g12287.t8 Gene=g12287 Length=2200
ATGGTAAGCAGCTTTAATTTATATTCTAATTAATCGTAAATTGAAAGAGATCATCAGGAT
GAACATTTTGGTGTATTAAAGTGTTGTGAAAATAAGAAATTACAGTCAATAATTGCAAAA
ATAAAATGGATCAAGATAATTGCGATCAAATCCAAATTTCGGTTTTCTGTAATGGCGCTT
ATAAGAATGAATGAAAATATATAATTGTTTATTTGTTATACAATAGAATGAATGAGTAAG
GATTTATGCAAAATATATTTAATTTATTTTAATAATGTAATTTTAAGAAAAAAAAATTTC
ACAGCATTTTGAAATCGCCATGATGTTGGATATAAGAAAAGAAAATGTGTGTCACTGTAT
TAAAAATAAAGAGACCTGATGATTTTAAAATGTAGAAAAATTGATTTTCTGAGAAATTAT
TAATTTATGATTATTCGATTTTCTTTACAGGTCAACTTTACTGTCGACGAAATCCGTGCT
ATGATGGACAAGAAGAAGAACATCCGTAATATGTCTGTCATTGCTCATGTCGATCACGGA
AAATCTACTTTAACTGATTCGTTGGTTTCAAAAGCTGGTATTATTGCTGGTGCAAAAGCT
GGTGAAACAAGATTCACAGACACACGCAAGGATGAACAAGAAAGATGTATCACAATTAAG
TCAACTGCTATCTCTATGTTCTTTGAGTTAGAAGACAAAGATTTGGTTTTCATTACAAAT
CCTGATCAACGTGACAAAGAAGAAAAAGGTTTCTTGATTAATTTGATTGACTCACCCGGT
CACGTTGATTTCTCATCAGAAGTCACAGCCGCTCTTCGTGTTACTGATGGTGCTCTTGTT
GTTGTCGATTGCGTATCAGGTGTTTGTGTACAAACTGAGACTGTATTGCGTCAAGCTATT
GCCGAACGTATTAAGCCAGTTTTGTTCATGAACAAGATGGACCGTGCTTTGTTGGAATTG
CAATTGGATGCTGAAGATTTGTACCAAACATTCCAACGTATCGTCGAAAACGTCAACGTT
ATCATCGCCACTTACAGCGATGACGATGGTCCAATGGGAGAAGTTCGTGTTGATCCATCA
AAGGGTTCAGTCGGTTTCGGTTCCGGCTTGCACGGATGGGCTTTCACTCTCAAACAATTT
TCGGAAATGTATGCAGCTAAATTCAAGATCGATGTCGTTAAACTCATGAATCGCTTATGG
GGTGAAAATTTCTTCAATGCAAAGACCAAGAAATGGGCAAAGACAAAGGACGATGATAAC
AAGCGTTCATTTGTCATGTATGTATTGGATCCAATTTATAAGGTATTCGATGTCATTATG
AATTACAAGAAAGAAGAAATTCCTGGCTTATTGGAGAAAATCGGAGTCACACTCAAGCAC
GAAGACAAAGATAAGGATGGTAAACAATTATTGAAAGTTGTCATGCGCTCATGGTTGCCA
GCTGGTGAAGCTTTACTTCAAATGATTGCTATTCACTTGCCTTCACCAGTCGTCGCTCAA
AAATACCGTATGGAAATGTTGTATGAGGGACCACTCGATGACGAGGCTGCCGTTGCTGTC
AAGAACTGCGATCCAAATGGTCCATTGATGATGTACGTCTCAAAAATGGTACCAACCAGT
GACAAGGGTCGTTTCTATGCTTTCGGACGTGTGTTCTCCGGAAAAGTTCAAACTGGTCAA
AAATGCCGTATAATGGGACCAAATTACACACCTGGCAAGAAGGAAGACTTGTACGAAAAA
TCAATTCAACGTACTATTTTGATGATGGGTCGTTATGTTGAAGCCATTGAAGATGTTCCA
TGCGGTAACATTTGCGGTTTGGTTGGTGTTGATCAATTCTTGGTCAAGACTGGAACAATC
ACAACATTCAAAGATGCCCATAACATGAAGGTCATGAAATTTTCAGTTTCACCTGTCGTG
CGTGTTGCTGTCGAGCCTAAAAATCCAGCTGATTTGCCCAAACTCGTCGAAGGTCTTAAG
CGTTTGGCTAAATCCGATCCTATGGTACAATGTATCATTGAAGAATCTGGCGAACATATT
ATTGCTGGTGCTGGTGAATTGCATTTGGAAATTTGCTTGAAGGACTTGGAAGAAGATCAC
GCTTGTATCCCATTGAAGAAATCCGATCCAGTTGTATCGTATCGTGAAACAGTCTCTGAT
GAATCATCCATGATGTGTTTATCAAAATCACCAAACAAGC

>g12287.t8 Gene=g12287 Length=573
MMDKKKNIRNMSVIAHVDHGKSTLTDSLVSKAGIIAGAKAGETRFTDTRKDEQERCITIK
STAISMFFELEDKDLVFITNPDQRDKEEKGFLINLIDSPGHVDFSSEVTAALRVTDGALV
VVDCVSGVCVQTETVLRQAIAERIKPVLFMNKMDRALLELQLDAEDLYQTFQRIVENVNV
IIATYSDDDGPMGEVRVDPSKGSVGFGSGLHGWAFTLKQFSEMYAAKFKIDVVKLMNRLW
GENFFNAKTKKWAKTKDDDNKRSFVMYVLDPIYKVFDVIMNYKKEEIPGLLEKIGVTLKH
EDKDKDGKQLLKVVMRSWLPAGEALLQMIAIHLPSPVVAQKYRMEMLYEGPLDDEAAVAV
KNCDPNGPLMMYVSKMVPTSDKGRFYAFGRVFSGKVQTGQKCRIMGPNYTPGKKEDLYEK
SIQRTILMMGRYVEAIEDVPCGNICGLVGVDQFLVKTGTITTFKDAHNMKVMKFSVSPVV
RVAVEPKNPADLPKLVEGLKRLAKSDPMVQCIIEESGEHIIAGAGELHLEICLKDLEEDH
ACIPLKKSDPVVSYRETVSDESSMMCLSKSPNK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
20 g12287.t8 CDD cd01885 EF2 9 225 2.08775E-122
19 g12287.t8 CDD cd03700 EF2_snRNP_like_II 369 463 3.01205E-55
18 g12287.t8 CDD cd16261 EF2_snRNP_III 478 549 1.5862E-42
14 g12287.t8 Gene3D G3DSA:3.40.50.300 - 2 335 6.8E-190
16 g12287.t8 Gene3D G3DSA:2.40.30.10 Translation factors 38 462 6.8E-190
17 g12287.t8 Gene3D G3DSA:3.90.1430.10 Yeast translation eEF2 (G’ domain) 217 319 6.8E-190
15 g12287.t8 Gene3D G3DSA:3.30.70.870 Elongation Factor G (Translational Gtpase) 476 553 8.5E-39
4 g12287.t8 PANTHER PTHR42908:SF29 EUKARYOTIC TRANSLATION ELONGATION FACTOR 2A, TANDEM DUPLICATE 1-RELATED 1 573 0.0
5 g12287.t8 PANTHER PTHR42908 TRANSLATION ELONGATION FACTOR-RELATED 1 573 0.0
9 g12287.t8 PRINTS PR00315 GTP-binding elongation factor signature 10 23 7.8E-14
8 g12287.t8 PRINTS PR00315 GTP-binding elongation factor signature 54 62 7.8E-14
10 g12287.t8 PRINTS PR00315 GTP-binding elongation factor signature 94 104 7.8E-14
7 g12287.t8 PRINTS PR00315 GTP-binding elongation factor signature 110 121 7.8E-14
6 g12287.t8 PRINTS PR00315 GTP-binding elongation factor signature 146 155 7.8E-14
3 g12287.t8 Pfam PF00009 Elongation factor Tu GTP binding domain 6 334 3.3E-67
2 g12287.t8 Pfam PF03144 Elongation factor Tu domain 2 386 460 2.2E-13
1 g12287.t8 Pfam PF14492 Elongation Factor G, domain III 478 539 9.8E-14
21 g12287.t8 ProSitePatterns PS00301 Translational (tr)-type guanine nucleotide-binding (G) domain signature. 47 62 -
23 g12287.t8 ProSiteProfiles PS51722 Translational (tr)-type guanine nucleotide-binding (G) domain profile. 6 337 54.195
11 g12287.t8 SUPERFAMILY SSF52540 P-loop containing nucleoside triphosphate hydrolases 1 334 5.44E-109
13 g12287.t8 SUPERFAMILY SSF50447 Translation proteins 335 472 3.31E-45
12 g12287.t8 SUPERFAMILY SSF54980 EF-G C-terminal domain-like 475 550 5.76E-21
22 g12287.t8 TIGRFAM TIGR00231 small_GTP: small GTP-binding protein domain 8 157 2.2E-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.

Raw TPM values