General information for g8897.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Elongation factor-like GTPase 1.
Parent gene
- The parent gene g8897 is located on chr_2: 33739000..33741491 (+ 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_2 | g8897 | g8897.t1 | TSS | g8897.t1 | 33738912 | 33738912 |
| chr_2 | g8897 | g8897.t1 | isoform | g8897.t1 | 33739000 | 33741491 |
| chr_2 | g8897 | g8897.t1 | exon | g8897.t1.exon1 | 33739000 | 33739126 |
| chr_2 | g8897 | g8897.t1 | cds | g8897.t1.CDS1 | 33739000 | 33739126 |
| chr_2 | g8897 | g8897.t1 | exon | g8897.t1.exon2 | 33739195 | 33741491 |
| chr_2 | g8897 | g8897.t1 | cds | g8897.t1.CDS2 | 33739195 | 33741491 |
| chr_2 | g8897 | g8897.t1 | TTS | g8897.t1 | NA | NA |
Sequences
>g8897.t1 Gene=g8897 Length=2424
ATGTCGCAACATTTAGAAAAACTCAAGAGTTTACAAAAGAATGTAAATAATATTAGAAAT
ATCTGTATTTTAGCACATATTGATCATGGAAAAACAACATTAGCAGATTATTTAATTGCA
AATAATGGAATAATATCAACACGAAATGCTGGTCCCATGAGATATTTGGACAATCGACCT
GATGAACAAGAGCGTAAAATTACAATGAAAGCTTCAAACATTTCGTTGTACTTTCAATCA
TCTAACAATTCTGAATATTTAATAAACCTTATCGATTCTCCTGGTCATGTAGATTTCTCA
TCTGAAACTTCTGCTGCTGTTCGTCTTTCTGATGGTGCAATTGTAGTAGTTGATGTCGTT
GAAGGTGTTTGTGCGCAAACAAGAACGATTCTTCAACAAGCTTATCAAGAAAATTTAAAA
CCAATTTTATTCCTTAACAAGATTGATCGCTTAATTCTTGAGAGAAACATGAGTACTGTA
GATGCAGAGGAGCATTTAAGAAGAGTCTTGGAACAAGTTAATGCTGTTATGGGAAATATT
TTTGCATCACATGTTCTCAAAGCTGAAGATACAACTACAGACAATCAACAATCAGCTCTT
GAAACTGCCGATGACTCGACATTATATTTTAATCCCATAGAGGAAAATGTAATCTTTGGA
TCAGCCCAAGACGGATGGGGCTTTAGTCTGCGCAAATTTGCAGAAATGTTTGCTCCTAAA
TTAAATCTAAAAGTAGATGATTTAAATAAAGCAATGTGGGGTGATTTCTTTTATAATACT
AAACATAAACGATGTGATTCTGGTGCATATTCAAAAGGAAAAAATTCAATATTTGTTCAA
ATGATTTTGGAAAATATTTGGACACTTTACAATAATGTAATGACAAGTGAACTTGATAAA
ATTTCTGCATTCTGTGAAAAACTAAAACTCAAATATCGACCACCAAAAACATCCTCATTC
AACAGAAAATCTATTCTTAAATCAATTTGTATGGAATGGTTGCCACTAGATAAATCAATT
TTAGAGAAAATTATTGAGCATGTTACAAGTCCTGCTGAAACATTCAATATGAAAATATCA
AATCTCATATCTGATAATTATACTACATCAGAGATTCAATTTTCTGATGATGATTCGTCA
AAAGTAATTGCTTTTATAGCAAAAATGGTGCCAATAACATATCACGAATTGAAAGCATGT
GATAGAGGATTAAGAGATATTGAAGATGAATATGATCCTGATGAACAAGTTTTGGTAGCA
TTTTGTCGAATCTATTGTGGTGTTTTAAGAGAAAATTCTCATGTACATTTAGTAAAACCT
AATTATAATCCTAAATTAAAGAATAAAGAAGAACTCGAACCAGTCGACATTAAAAGAATT
TATTTGATGATGGGACGAAATTTTGAACCAATAGAAGAAGCACATGCAGGAATGATTATT
GGCATTTGGGGACTACAAAAATATGTCATTAAAACTGGAACACTTTCATCATCTAAAGAT
TGTCCACCATTCGTTGGTTTAGATATACTTGCACCACCTGTTGTCAGGGTTGCTGTTGAA
CCTGCAAATATCGATGAAATGCCAAAACTCGTCAAAGGCCTGAAACTTCTTAATCAAGTC
GATTCATGTGTGCAAATTATGATACAAGAAACTGGAGAACACGTACTTTGCGTACTTGGT
GAAGTTCATTTAGAAAAGTGCATCAGAGATCTTACCGACAGTTATTCTAAAATTCAATTA
ATAAATTCAAAACCAATAGTTCAGTTCCGTGAAACAATCATTGATCCCGTTAACAAACCG
AAAGATTTAATCGATGATGAAAAATCTGCTATAATTAATGCAAGAGGCAAAACATGCACT
ATTAAAATGTTTGCATTCGCACTACCGCAATCGATTGTAAAATTTCTCGAACGTAACCGA
GAGCAGTTAAAAATGTTTATCAATAAGATAGAAGAAGAATCATCAGTAGTTGAGATGCTT
GATAATGATTTACGAAATTCACTTTCTAATGAAATAAATGAACATTTGCCATGCGAATTA
TTCACAGTTGATGACATTTGGAGTTTGGGACCAAAAAAATTAAGCACATGCATACTTGTA
AACAAGAGTGAATATAAGCATCTTAATTTTTGGTCATCTGAAGCAATAGCTGGACAATAT
GATCGAGCAATAATAAACGGTTTTCAAACTGCTGTTCAAGCTGGACCATTATGCCAAGAG
CCAATGCATGGAGTTGGTTTCATCATGCAGGAATTTCATATTGATGAGAGCATTGATAAA
CATGACAGCAGCATATCCGGAATCATTATAACATCTGTAAAAGATGCATGTCGCATCGCT
TTTCAAAAGCAACCGCAACGTCTTGTAGGACCGATGTATAATTTAAGCATAATTGCTAAC
GGCGATGTACTTGGTGAGTTATAG
>g8897.t1 Gene=g8897 Length=807
MSQHLEKLKSLQKNVNNIRNICILAHIDHGKTTLADYLIANNGIISTRNAGPMRYLDNRP
DEQERKITMKASNISLYFQSSNNSEYLINLIDSPGHVDFSSETSAAVRLSDGAIVVVDVV
EGVCAQTRTILQQAYQENLKPILFLNKIDRLILERNMSTVDAEEHLRRVLEQVNAVMGNI
FASHVLKAEDTTTDNQQSALETADDSTLYFNPIEENVIFGSAQDGWGFSLRKFAEMFAPK
LNLKVDDLNKAMWGDFFYNTKHKRCDSGAYSKGKNSIFVQMILENIWTLYNNVMTSELDK
ISAFCEKLKLKYRPPKTSSFNRKSILKSICMEWLPLDKSILEKIIEHVTSPAETFNMKIS
NLISDNYTTSEIQFSDDDSSKVIAFIAKMVPITYHELKACDRGLRDIEDEYDPDEQVLVA
FCRIYCGVLRENSHVHLVKPNYNPKLKNKEELEPVDIKRIYLMMGRNFEPIEEAHAGMII
GIWGLQKYVIKTGTLSSSKDCPPFVGLDILAPPVVRVAVEPANIDEMPKLVKGLKLLNQV
DSCVQIMIQETGEHVLCVLGEVHLEKCIRDLTDSYSKIQLINSKPIVQFRETIIDPVNKP
KDLIDDEKSAIINARGKTCTIKMFAFALPQSIVKFLERNREQLKMFINKIEEESSVVEML
DNDLRNSLSNEINEHLPCELFTVDDIWSLGPKKLSTCILVNKSEYKHLNFWSSEAIAGQY
DRAIINGFQTAVQAGPLCQEPMHGVGFIMQEFHIDESIDKHDSSISGIIITSVKDACRIA
FQKQPQRLVGPMYNLSIIANGDVLGEL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 24 | g8897.t1 | CDD | cd16268 | EF2_II | 382 | 498 | 1.84463E-22 |
| 23 | g8897.t1 | CDD | cd16261 | EF2_snRNP_III | 513 | 584 | 5.72645E-29 |
| 22 | g8897.t1 | CDD | cd01681 | aeEF2_snRNP_like_IV | 584 | 793 | 1.53189E-29 |
| 21 | g8897.t1 | Coils | Coil | Coil | 1 | 21 | - |
| 20 | g8897.t1 | Coils | Coil | Coil | 633 | 653 | - |
| 15 | g8897.t1 | Gene3D | G3DSA:3.40.50.300 | - | 13 | 350 | 3.6E-146 |
| 18 | g8897.t1 | Gene3D | G3DSA:2.40.30.10 | Translation factors | 48 | 497 | 3.6E-146 |
| 19 | g8897.t1 | Gene3D | G3DSA:3.90.1430.10 | Yeast translation eEF2 (G’ domain) | 230 | 334 | 3.6E-146 |
| 17 | g8897.t1 | Gene3D | G3DSA:3.30.70.870 | Elongation Factor G (Translational Gtpase) | 512 | 588 | 2.0E-28 |
| 16 | g8897.t1 | Gene3D | G3DSA:3.30.230.10 | - | 605 | 782 | 3.1E-12 |
| 4 | g8897.t1 | PANTHER | PTHR42908 | TRANSLATION ELONGATION FACTOR-RELATED | 11 | 806 | 3.5E-222 |
| 5 | g8897.t1 | PANTHER | PTHR42908:SF3 | ELONGATION FACTOR-LIKE GTPASE 1 | 11 | 806 | 3.5E-222 |
| 8 | g8897.t1 | PRINTS | PR00315 | GTP-binding elongation factor signature | 20 | 33 | 5.8E-13 |
| 7 | g8897.t1 | PRINTS | PR00315 | GTP-binding elongation factor signature | 64 | 72 | 5.8E-13 |
| 6 | g8897.t1 | PRINTS | PR00315 | GTP-binding elongation factor signature | 89 | 99 | 5.8E-13 |
| 9 | g8897.t1 | PRINTS | PR00315 | GTP-binding elongation factor signature | 105 | 116 | 5.8E-13 |
| 10 | g8897.t1 | PRINTS | PR00315 | GTP-binding elongation factor signature | 141 | 150 | 5.8E-13 |
| 3 | g8897.t1 | Pfam | PF00009 | Elongation factor Tu GTP binding domain | 17 | 284 | 1.5E-58 |
| 2 | g8897.t1 | Pfam | PF03144 | Elongation factor Tu domain 2 | 419 | 495 | 2.4E-9 |
| 1 | g8897.t1 | Pfam | PF14492 | Elongation Factor G, domain III | 511 | 575 | 5.5E-7 |
| 26 | g8897.t1 | ProSiteProfiles | PS51722 | Translational (tr)-type guanine nucleotide-binding (G) domain profile. | 16 | 248 | 50.27 |
| 12 | g8897.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 4 | 347 | 3.7E-85 |
| 14 | g8897.t1 | SUPERFAMILY | SSF50447 | Translation proteins | 210 | 504 | 1.11E-22 |
| 13 | g8897.t1 | SUPERFAMILY | SSF54980 | EF-G C-terminal domain-like | 511 | 585 | 2.41E-16 |
| 11 | g8897.t1 | SUPERFAMILY | SSF54211 | Ribosomal protein S5 domain 2-like | 587 | 788 | 6.32E-22 |
| 25 | g8897.t1 | TIGRFAM | TIGR00231 | small_GTP: small GTP-binding protein domain | 18 | 174 | 9.1E-19 |
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 transcript has been annotated with K14536 (ribosome assembly protein 1 [EC:3.6.5.-])
Pathway
- This transcript belongs to the following pathways
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.
