General information for g2176.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Eukaryotic translation initiation factor 5.
Parent gene
- The parent gene g2176 is located on chr_3: 15791791..15793413 (- 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_3 | g2176 | g2176.t1 | isoform | g2176.t1 | 15790775 | 15792124 |
| chr_3 | g2176 | g2176.t1 | exon | g2176.t1.exon1 | 15790775 | 15792124 |
| chr_3 | g2176 | g2176.t1 | cds | g2176.t1.CDS1 | 15790775 | 15792124 |
| chr_3 | g2176 | g2176.t1 | TSS | g2176.t1 | 15792685 | 15792685 |
| chr_3 | g2176 | g2176.t1 | TTS | g2176.t1 | NA | NA |
Sequences
>g2176.t1 Gene=g2176 Length=1350
ATGGGGACTTTGAATGTCAATCGTAATGTTACGGACTTGTATTATCGCTACAAGATGCCA
CGTATTTGTGCCAAAGTAGAAGGCAAGGGCAATGGCATTAAGACCGTTATTGTCAATATG
GCTGAAGTAGCTAAAGCACTCAATCGTCCTGCTACTTATCCAACTAAATACTTTGGTTGC
GAGCTTGGCGCTCAGACTCAATTCGATCATAAGAATGAACGTTTTATTGTCAATGGCTCG
CATGATGCATCAAAATTGCAAGATCTTCTTGATGGATTTATTCGCAAATATGTCTTGTGT
CCAGAATGCGACAATCCTGAGACCGATTTAATCATTGTTGCAAAGAAAGAGCAAATTTCG
CAAACTTGTAAAGCATGCGGTTTTCATGGATTGCTAAAAGTTCAGCATAAGGTGAATACT
TTTATCTTGAAAAATCCACCAACAATGAATCCAGCTGCACCAGGTGCATCTTTGACTGAG
GGAAAACGTTCTAAGCGCTCCAAGAAAGCTGAAGGTGATTCAAATCATGCTACAAATGGC
GATAGCTCAAAAGATTCCGATGATTTTCATACTAATAGCAAAATCACCAATAATGATAAT
GATGATGATGACGATGGTCAATGGACAACTGAGGTTAGTGAGGAAGCAGTTCGTGCTCGT
ATGTTGGATTTATCAGAGGGTGCAAAGAACATTACCATCTCTGAAGATACTGAAAAGACC
GAGAAGCAACGTATGGATATTTTCTACGAGTACGTAAAGAAACGTCGTGATACTGGTGAA
CTTGATAATATTCAAGCTCATAAGGAAATTCATAATGAAGCAACTCGTTTGGAAATCAAT
CAGAAGGCACCATTGATTCTCGCAGAATTGCTTTTCACTGAAAATATTACTGCTGAGATA
AAGAAACATCGAAATTTGTTGTTGCGCTTCACCCATGAAGATGAGAAAGCCCAAAAATAT
TTATTGGGTGGAGTTGAGCAGGTCATCGCTTTGCATGCTGCAAAATTGATTGATAAATCT
GCTGTCATTTTGAAATTGTTTTATGACACTGATTTGATAGATGAAAAGGTTATTTTAGAA
TGGGGTTCTAAAATCAGCAAAAAATATGTGTCAAAGGAAGTTGCTCAACAAATTCATGAT
AAGGCCGCACCATTTGTCAAATGGTTGAAGGAAGCAGAAGAAGAATCTGAGGACTCTGAA
GAGGAAGATGATGATGTTGAAATTGGCTTCGATGATCGTGCAAAGGTTGATTCGTTGTCA
AGCAATGCTGTTAAACCAGTAGCTCCTGTGAAGAAACCTATTGTCGATGATGACGAAGAT
GGAGAAGAGCTAGACATTGATAATATATAA
>g2176.t1 Gene=g2176 Length=449
MGTLNVNRNVTDLYYRYKMPRICAKVEGKGNGIKTVIVNMAEVAKALNRPATYPTKYFGC
ELGAQTQFDHKNERFIVNGSHDASKLQDLLDGFIRKYVLCPECDNPETDLIIVAKKEQIS
QTCKACGFHGLLKVQHKVNTFILKNPPTMNPAAPGASLTEGKRSKRSKKAEGDSNHATNG
DSSKDSDDFHTNSKITNNDNDDDDDGQWTTEVSEEAVRARMLDLSEGAKNITISEDTEKT
EKQRMDIFYEYVKKRRDTGELDNIQAHKEIHNEATRLEINQKAPLILAELLFTENITAEI
KKHRNLLLRFTHEDEKAQKYLLGGVEQVIALHAAKLIDKSAVILKLFYDTDLIDEKVILE
WGSKISKKYVSKEVAQQIHDKAAPFVKWLKEAEEESEDSEEEDDDVEIGFDDRAKVDSLS
SNAVKPVAPVKKPIVDDDEDGEELDIDNI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g2176.t1 | CDD | cd11561 | W2_eIF5 | 238 | 390 | 5.59221E-58 |
| 11 | g2176.t1 | Coils | Coil | Coil | 389 | 409 | - |
| 9 | g2176.t1 | Gene3D | G3DSA:3.30.30.50 | Translation initiation factor 2 beta | 23 | 99 | 3.5E-36 |
| 8 | g2176.t1 | Gene3D | G3DSA:2.20.25.350 | - | 100 | 145 | 1.3E-20 |
| 10 | g2176.t1 | Gene3D | G3DSA:1.25.40.180 | - | 237 | 414 | 2.0E-56 |
| 17 | g2176.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 145 | 188 | - |
| 16 | g2176.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 161 | 188 | - |
| 15 | g2176.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 430 | 449 | - |
| 3 | g2176.t1 | PANTHER | PTHR23001:SF22 | EUKARYOTIC TRANSLATION INITIATION FACTOR 5 | 4 | 420 | 4.0E-147 |
| 4 | g2176.t1 | PANTHER | PTHR23001 | EUKARYOTIC TRANSLATION INITIATION FACTOR | 4 | 420 | 4.0E-147 |
| 1 | g2176.t1 | Pfam | PF01873 | Domain found in IF2B/IF5 | 9 | 128 | 4.5E-40 |
| 2 | g2176.t1 | Pfam | PF02020 | eIF4-gamma/eIF5/eIF2-epsilon | 317 | 399 | 2.8E-20 |
| 18 | g2176.t1 | ProSiteProfiles | PS51363 | W2 domain profile. | 238 | 399 | 29.334 |
| 14 | g2176.t1 | SMART | SM00653 | eIF2Bneu4 | 14 | 129 | 6.2E-61 |
| 13 | g2176.t1 | SMART | SM00515 | 542_3 | 305 | 395 | 2.3E-30 |
| 5 | g2176.t1 | SUPERFAMILY | SSF100966 | Translation initiation factor 2 beta, aIF2beta, N-terminal domain | 5 | 100 | 2.35E-25 |
| 7 | g2176.t1 | SUPERFAMILY | SSF75689 | Zinc-binding domain of translation initiation factor 2 beta | 97 | 130 | 5.75E-6 |
| 6 | g2176.t1 | SUPERFAMILY | SSF48371 | ARM repeat | 240 | 393 | 3.17E-28 |
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:0006413 | translational initiation | BP |
| GO:0003743 | translation initiation factor activity | MF |
| GO:0005515 | protein binding | MF |
KEGG
Orthology
- This transcript has been annotated with K03262 (translation initiation factor 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.
