General information for g6257.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g6257 is located on chr_2: 15637351..15638792 (- 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 | g6257 | g6257.t1 | isoform | g6257.t1 | 15637247 | 15638316 |
| chr_2 | g6257 | g6257.t1 | exon | g6257.t1.exon1 | 15637247 | 15637548 |
| chr_2 | g6257 | g6257.t1 | cds | g6257.t1.CDS1 | 15637247 | 15637548 |
| chr_2 | g6257 | g6257.t1 | TTS | g6257.t1 | 15637386 | 15637386 |
| chr_2 | g6257 | g6257.t1 | exon | g6257.t1.exon2 | 15638169 | 15638316 |
| chr_2 | g6257 | g6257.t1 | cds | g6257.t1.CDS2 | 15638169 | 15638316 |
| chr_2 | g6257 | g6257.t1 | TSS | g6257.t1 | 15638792 | 15638792 |
Sequences
>g6257.t1 Gene=g6257 Length=450
ATGTCTGCTTCACCTATTGCAAGACAAGCACATTCGCATGCTCAATTGATTCCTGCCATG
AGGAAAGTTTTAATTAACGATGCATCTCAAATGCCTGATGTATACTCTTCTACACCTAAT
GGAACAATTTACTCCACAACACCGAATGGTACTAAAATTGTCTATGAACGAACCTTCCTT
TTAAACTTGAGAAACTCGCCATTGAGTCATACACCGCCCAAAAATGTTCCTTGCCATTTA
ATGAAAGACGATAATAGTCCTTTTCATAATCATAATCATCAAAATCAAATGAATGGAACT
TATCATCCACCAAAAAATAATCATCACAATAATCATCATCAAAAAGCTAGTAATAACAAC
AAAAATGCCAATAATTCAAGCAATGAGTGGCGACGACCATCAGCAGCATCAGCCGCATCT
GATGACCATCAATTCGATATGGACATGTAA
>g6257.t1 Gene=g6257 Length=149
MSASPIARQAHSHAQLIPAMRKVLINDASQMPDVYSSTPNGTIYSTTPNGTKIVYERTFL
LNLRNSPLSHTPPKNVPCHLMKDDNSPFHNHNHQNQMNGTYHPPKNNHHNNHHQKASNNN
KNANNSSNEWRRPSAASAASDDHQFDMDM
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g6257.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 84 | 149 | - |
| 4 | g6257.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 90 | 105 | - |
| 5 | g6257.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 116 | 134 | - |
| 2 | g6257.t1 | PANTHER | PTHR12669 | EUKARYOTIC TRANSLATION INITIATION FACTOR 4E-BINDING PROTEIN | 1 | 148 | 6.0E-26 |
| 3 | g6257.t1 | PANTHER | PTHR12669:SF12 | 4E-BINDING PROTEIN THOR | 1 | 148 | 6.0E-26 |
| 1 | g6257.t1 | Pfam | PF05456 | Eukaryotic translation initiation factor 4E binding protein (EIF4EBP) | 3 | 149 | 3.1E-36 |
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:0008190 | eukaryotic initiation factor 4E binding | MF |
| GO:0045947 | negative regulation of translational initiation | BP |
KEGG
Orthology
- This transcript has been annotated with K18644 (eukaryotic translation initiation factor 4E binding protein 2)
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.
