General information for g4493.t17
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g4493 is located on chr_2: 2885790..2886452 (- 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 | g4493 | g4493.t17 | TTS | g4493.t17 | 2885280 | 2885280 |
| chr_2 | g4493 | g4493.t17 | isoform | g4493.t17 | 2885341 | 2886452 |
| chr_2 | g4493 | g4493.t17 | exon | g4493.t17.exon1 | 2885341 | 2885627 |
| chr_2 | g4493 | g4493.t17 | cds | g4493.t17.CDS1 | 2885487 | 2885627 |
| chr_2 | g4493 | g4493.t17 | exon | g4493.t17.exon2 | 2885683 | 2885769 |
| chr_2 | g4493 | g4493.t17 | cds | g4493.t17.CDS2 | 2885683 | 2885769 |
| chr_2 | g4493 | g4493.t17 | exon | g4493.t17.exon3 | 2885828 | 2886452 |
| chr_2 | g4493 | g4493.t17 | cds | g4493.t17.CDS3 | 2885828 | 2886283 |
| chr_2 | g4493 | g4493.t17 | TSS | g4493.t17 | 2886450 | 2886450 |
Sequences
>g4493.t17 Gene=g4493 Length=999
ATGAGTGGCATTGAACAATTGGTCGAAATGGGTTTTCCAAGAGATAGAGCGTAAGTTTAG
CGTACTTTTCAATATAATAATATGTTTTTGAATTGAAAAAAAAATGTAAAAATATTTATT
TTACAGAGAAAAGGCATTAAGTTGCAATAATAATAATGTAGAACAAGCAATGGAATGGTT
GTTAGTTCATAGTGAGGATGATATGTCAAATGTTAATCCTCCAAATGAACCTAAGCCATT
GGAAATAAAAAATGATGAGTCATCAAATGAACCTGCAGCAAATGCTACCACAAGTGAATC
TGATCAAGCAATACCGCAAGAAGCAAAGAGTATTAAGTGTGAAGACTGTGGTAAACTCTT
CAAAACTACAATCGAAATAGAATTTCATGCAGCAAAATCTGGACATAGCAATTTCTCAGA
ATCTACAGAAGAGAAGAAACCATTGACAGAAGAGGAGAAGAAAGCTCAATTAGCACAACT
AGAAGAAAGAATAAAGGCTAAACGTTTGGAACGAGAAGAACGTGAAAAACAAGAAGCATT
AGAAAAGGAGCGGTTAAGAATTAAGAGTGGTAAAGATATGAGTGAAGCTCGACGCAAATT
GGAAGAAGAAGAAATGAAAAAGATTGTAGAACAAAGAAAACGAGAAAAACAAGAAGAGAA
AATTGCTAGAGAACGAGTTAAGGCTCAAATTGAAGCAGATAAGGCAGCACGATTCAAACA
CCACAAGTTACACCTCCACCAAAAGATTACAAAGAAACAAAAATACAGATTCGTTTGCCC
AATGGTTCAACACTTGTTGAAACATTCGATAAAAGAGAGCAACTATCGGCTGTTAGATTG
TTTATACAATTAAAGCAAGGTGATGAACCTGGAACTTTCCCATTTGGCATGATGACAAAC
TTTCCACGTAAAGTTTTCACTGAAGAAGACTATGAAAAAAGCTTAGATGAACTAAAACTT
GTTCCATCAGCAGTTATTATTGTCACAAAGACTGCATAA
>g4493.t17 Gene=g4493 Length=227
MEWLLVHSEDDMSNVNPPNEPKPLEIKNDESSNEPAANATTSESDQAIPQEAKSIKCEDC
GKLFKTTIEIEFHAAKSGHSNFSESTEEKKPLTEEEKKAQLAQLEERIKAKRLEREEREK
QEALEKERLRIKSGKDMSEARRKLEEEEMKKIVEQRKREKQEEKIARERVKAQIEADKAA
RFKHHKLHLHQKITKKQKYRFVCPMVQHLLKHSIKESNYRLLDCLYN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g4493.t17 | Coils | Coil | Coil | 94 | 130 | - |
| 8 | g4493.t17 | Coils | Coil | Coil | 135 | 173 | - |
| 3 | g4493.t17 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 54 | - |
| 5 | g4493.t17 | MobiDBLite | mobidb-lite | consensus disorder prediction | 31 | 49 | - |
| 4 | g4493.t17 | MobiDBLite | mobidb-lite | consensus disorder prediction | 75 | 99 | - |
| 6 | g4493.t17 | MobiDBLite | mobidb-lite | consensus disorder prediction | 82 | 99 | - |
| 1 | g4493.t17 | PANTHER | PTHR46340 | UBX DOMAIN-CONTAINING PROTEIN 1 | 1 | 187 | 2.1E-57 |
| 2 | g4493.t17 | ProSitePatterns | PS00028 | Zinc finger C2H2 type domain signature. | 57 | 79 | - |
| 9 | g4493.t17 | ProSiteProfiles | PS50157 | Zinc finger C2H2 type domain profile. | 55 | 84 | 8.663 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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