General information for g4493.t13
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.t13 | TTS | g4493.t13 | 2885280 | 2885280 |
| chr_2 | g4493 | g4493.t13 | isoform | g4493.t13 | 2885341 | 2886452 |
| chr_2 | g4493 | g4493.t13 | exon | g4493.t13.exon1 | 2885341 | 2885758 |
| chr_2 | g4493 | g4493.t13 | cds | g4493.t13.CDS1 | 2885726 | 2885758 |
| chr_2 | g4493 | g4493.t13 | exon | g4493.t13.exon2 | 2885828 | 2886452 |
| chr_2 | g4493 | g4493.t13 | cds | g4493.t13.CDS2 | 2885828 | 2886283 |
| chr_2 | g4493 | g4493.t13 | TSS | g4493.t13 | 2886450 | 2886450 |
Sequences
>g4493.t13 Gene=g4493 Length=1043
ATGAGTGGCATTGAACAATTGGTCGAAATGGGTTTTCCAAGAGATAGAGCGTAAGTTTAG
CGTACTTTTCAATATAATAATATGTTTTTGAATTGAAAAAAAAATGTAAAAATATTTATT
TTACAGAGAAAAGGCATTAAGTTGCAATAATAATAATGTAGAACAAGCAATGGAATGGTT
GTTAGTTCATAGTGAGGATGATATGTCAAATGTTAATCCTCCAAATGAACCTAAGCCATT
GGAAATAAAAAATGATGAGTCATCAAATGAACCTGCAGCAAATGCTACCACAAGTGAATC
TGATCAAGCAATACCGCAAGAAGCAAAGAGTATTAAGTGTGAAGACTGTGGTAAACTCTT
CAAAACTACAATCGAAATAGAATTTCATGCAGCAAAATCTGGACATAGCAATTTCTCAGA
ATCTACAGAAGAGAAGAAACCATTGACAGAAGAGGAGAAGAAAGCTCAATTAGCACAACT
AGAAGAAAGAATAAAGGCTAAACGTTTGGAACGAGAAGAACGTGAAAAACAAGAAGCATT
AGAAAAGGAGCGGTTAAGAATTAAGAGTGGTAAAGATATGAGTGAAGCTCGACGCAAATT
GGAAGAAGAAGAAATGAAAAAGATTAAAACGAGAAAAACAAGAAGAGAAAATTGCTAGAG
AACGAGTTAAGGCTCAAATTGAAGCAGATAAGGCAGCACGAAGAGCAAAAGCAGCAGGTC
AACCACCGTCAATATCAGAGCCAGTACAAGTACCAGTTCAAACACCACAAGTTACACCTC
CACCAAAAGATTACAAAGAAACAAAAATACAGATTCGTTTGCCCAATGGTTCAACACTTG
TTGAAACATTCGATAAAAGAGAGCAACTATCGGCTGTTAGATTGTTTATACAATTAAAGC
AAGGTGATGAACCTGGAACTTTCCCATTTGGCATGATGACAAACTTTCCACGTAAAGTTT
TCACTGAAGAAGACTATGAAAAAAGCTTAGATGAACTAAAACTTGTTCCATCAGCAGTTA
TTATTGTCACAAAGACTGCATAA
>g4493.t13 Gene=g4493 Length=162
MEWLLVHSEDDMSNVNPPNEPKPLEIKNDESSNEPAANATTSESDQAIPQEAKSIKCEDC
GKLFKTTIEIEFHAAKSGHSNFSESTEEKKPLTEEEKKAQLAQLEERIKAKRLEREEREK
QEALEKERLRIKSGKDMSEARRKLEEEEMKKIKTRKTRRENC
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g4493.t13 | Coils | Coil | Coil | 94 | 130 | - |
| 8 | g4493.t13 | Coils | Coil | Coil | 135 | 157 | - |
| 5 | g4493.t13 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 53 | - |
| 6 | g4493.t13 | MobiDBLite | mobidb-lite | consensus disorder prediction | 31 | 49 | - |
| 4 | g4493.t13 | MobiDBLite | mobidb-lite | consensus disorder prediction | 75 | 162 | - |
| 3 | g4493.t13 | MobiDBLite | mobidb-lite | consensus disorder prediction | 82 | 162 | - |
| 1 | g4493.t13 | PANTHER | PTHR46340 | UBX DOMAIN-CONTAINING PROTEIN 1 | 1 | 159 | 5.0E-43 |
| 2 | g4493.t13 | ProSitePatterns | PS00028 | Zinc finger C2H2 type domain signature. | 57 | 79 | - |
| 9 | g4493.t13 | 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