General information for g5201.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g5201 is located on chr_2: 7629913..7631991 (+ 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 | g5201 | g5201.t3 | TSS | g5201.t3 | 7627601 | 7627601 |
| chr_2 | g5201 | g5201.t3 | isoform | g5201.t3 | 7628621 | 7629164 |
| chr_2 | g5201 | g5201.t3 | exon | g5201.t3.exon1 | 7628621 | 7629164 |
| chr_2 | g5201 | g5201.t3 | cds | g5201.t3.CDS1 | 7628690 | 7629163 |
| chr_2 | g5201 | g5201.t3 | TTS | g5201.t3 | 7629844 | 7629844 |
Sequences
>g5201.t3 Gene=g5201 Length=544
GCATGTGGCAATAAACAACTTGCTGCTAGCTACTACATTGAGGCGTTCAAGTTAAATCCA
AAAGTTGGAATGCCACATAATCAACTTGGAACATTGTTGTCTGGTGAAAATTATGAGATT
GATTCAATTTTTCACTATCTTTATTCACTTTGTTCACCTATTCCCGTTGAATTGAGTGAA
GCAAATGTCAGCAAAATTTTTCAACAAAATAACGAAATGCTTGTCACTATAGAGCCTTCT
TGCGATGGATTTAACATTCGAGACTTTATGATGCAAGTTATTCTTCTCATTGACATTTTT
TTCTACGATAAAGAAATTGTTGACTTTAATTCGATCTGCTTTAGTGTTCTTTTGAATTTT
AAAGATTATTTAATCAAATGCAATCGCAACTCACAATCTGATGTTACTTTTCAACTTACA
TCAATCTTTATGCTTTGCTTATTAAAGCTCAAACGAAATAATTCTCCAAAGGTTCAGTGC
TTGAATGCCTTTCTTGTAGCATTTTGTGCAAAAATTGTTGATATTGTCATTGAGAAAATT
GACG
>g5201.t3 Gene=g5201 Length=158
MPHNQLGTLLSGENYEIDSIFHYLYSLCSPIPVELSEANVSKIFQQNNEMLVTIEPSCDG
FNIRDFMMQVILLIDIFFYDKEIVDFNSICFSVLLNFKDYLIKCNRNSQSDVTFQLTSIF
MLCLLKLKRNNSPKVQCLNAFLVAFCAKIVDIVIEKID
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g5201.t3 | Gene3D | G3DSA:1.25.40.10 | - | 1 | 49 | 0 |
| 2 | g5201.t3 | PANTHER | PTHR15696:SF7 | PROTEIN SMG5 | 1 | 157 | 0 |
| 3 | g5201.t3 | PANTHER | PTHR15696 | SMG-7 SUPPRESSOR WITH MORPHOLOGICAL EFFECT ON GENITALIA PROTEIN 7 | 1 | 157 | 0 |
| 1 | g5201.t3 | Pfam | PF10373 | Est1 DNA/RNA binding domain | 1 | 157 | 0 |
| 4 | g5201.t3 | SUPERFAMILY | SSF48452 | TPR-like | 1 | 149 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5201/g5201.t3; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5201.t3.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005515 | protein binding | MF |
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