General information for g4234.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g4234 is located on chr_2: 506233..508625 (+ 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 | g4234 | g4234.t1 | isoform | g4234.t1 | 506233 | 508625 |
| chr_2 | g4234 | g4234.t1 | exon | g4234.t1.exon1 | 506233 | 506248 |
| chr_2 | g4234 | g4234.t1 | cds | g4234.t1.CDS1 | 506233 | 506248 |
| chr_2 | g4234 | g4234.t1 | exon | g4234.t1.exon2 | 508264 | 508625 |
| chr_2 | g4234 | g4234.t1 | cds | g4234.t1.CDS2 | 508264 | 508625 |
| chr_2 | g4234 | g4234.t1 | TSS | g4234.t1 | NA | NA |
| chr_2 | g4234 | g4234.t1 | TTS | g4234.t1 | NA | NA |
Sequences
>g4234.t1 Gene=g4234 Length=378
ATGTTTTGTCATTTTGATCCACACTTTTTAAATGAGCTGACGATCGAGCGATTAAAAGCG
CAACATCAGCTTCAACAACAGCAACAACAAGCGGGAATATCAGAAGCTGGAAACAAACTC
GATGATATAAACCATCAGCATCAACTTGGAATGACAAATTTAAGCGAAGGAATGATATCT
GATCATAGTGACAATGAAACAATGAAAAAATTGGAACATGATCCTCATCGCAAGAGAAAG
CAACGTCGTTATCGAACAACATTTACAAGCGTGCAGTTGGAAGAGCTTGAGAAGGCGTTC
TTGCGTACACATTATCCCGATGTATTTGTCAGGCAAGTGATAATTATAATGAGATTCACT
TTTTTGGTTTACATTTAA
>g4234.t1 Gene=g4234 Length=125
MFCHFDPHFLNELTIERLKAQHQLQQQQQQAGISEAGNKLDDINHQHQLGMTNLSEGMIS
DHSDNETMKKLEHDPHRKRKQRRYRTTFTSVQLEELEKAFLRTHYPDVFVRQVIIIMRFT
FLVYI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g4234.t1 | CDD | cd00086 | homeodomain | 82 | 112 | 2.36443E-7 |
| 6 | g4234.t1 | Coils | Coil | Coil | 10 | 30 | - |
| 5 | g4234.t1 | Gene3D | G3DSA:1.10.10.60 | - | 66 | 116 | 7.5E-13 |
| 2 | g4234.t1 | PANTHER | PTHR24329:SF551 | FI01017P-RELATED | 35 | 112 | 8.7E-20 |
| 3 | g4234.t1 | PANTHER | PTHR24329 | HOMEOBOX PROTEIN ARISTALESS | 35 | 112 | 8.7E-20 |
| 1 | g4234.t1 | Pfam | PF00046 | Homeodomain | 82 | 113 | 2.6E-7 |
| 4 | g4234.t1 | SUPERFAMILY | SSF46689 | Homeodomain-like | 71 | 114 | 4.11E-10 |
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:0003677 | DNA 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