General information for g7938.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g7938 is located on chr_2: 27125964..27126425 (- 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 | g7938 | g7938.t3 | TTS | g7938.t3 | 27125709 | 27125709 |
| chr_2 | g7938 | g7938.t3 | isoform | g7938.t3 | 27125964 | 27126425 |
| chr_2 | g7938 | g7938.t3 | exon | g7938.t3.exon1 | 27125964 | 27125971 |
| chr_2 | g7938 | g7938.t3 | cds | g7938.t3.CDS1 | 27125964 | 27125971 |
| chr_2 | g7938 | g7938.t3 | exon | g7938.t3.exon2 | 27126086 | 27126425 |
| chr_2 | g7938 | g7938.t3 | cds | g7938.t3.CDS2 | 27126086 | 27126425 |
| chr_2 | g7938 | g7938.t3 | TSS | g7938.t3 | 27126507 | 27126507 |
Sequences
>g7938.t3 Gene=g7938 Length=348
ATGGTTGTTAAAAATAGTGACATTAATCAGATGGGAAATTTAGTTAAGAAGGCGTTAGTA
CAAGCGAAAATTGAAGACCGGTTGATTTTGGGACTATCACAGATTGTAAAATGTTTAATG
GAAGGTTTTATGGATATTCCGACTATTTGTCTTATGGCACCACCTAAACAAGGCGATGTA
GCAACTCACATGCAAGAAGTGCTGCTGCAAGCCTTCTGCCTGGAAAATGGAATCTATATC
TTGCATCTTGATAGCGCTGAGAAAATTAGCAGAATTTTGAGAGCATCAACAGTCGAATCT
TGTGCACTCATCTTTGCAAATCCATCTGGAAATAGTGAAAATAAATGA
>g7938.t3 Gene=g7938 Length=115
MVVKNSDINQMGNLVKKALVQAKIEDRLILGLSQIVKCLMEGFMDIPTICLMAPPKQGDV
ATHMQEVLLQAFCLENGIYILHLDSAEKISRILRASTVESCALIFANPSGNSENK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g7938.t3 | Gene3D | G3DSA:3.30.1330.30 | - | 2 | 115 | 0.00e+00 |
| 2 | g7938.t3 | PANTHER | PTHR10411 | GROWTH ARREST AND DNA DAMAGE-INDUCIBLE PROTEIN GADD45 | 8 | 109 | 0.00e+00 |
| 3 | g7938.t3 | PANTHER | PTHR10411:SF8 | FI09246P | 8 | 109 | 0.00e+00 |
| 1 | g7938.t3 | Pfam | PF01248 | Ribosomal protein L7Ae/L30e/S12e/Gadd45 family | 15 | 105 | 1.00e-07 |
| 4 | g7938.t3 | SUPERFAMILY | SSF55315 | L30e-like | 12 | 109 | 1.67e-05 |
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:0005634 | nucleus | CC |
| GO:0051726 | regulation of cell cycle | BP |
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.
