General information for g7936.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g7936 is located on chr_2: 27121493..27129576 (+ 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 | g7936 | g7936.t2 | isoform | g7936.t2 | 27119970 | 27121644 |
| chr_2 | g7936 | g7936.t2 | exon | g7936.t2.exon1 | 27119970 | 27120065 |
| chr_2 | g7936 | g7936.t2 | exon | g7936.t2.exon2 | 27121007 | 27121644 |
| chr_2 | g7936 | g7936.t2 | cds | g7936.t2.CDS1 | 27121297 | 27121644 |
| chr_2 | g7936 | g7936.t2 | TTS | g7936.t2 | 27121851 | 27121851 |
| chr_2 | g7936 | g7936.t2 | TSS | g7936.t2 | NA | NA |
Sequences
>g7936.t2 Gene=g7936 Length=734
TAAAATGTATCCTTAATCTGTTATAGTATTACATCAATTGAGATCAATTTCTGTGAAACG
ACACACCTCCACTTCTACGTAATTAATATTTGAAAAAAAACAAAAACCAAAAGGAACATA
ACAAAACATATTTTGATAAAAAAATAAAAAAGAAAACAGTGAAAAGTAAACAAAAATAAA
GATGGTGAAAGAATATTTCAAATCACTCTCAAATATTTCAACAAACTCAGTTGATTCAGG
ATATTCTGATGATGAAATCACTGAGGATCAAGATCTCGGAGGTGTGTCAGAAATAAACAT
TGGGGAGAAAGTGAATGAAATTTTAACAGAAGCAGTTGAAGAAAACCGTTTAATTTGTGG
ATGGAAGGCAGTAATTAACCATTTGAATGAAACAGAATTCCCCGAACATTCACTTCTTCT
TCTTCCTTGTTCCATCCGCAACTGTTGATACGTTATCACACATGCAAGAGGTAATGACTC
GTGCCTTTTGTTTGGCTAACGATATTTATGTTGTTCAATTGGATAGCATTGAAAAATTAA
ACAAAATCATGAAAACACCTAAATCATCACATCCTTGTGCTCTTCTTCAACGATCAGCTA
CAATGAAAATTCAAAACCCAGATGATGAACTTGATCTCGATGAATACACTGAACTCGAGA
ATGACATTATTGATTATTGTGAAGAATTCTGGTGTGAACCAATTCAACCAATTGTTCGAT
TGCCAGCAGATTGA
>g7936.t2 Gene=g7936 Length=115
MKQNSPNIHFFFFLVPSATVDTLSHMQEVMTRAFCLANDIYVVQLDSIEKLNKIMKTPKS
SHPCALLQRSATMKIQNPDDELDLDEYTELENDIIDYCEEFWCEPIQPIVRLPAD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g7936.t2 | Gene3D | G3DSA:3.30.1330.30 | - | 1 | 114 | 1.5E-14 |
| 1 | g7936.t2 | PANTHER | PTHR10411 | GROWTH ARREST AND DNA DAMAGE-INDUCIBLE PROTEIN GADD45 | 4 | 114 | 2.2E-17 |
| 2 | g7936.t2 | PANTHER | PTHR10411:SF8 | FI09246P | 4 | 114 | 2.2E-17 |
| 6 | g7936.t2 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 26 | - |
| 7 | g7936.t2 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 9 | - |
| 8 | g7936.t2 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 10 | 20 | - |
| 9 | g7936.t2 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 21 | 26 | - |
| 5 | g7936.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 27 | 115 | - |
| 3 | g7936.t2 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 22 | - |
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.
