General information for g9948.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g9948 is located on chr_1: 6138816..6140365 (+ 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_1 | g9948 | g9948.t9 | isoform | g9948.t9 | 6138816 | 6140365 |
| chr_1 | g9948 | g9948.t9 | exon | g9948.t9.exon1 | 6138816 | 6139041 |
| chr_1 | g9948 | g9948.t9 | cds | g9948.t9.CDS1 | 6138822 | 6139041 |
| chr_1 | g9948 | g9948.t9 | exon | g9948.t9.exon2 | 6139590 | 6140365 |
| chr_1 | g9948 | g9948.t9 | cds | g9948.t9.CDS2 | 6139590 | 6139675 |
| chr_1 | g9948 | g9948.t9 | TSS | g9948.t9 | NA | NA |
| chr_1 | g9948 | g9948.t9 | TTS | g9948.t9 | NA | NA |
Sequences
>g9948.t9 Gene=g9948 Length=1002
AAAAAAATGTTTCCGCTTAATTTAGGAATTCTTATCGGAGGAATTCTAACGACAGGTGCA
ATGGGTGATCGTCTACAAGTGCCTAATGTGATTCTTCAGGGTTTCGCTACCGGAACTCTA
TTATATGTGATTTTCTTTGAAGTTCTCTCCAAAGATCGTTCGGGAATGCTTCCTTATTTG
AGTGTATTTGCCGGATTTGTCATTATGACTGGCCTACAATATATCGCTGGTGTAACTGAA
AATCAAGGATTGACGGTTTTAATCCCAGACGATGTATTAACAACACTTGATCAAAATCAT
GCACATGGGTAATTTTTTTATAAATCGAAAAATAGACATTGAGATAAACAGTAACGTGCA
CGATATCATAAAGGATCTTCAATTATCTGCACGTTTCACCACTTAACAACAAAGTTTATC
ATTTTGTCGATTTTCTCCTATAGGAGATAATTACGTGTTCCCCTCATGCTGATATCAAAC
CTTTAAGTGAAGTTTAAAATGAAAGTGCCAATTTCAACATTTAAGTACGTTATTATTATA
GAAACTCCTTTTTTCTTCCTTCAATTAAGTGATAAGATTTAAAGTCATTGTAAAAAGAAA
AGCACATGTTATTTTATCATCATCAAAATTTTTGTACATTAATCAGGGACTTGAGTTAAA
ATAACTTTATAAAGTAGATGAGAACTTATAAAATCCACTAGGCGAAAAACATGAATGAAT
CATATTTATTTGTGTATTTTGAAATATATGATGGTTGTGATCGCTATTATGAATGTGTGT
AGTTCATAAACATTTTCAATATTTCCTTATAGATTAAGTAGAGTGTACATAAATAGTAAA
ATATTTTAGTAAATGTAAATTTTTTAGCTAATAAATCAAGACTTTATTATTTAAAAACTT
GAATTTATCATAAAAAATTTTTTTAAATTCTTTCACCTCGGTTTATAGATAACTTTTTAT
TACAGCTCTAATTGAGTACCATATCATTCAGTTTATGATAAT
>g9948.t9 Gene=g9948 Length=101
MFPLNLGILIGGILTTGAMGDRLQVPNVILQGFATGTLLYVIFFEVLSKDRSGMLPYLSV
FAGFVIMTGLQYIAGVTENQGLTVLIPDDVLTTLDQNHAHG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g9948.t9 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 8 | g9948.t9 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 9 | g9948.t9 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 15 | - |
| 12 | g9948.t9 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 16 | 20 | - |
| 5 | g9948.t9 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 29 | - |
| 10 | g9948.t9 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 30 | 47 | - |
| 4 | g9948.t9 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 48 | 53 | - |
| 11 | g9948.t9 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 54 | 74 | - |
| 6 | g9948.t9 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 75 | 101 | - |
| 3 | g9948.t9 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 2 | 19 | - |
| 2 | g9948.t9 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 29 | 48 | - |
| 1 | g9948.t9 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 55 | 77 | - |
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.
