General information for g10576.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g10576 is located on chr_1: 10513695..10515922 (+ 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 | g10576 | g10576.t4 | isoform | g10576.t4 | 10513695 | 10515379 |
| chr_1 | g10576 | g10576.t4 | exon | g10576.t4.exon1 | 10513695 | 10514814 |
| chr_1 | g10576 | g10576.t4 | cds | g10576.t4.CDS1 | 10514657 | 10514814 |
| chr_1 | g10576 | g10576.t4 | exon | g10576.t4.exon2 | 10514882 | 10515379 |
| chr_1 | g10576 | g10576.t4 | cds | g10576.t4.CDS2 | 10514882 | 10515287 |
| chr_1 | g10576 | g10576.t4 | TSS | g10576.t4 | NA | NA |
| chr_1 | g10576 | g10576.t4 | TTS | g10576.t4 | NA | NA |
Sequences
>g10576.t4 Gene=g10576 Length=1618
AATTAAACTTTATTTATCCTTTTTTATTTTTCATTATAATTTTTTAATAAAACGAAATTT
ACTCATCATCATCATCCTCTTCTTCTTCATCACTTTCCTTTCCAGAACCACCTGAGCCAG
AACGTTCATTTTCTGATCCAGAATGCTTATTATCATCGTCAGCATTTTCACTTTGATCAG
AATCATCGGAGTCTTTAAGAGCTTTTACAGGCTTTGATTTATCTTTTTTCTTACGTCTTG
CATCAAAATCTGAACCATCGGACATATCTTCTTCATCACTAGAATAAATAGGTTTCTTAT
CAGCGCCTGGTTTGTATTTGCTTTTGATAGCTGCAATTGAAATTCCTCCTTCATCTTCAG
AGCCCTCATCATGCTCATATCCTCCAGTAACAGATGTACGTTTTGTTCTTTTTGTTGCTT
TAATCGGTTTTCGTTGTCGCATAGCTTGTCGAAGTGACTCTTCTTCTTTCTTAATATTTT
CAGCACGAAATGCTTCAGGATCTTGACCGACTTGTGAAAGAATCTTAATGCCTGAAGTTT
TTTGTGAGCGATCAGCAAGTGACATTGTCATTTTCTTATGTGTAAATGAATCGGTGGAGT
GGGGTCTGAAAGTCAATTTCGTTCGAAAAACAGCTTGTCCTTGAAGACCAGTTCCTTGAC
GAATATAAAGATGATTATGATCGTTTTGAAGTGGCTGCTTATAAACATCAAAAATTTCAG
AGCCTAAATGAAGACTTAATGAGCCATCACTCCATCGTACAAAACGTGTATTTGATTCCT
GAACAGTTTCACCTTTATCATTGATATATTTTCTCCAGCGTATAGTGTTTCCAACTTTTA
ATTTTAAACGTTGTCTTCCTTCTTCGTCTAATGTCTCTTCCTCATCAATTTCATCTTCAT
AAGTTTCTGGATCAAATGGACGTGTTTCAACTGACAAAAAGTTGGGTAGTTTGACAAAAT
GAATGTCTTTTCCTAAATCTGAAACAATTCTCGGTATTTCGACATCAATTTTTGTTTCAG
GTATCGGAGTGCGCTCTCGTTCTTCGTTTTCTTCGCCTTCCCTTTTCTCTGATCTACTGC
GTGACCTGGATTTACTGCGAGAACGACTTCGTGATGCACTATACCTTGAACGAGATCGAC
TGCGTCGTGAACTTTCACTTCCACTTCGCTTTTTCCGAGAATCTTTATCTGAACCGCTTT
TTCCTTCATCATCTGAACTAATGTCATCTGCATCACCAAAAAGTGCTTCAGCATCTTTCG
TTTCAATCTTCTTCTGGCTATTTTGCTCAGTATTATTTTCCTCTTCATCACTTTCAGAAT
CAATTAATTTATTTCTTTTTGTATGCTGTTTATTTGTATGTTCAGCACCATCATCTGACT
CTGAATCAGACAACAGTTTTCTCTTTTTCTTTCCAATTTCTTGGGAATCGATTGATCCAC
TTCTTGATTTTGAATGTCGCAATTCATTTGGTGAGCCAGATCGTGATCGAGAGCGTGAAC
GAGAGTGTTTAGACCTTTCTTCATAATAATTTGGTGTTTTAGATCTCGATTTTGATCTTG
AGTGAGATTTAGATCTGGAGCGTGATCTATTTGATGCAGCATCATCACTCTTTCTGGA
>g10576.t4 Gene=g10576 Length=187
MSFPKSETILGISTSIFVSGIGVRSRSSFSSPSLFSDLLRDLDLLRERLRDALYLERDRL
RRELSLPLRFFRESLSEPLFPSSSELMSSASPKSASASFVSIFFWLFCSVLFSSSSLSES
INLFLFVCCLFVCSAPSSDSESDNSFLFFFPISWESIDPLLDFECRNSFGEPDRDRERER
ECLDLSS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g10576.t4 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 30 | - |
| 5 | g10576.t4 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 7 | - |
| 6 | g10576.t4 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 8 | 18 | - |
| 9 | g10576.t4 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 19 | 30 | - |
| 3 | g10576.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 31 | 94 | - |
| 7 | g10576.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 95 | 114 | - |
| 1 | g10576.t4 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 115 | 120 | - |
| 8 | g10576.t4 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 121 | 138 | - |
| 2 | g10576.t4 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 139 | 187 | - |
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.
