General information for g3080.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Cystinosin-like protein.
Parent gene
- The parent gene g3080 is located on chr_3: 22590736..22597282 (- 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_3 | g3080 | g3080.t12 | isoform | g3080.t12 | 22589737 | 22597282 |
| chr_3 | g3080 | g3080.t12 | exon | g3080.t12.exon1 | 22589737 | 22589747 |
| chr_3 | g3080 | g3080.t12 | cds | g3080.t12.CDS1 | 22589739 | 22589747 |
| chr_3 | g3080 | g3080.t12 | exon | g3080.t12.exon2 | 22589806 | 22590346 |
| chr_3 | g3080 | g3080.t12 | cds | g3080.t12.CDS2 | 22589806 | 22590346 |
| chr_3 | g3080 | g3080.t12 | exon | g3080.t12.exon3 | 22590417 | 22590513 |
| chr_3 | g3080 | g3080.t12 | cds | g3080.t12.CDS3 | 22590417 | 22590513 |
| chr_3 | g3080 | g3080.t12 | exon | g3080.t12.exon4 | 22590685 | 22590931 |
| chr_3 | g3080 | g3080.t12 | cds | g3080.t12.CDS4 | 22590685 | 22590736 |
| chr_3 | g3080 | g3080.t12 | exon | g3080.t12.exon5 | 22596975 | 22597282 |
| chr_3 | g3080 | g3080.t12 | TSS | g3080.t12 | 22597311 | 22597311 |
| chr_3 | g3080 | g3080.t12 | TTS | g3080.t12 | NA | NA |
Sequences
>g3080.t12 Gene=g3080 Length=1204
AACAATAAAAGCAAAAAATAATACGAATAAAGTGAACAAAAAAGAGCTGACAAATTGTCT
AATTAAACAAAACTTGTAGAAACTCAAAGAGTTAATTTCTAAGTTATTGTACAAATAAGT
GAAGTGTGACAAAATAATTCTATTGTGTTTGTGGAAGTTTTAAATTATAGCAATTCATTC
TTGTCATTAAGTAAATTCATTGTGATAGTTCTTTTTTGTAAGTGATTGAATCAAATATTA
CCGTGAAGGGCACTTGTTATACCAAAGAAAGAGGAAGAAATTAAGAGCAAAAAGCGAAAA
CCAAATTGACGTAAAAATTTTATTTTCTTCTCTCACTCACTCAAGTGATCATCATCAAGT
AATTGTTATTTTGCGAAGAAAGGAATTCATTCTGTTGGTGTTTATCATCGAATTAAGACA
AAATATTCAGTTTCTCTATTTTATTGTGCATAATTAAAAGCAACGAGTGAGAAAATAGGA
AAAAGGAATATAAAAATTAGAATATGTTTCTTAGTAAATTTAATTTGCTACTTGTAGCAT
TGACTACATTTTTTTATGTTGCAAAATGCCAAAGTTTACCAAAATTTGCTGTGTCGTCAA
GTGAATTGACTTTGATTATAAATGAAACTGAACAAATTTCACTTTATTTGAATGAACCAT
TAAACCAAAATGTGACAATAACCTTCTCACTAAATCACTATGACTTGGTCACAATTGTTC
CAATGTCAATGAAAATAGCGGCAAATACTTCAGGAAACTTTAATATCTCAGTGCTTGCTG
AATCACCAGGCCATGTCGATGTCACTGGAGTAGCTCTTCCAAAAGTCGTTGACGATTTTA
ACTTATTCTTTCGAATAATCGTTGCCAACTCTCGAATCATAATTATTGTCTCAGCTGTTG
TTGGATGGATTTATTTTGTTGCATGGTCAATTTCATTTTATCCACAATTGGTCATCAATT
ACAAGCGTAAATCAGTTGTTGGATTGAGTTTTGATTTTATGGCATTGAACTTTATGGGAC
ACACTCTCTATGCCATTTTCAACACTTGCCTCTATTTTGTGCCATTTTTTCAAGAAGAAT
ATTTTAATCGATTCCCAAGAGGATTAAATCCTGTTGAATTGAATGACGTTTTCTTTTCAA
TTCATGCATCAGCCATTACTGCATTGACTATTTTGCAATGCTTCTTTTATGAGCGGGGTG
AACA
>g3080.t12 Gene=g3080 Length=233
MFLSKFNLLLVALTTFFYVAKCQSLPKFAVSSSELTLIINETEQISLYLNEPLNQNVTIT
FSLNHYDLVTIVPMSMKIAANTSGNFNISVLAESPGHVDVTGVALPKVVDDFNLFFRIIV
ANSRIIIIVSAVVGWIYFVAWSISFYPQLVINYKRKSVVGLSFDFMALNFMGHTLYAIFN
TCLYFVPFFQEEYFNRFPRGLNPVELNDVFFSIHASAITALTILQCFFYERGE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g3080.t12 | PANTHER | PTHR13131 | CYSTINOSIN | 120 | 232 | 2.5E-46 |
| 3 | g3080.t12 | PANTHER | PTHR13131:SF5 | CYSTINOSIN | 120 | 232 | 2.5E-46 |
| 1 | g3080.t12 | Pfam | PF04193 | PQ loop repeat | 130 | 187 | 1.2E-19 |
| 13 | g3080.t12 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 22 | - |
| 14 | g3080.t12 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 7 | - |
| 15 | g3080.t12 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 8 | 17 | - |
| 19 | g3080.t12 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 18 | 22 | - |
| 11 | g3080.t12 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 23 | 124 | - |
| 18 | g3080.t12 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 125 | 146 | - |
| 10 | g3080.t12 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 147 | 166 | - |
| 16 | g3080.t12 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 167 | 189 | - |
| 12 | g3080.t12 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 190 | 208 | - |
| 17 | g3080.t12 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 209 | 229 | - |
| 9 | g3080.t12 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 230 | 233 | - |
| 7 | g3080.t12 | SMART | SM00679 | ctns | 143 | 174 | 8.4E-8 |
| 8 | g3080.t12 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 22 | - |
| 5 | g3080.t12 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 125 | 147 | - |
| 4 | g3080.t12 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 167 | 189 | - |
| 6 | g3080.t12 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 209 | 228 | - |
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.
