General information for g3080.t2
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.t2 | isoform | g3080.t2 | 22587187 | 22589747 |
| chr_3 | g3080 | g3080.t2 | exon | g3080.t2.exon1 | 22587187 | 22588264 |
| chr_3 | g3080 | g3080.t2 | cds | g3080.t2.CDS1 | 22588135 | 22588264 |
| chr_3 | g3080 | g3080.t2 | exon | g3080.t2.exon2 | 22589302 | 22589404 |
| chr_3 | g3080 | g3080.t2 | cds | g3080.t2.CDS2 | 22589302 | 22589404 |
| chr_3 | g3080 | g3080.t2 | exon | g3080.t2.exon3 | 22589459 | 22589747 |
| chr_3 | g3080 | g3080.t2 | cds | g3080.t2.CDS3 | 22589459 | 22589492 |
| chr_3 | g3080 | g3080.t2 | TSS | g3080.t2 | NA | NA |
| chr_3 | g3080 | g3080.t2 | TTS | g3080.t2 | NA | NA |
Sequences
>g3080.t2 Gene=g3080 Length=1470
CGGGGTGAACAAAGAGTTTCAGATATTGCTCGTGGAATTCTTGGAATTTTCACAACAATC
ATAATTGTAGTGACGATTCTCTCAGCAATTGGTCAAATTCATTGGTTAGATTTCCTCAAC
ACTTGCAGTTACATTAAACTTGCCATAACACTCATCAAATATGTGCCACAAGCGATTTTA
AATTACAAAAGAAAATCAACAGTTGGATGGAGCATAGGAAATATTTTATTGGATTTTACT
GGTGGAATTTTATCAATGCTTCAAATGATTCTTAACTCATACAACTACAATGATTGGCAA
TCAATTTTTGGTGATCCAACAAAATTCGGTCTTGGTTTATTTTCAGTTCTATTTGATATT
CTCTTTATTATTCAGCACTATGTCTTGTATAGAAACTTAGAGGCTTATAGGACAATCCCT
GGAAATGAATCGGAAGCTAATTTGACTGAAAAAGATGAAGAAAATAGTAATGAAGAGGAA
GAAGATCAAAATCAGGTTCCTTCAGGGATAAGATATCAGTAATCGAATAATTAATGAATT
TACTTGTCATAGGAATATTTAGTAATAGGAAATTTAAAGATTTGAAAAAAAAAATTATTG
AGATTCAAAAAACTAGACAATTTTATTGAAATTTAATTCAATTTAGTAGAAAACTCTTAC
TCAGTTACATCGAATTCAATACTTAATTAGAACTTTAATTTTGTCAACTGTCATTCATTG
ACGACTTCAAAACAATCTTAACTTGAGGCTAATTAATTTTTTAAATAGAAATATTTTCAT
ATCACAATAACTATATATTATTCACATGTGCATTAACGTAAATGACAATATTTTGATAAA
AGAAATTTATTGACTAACAAAATTATAAAAATTTAACCCGAAATAGTTTGATAAAAAAGT
TTTGATGGAATAAGCTCGAAGTCTAATACTTTTAAGAAAACTTTTCAGACTTTATATCAC
AAGACTTGAAATTAAAAATATTGTTATGAATTTAATTATAAGCAGGAACTTTCAAAGAAG
GCATTTATTTAATAGGAAGTAGGTACCTTCTTTTGAAATTCTTTCAGTAATTTTGAAGTA
TTAATCAAAAATATTTAGTATAAAATTAAGTCATCATGGAGCTGCTGAAAAATTGTCATG
AAATTGAGTGCAAAACTTATTTTATTAAAAATGAATGATCTAATGCAGTTCCATGAAAAT
CGAGTGATCATCATTTGCATTAAACTAATATTTATGGCATTTACAAGCACTTTGTATTGT
TGAAAAAAGTAAATTATATTAATAAAAGTAAAATTTATTTTGTGAATATACAATAACAAA
AAAGTAATTTTTATGTGTTCACTTCACTTCATCATTTTCAGCATTATAAACACACACATT
TTAAAACTTGTTCTATTTTTTAACCTTGTCATATGACATTCTCAATTTTTTGTGTTACAA
AATTAATTTTTTATTCAACTCATAAAAATT
>g3080.t2 Gene=g3080 Length=88
MLQMILNSYNYNDWQSIFGDPTKFGLGLFSVLFDILFIIQHYVLYRNLEAYRTIPGNESE
ANLTEKDEENSNEEEEDQNQVPSGIRYQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g3080.t2 | Coils | Coil | Coil | 56 | 76 | - |
| 4 | g3080.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 56 | 88 | - |
| 1 | g3080.t2 | PANTHER | PTHR13131 | CYSTINOSIN | 1 | 71 | 7.7E-19 |
| 2 | g3080.t2 | PANTHER | PTHR13131:SF5 | CYSTINOSIN | 1 | 71 | 7.7E-19 |
| 7 | g3080.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 23 | - |
| 8 | g3080.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 24 | 45 | - |
| 6 | g3080.t2 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 46 | 88 | - |
| 3 | g3080.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 26 | 45 | - |
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.
