General information for g2853.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g2853 is located on chr_3: 20661485..20664536 (- 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 | g2853 | g2853.t3 | TTS | g2853.t3 | 20659495 | 20659495 |
| chr_3 | g2853 | g2853.t3 | isoform | g2853.t3 | 20660239 | 20660818 |
| chr_3 | g2853 | g2853.t3 | exon | g2853.t3.exon1 | 20660239 | 20660818 |
| chr_3 | g2853 | g2853.t3 | cds | g2853.t3.CDS1 | 20660279 | 20660731 |
| chr_3 | g2853 | g2853.t3 | TSS | g2853.t3 | NA | NA |
Sequences
>g2853.t3 Gene=g2853 Length=580
GCTTGGTAAGACTTACTTTTTATTTCTTTGTTTATTTTATATTTGCTAATGAATTTCTTT
GTAGAAACCATTGGATCTTCCCTAACAATGGATCAATTTGCATGGAGTAAAGGTGAAGCT
TTGTATTATGTCGGTATACTTATGTCAGTTGGAGCATTTATCGCTTGTCTAGCGTTTTGT
CTCATTTCTCCATTAACAAAGCGCTTCAAAGAAGCTGACTTGCTCATTTGGGGAGGATTT
TTCTTCATGGTCATTGGCCGACTTGTCTTCATTCCTTATCGTGGTGATATACCAAAATTG
GCAGTTGATCGTGAATATAAAATGGAAAATGGTACAATTGCATTTTATGATGAGGATGAT
CCAATCGTTTTGGGTTGTCCTGTAAACAGTCAACCGTGGTGTGCAACAACTTTACAATTA
CAATTTCCTGAATTCTTATTTGGATTTGTAATTTCCACAATTGGCTATCCCATCGGTGTC
ACATTAATCCAAACAATTTTCTCGAAAGTTCTTGGCTCAAGACCTCAAGGAACTTGGTAA
GAATTTTTGAAAAATTAAAAATTCTAAAATATAAAATACT
>g2853.t3 Gene=g2853 Length=150
MDQFAWSKGEALYYVGILMSVGAFIACLAFCLISPLTKRFKEADLLIWGGFFFMVIGRLV
FIPYRGDIPKLAVDREYKMENGTIAFYDEDDPIVLGCPVNSQPWCATTLQLQFPEFLFGF
VISTIGYPIGVTLIQTIFSKVLGSRPQGTW
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 1 | g2853.t3 | PANTHER | PTHR23510:SF3 | MAJOR FACILITATOR SUPERFAMILY DOMAIN-CONTAINING PROTEIN 8 | 1 | 150 | 2.3E-27 |
| 2 | g2853.t3 | PANTHER | PTHR23510 | INNER MEMBRANE TRANSPORT PROTEIN YAJR | 1 | 150 | 2.3E-27 |
| 8 | g2853.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 11 | - |
| 11 | g2853.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 33 | - |
| 7 | g2853.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 34 | 44 | - |
| 10 | g2853.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 45 | 64 | - |
| 9 | g2853.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 65 | 115 | - |
| 12 | g2853.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 116 | 138 | - |
| 6 | g2853.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 139 | 150 | - |
| 4 | g2853.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 35 | - |
| 3 | g2853.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 45 | 62 | - |
| 5 | g2853.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 116 | 138 | - |
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.
