General information for g13339.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Prestin.
Parent gene
- The parent gene g13339 is located on chr_1: 29370346..29372544 (+ 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 | g13339 | g13339.t1 | isoform | g13339.t1 | 29370346 | 29372544 |
| chr_1 | g13339 | g13339.t1 | exon | g13339.t1.exon1 | 29370346 | 29370368 |
| chr_1 | g13339 | g13339.t1 | cds | g13339.t1.CDS1 | 29370346 | 29370368 |
| chr_1 | g13339 | g13339.t1 | exon | g13339.t1.exon2 | 29371719 | 29372544 |
| chr_1 | g13339 | g13339.t1 | cds | g13339.t1.CDS2 | 29371719 | 29372544 |
| chr_1 | g13339 | g13339.t1 | TSS | g13339.t1 | NA | NA |
| chr_1 | g13339 | g13339.t1 | TTS | g13339.t1 | NA | NA |
Sequences
>g13339.t1 Gene=g13339 Length=849
ATGGTTGATAGCTTGTTAGAAAGTCGGTTAAAATCATCGACTAAAAATNNNNNNNNNNNN
NNNNNNNNNGCAGGTGGAAAGACACAACTCACTTCAGTCTTCTCAGCATCGATAATTCTC
ACAGTTTTGCTTTGGCTTGGTCCATTATTTGAGACATTACCTCGTGCTACACTTGCCAGT
ATTATCATTGTGGCTCTTAAAGGACTTTTAATGCAAGTCAAAGATTTAAAAAGATTTTTA
AAAGAAGGAATTCTCGAATCAGCTGAATGGATCGGAACATTTTTGACAGTTGTTATAATT
GACATTGATGTTGGACTTCTTGCTGGTGTGATAATCTCAATTCTTGCACTTTACATTAAA
GGATTAAAAAGTTACTCAAGTATGCTCGGTCAAGTACCAAACACAAACATTTATGTTCCC
ATTAAAACTCATAGATTTGTCAGCCAGCTTCCAAATATCAAAATTTTCCGCTATAGCGGT
TCAGTCAATTTTGCAACATCTTCAGCATTTAAGAAAGCTTTATTCAGTAACATTGGCATT
GACTGTCGACTCATCAGACGTGCATCATTGTGTGAAACTCAATCAGAAGCCAGAGGATTC
AATAATGGCATTAGATGTTTGATTTTAGACTTGGGATCAATTGCACATATTGACATGAGC
GGTTATAGAACATTTTTAGAAATACGAAATGAAATGAAATTGATTGATGTTAGAGTTTAT
CTTGCAAATGCTAGCGATTGCGTTTATGACTCATTGGTTCGTGCTGTAAATCTTGGATAT
CCATCATTTGAATTATTTTCATCAGTTCACGATGCTGTTTTATTTGCACAAAGTCAAAAT
GAGCATTAA
>g13339.t1 Gene=g13339 Length=282
MVDSLLESRLKSSTKNXXXXXXXAGGKTQLTSVFSASIILTVLLWLGPLFETLPRATLAS
IIIVALKGLLMQVKDLKRFLKEGILESAEWIGTFLTVVIIDIDVGLLAGVIISILALYIK
GLKSYSSMLGQVPNTNIYVPIKTHRFVSQLPNIKIFRYSGSVNFATSSAFKKALFSNIGI
DCRLIRRASLCETQSEARGFNNGIRCLILDLGSIAHIDMSGYRTFLEIRNEMKLIDVRVY
LANASDCVYDSLVRAVNLGYPSFELFSSVHDAVLFAQSQNEH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 16 | g13339.t1 | CDD | cd07042 | STAS_SulP_like_sulfate_transporter | 151 | 255 | 3.08416E-15 |
| 8 | g13339.t1 | Gene3D | G3DSA:3.30.750.24 | - | 123 | 281 | 2.6E-32 |
| 4 | g13339.t1 | PANTHER | PTHR11814 | SULFATE TRANSPORTER | 23 | 201 | 9.1E-87 |
| 6 | g13339.t1 | PANTHER | PTHR11814:SF189 | FI18412P1 | 23 | 201 | 9.1E-87 |
| 3 | g13339.t1 | PANTHER | PTHR11814 | SULFATE TRANSPORTER | 197 | 279 | 9.1E-87 |
| 5 | g13339.t1 | PANTHER | PTHR11814:SF189 | FI18412P1 | 197 | 279 | 9.1E-87 |
| 1 | g13339.t1 | Pfam | PF00916 | Sulfate permease family | 22 | 88 | 9.6E-16 |
| 2 | g13339.t1 | Pfam | PF01740 | STAS domain | 149 | 272 | 1.1E-17 |
| 11 | g13339.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 27 | - |
| 13 | g13339.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 28 | 46 | - |
| 10 | g13339.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 47 | 52 | - |
| 15 | g13339.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 53 | 70 | - |
| 12 | g13339.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 71 | 89 | - |
| 14 | g13339.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 90 | 119 | - |
| 9 | g13339.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 120 | 282 | - |
| 20 | g13339.t1 | ProSiteProfiles | PS50801 | STAS domain profile. | 143 | 276 | 20.918 |
| 7 | g13339.t1 | SUPERFAMILY | SSF52091 | SpoIIaa-like | 147 | 272 | 1.12E-14 |
| 17 | g13339.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 30 | 49 | - |
| 19 | g13339.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 56 | 73 | - |
| 18 | g13339.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 97 | 119 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0016020 | membrane | CC |
| GO:0055085 | transmembrane transport | BP |
| GO:0015116 | sulfate transmembrane transporter activity | MF |
| GO:0008272 | sulfate transport | BP |
| GO:0016021 | integral component of membrane | CC |
| GO:0008271 | secondary active sulfate transmembrane transporter activity | MF |
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.
