General information for g13340.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Prestin.
Parent gene
- The parent gene g13340 is located on chr_1: 29374714..29375269 (+ 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 | g13340 | g13340.t1 | isoform | g13340.t1 | 29373183 | 29375269 |
| chr_1 | g13340 | g13340.t1 | exon | g13340.t1.exon1 | 29373183 | 29373327 |
| chr_1 | g13340 | g13340.t1 | cds | g13340.t1.CDS1 | 29373183 | 29373327 |
| chr_1 | g13340 | g13340.t1 | exon | g13340.t1.exon2 | 29373405 | 29375269 |
| chr_1 | g13340 | g13340.t1 | cds | g13340.t1.CDS2 | 29373405 | 29375269 |
| chr_1 | g13340 | g13340.t1 | TSS | g13340.t1 | NA | NA |
| chr_1 | g13340 | g13340.t1 | TTS | g13340.t1 | NA | NA |
Sequences
>g13340.t1 Gene=g13340 Length=2010
ATGTCTGCAAACTTGCCAATTGATGATGGCATTCACATGAATGGATTTAAACCTGAAATA
ACTATTCCATACAAGGTGAAGCGATATGTTTTAAAACAAAATGAAATTGAACTAATTACC
GCATATGATCGTGATAAAGTGACATCAAATGAAAATCTCTCCATTGATACAAAAAAGTTA
TCATTTAAAAATGCCATTCACACAATCTGCCCAGCATCAAAATGGTTACCAAAATATTCA
ATACGTGAAAACTTGCTTGGTGACTTAACTTCAGGTCTTGCTGTTGCTTTTCTACATATT
TCTGAAGGGATGGCTTTTGGTATGCTAGCTGGCGTTGATCCTATTGTTGGACTGTATATG
GCATTCTTTCCAACCTTAATTCATTGCATTTTTGGAACTTCAAAGCATATCAGTATGGGA
ACTTTTGCTGTCATTTCAATTGCAACTTCAAAATTAACGACTAGATTTTCTGACTCAAAT
TATGAAATGAGAAATTTAACAGACAATTCAACAGTAGATTCATTACCGCATTATCATTAT
AGCACAGCACAAATATCATCAGCTGTAACTCTCATTTGTGGATTCTATCAACTTCTTATG
TGCATTTTTAAACTTGGATTTCTTCCATCCCTTTTTCCTGAATCACTTTTAAATGGATTT
TCAACTGCTGCTGCTTGTCACATTTTGGTTTCTCAATTAAAAGAAATTTTGGGACTAAAT
CTTCCACAACGTCAAGGAGCTTTTAAATTTTTTTTTATAATTCAAGATGTCTTTGAAAAT
TTTTCAAACACAAATCATTCAACATTTTTTATTTCAATCACTTGCATTCTATTTCTGCTC
TTTATGAATGAAGTTGTTAAACCAATTGCTGCTAGAAAATGTAAATTTCCAATTCCAACT
GAATTAATCACTGTAATGCTTTCCATTGCTTTGTCACACTCGTTAAATCTTGGTGAATTA
AATTATAATGTCAAAGAAGTTGGAAAAGTTTTCGTAGGAATTCCCAAGCCTGAATTACCA
CCATTTGAACTTTTATGTCTCGTTGCAATTGACTCAATTCCAATAAGCATCGTCAGTTAC
TCAATTGCAATGAAAATATCACAAATTTTTGCAAGAAAAGAATTTTATACAGTTAAATTA
AATCATGAACTTTTTGCAATTGGTTTATCAAATATTTTTGGATCTTTTTTCTCATGCATT
CCTGTTGCATGTTCATCTTATCGATCAACAACTCAATATGAAAGTGGAGGAAAAACACAA
ATTTCTTCAATAATTACAGCTTTAATAATTTTAATTGTTATTCTTTGGCTTGGGCCATTT
TTTGAAAAACTTCCACGTGCTGCTTTATCTGGACTTATAATTGTATCTTTAAAAGGAATG
TTTTTTCAAATTAAAGCACTTCCAAGGTTTTTCAGAGAGGGATATTTTGAGACAATAGAA
TGGTTTGGAACTTTTATAGCTGGTATTTTATTTGGAATTGATTTTGGTATCTATACTGGA
TTACTGATCTCAGTTATTGCATGTTACATTAACGGACTTCAAAGTAAATCAAAATTGCTT
GGGCAAATATTAAATACAGATATTTATGTTCCTTTAAAAGCTCACAAAAATGTCATTGAT
CTTCAAAAAATAAAAATTTTCCACTATAGCGGAACAGTTAATTTCGCAACATGTGTAAAG
TTCAAGAAAAATCTATTCAACACTATTGGTATTGATCAAAGTTTAATCAAACGTGCATCA
TTAGGTCAAGCACAATCAGAAGCCAGAGGATTTAACAATGGAATCAAATATTTGATTATA
GATCTTGGATCAATTACAAATATCGACTTAAGTGGCTACAGAACTATCATTGAAATTAGA
AGTGAAATTAAATTGATTGATGTTCGAGTTTATCTTGCAAATGCTAATGATAATGTCTAT
GACACAATCATACATGCTGTTAAACTTGGCTATCCATCATTTGAATTATTTTCATCAGTT
CACGATGCTGTTTTATTTGCACAGGGATAA
>g13340.t1 Gene=g13340 Length=669
MSANLPIDDGIHMNGFKPEITIPYKVKRYVLKQNEIELITAYDRDKVTSNENLSIDTKKL
SFKNAIHTICPASKWLPKYSIRENLLGDLTSGLAVAFLHISEGMAFGMLAGVDPIVGLYM
AFFPTLIHCIFGTSKHISMGTFAVISIATSKLTTRFSDSNYEMRNLTDNSTVDSLPHYHY
STAQISSAVTLICGFYQLLMCIFKLGFLPSLFPESLLNGFSTAAACHILVSQLKEILGLN
LPQRQGAFKFFFIIQDVFENFSNTNHSTFFISITCILFLLFMNEVVKPIAARKCKFPIPT
ELITVMLSIALSHSLNLGELNYNVKEVGKVFVGIPKPELPPFELLCLVAIDSIPISIVSY
SIAMKISQIFARKEFYTVKLNHELFAIGLSNIFGSFFSCIPVACSSYRSTTQYESGGKTQ
ISSIITALIILIVILWLGPFFEKLPRAALSGLIIVSLKGMFFQIKALPRFFREGYFETIE
WFGTFIAGILFGIDFGIYTGLLISVIACYINGLQSKSKLLGQILNTDIYVPLKAHKNVID
LQKIKIFHYSGTVNFATCVKFKKNLFNTIGIDQSLIKRASLGQAQSEARGFNNGIKYLII
DLGSITNIDLSGYRTIIEIRSEIKLIDVRVYLANANDNVYDTIIHAVKLGYPSFELFSSV
HDAVLFAQG
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 30 | g13340.t1 | CDD | cd07042 | STAS_SulP_like_sulfate_transporter | 535 | 646 | 2.19024E-11 |
| 8 | g13340.t1 | Gene3D | G3DSA:3.30.750.24 | - | 516 | 669 | 6.1E-29 |
| 3 | g13340.t1 | PANTHER | PTHR11814 | SULFATE TRANSPORTER | 16 | 161 | 1.7E-181 |
| 5 | g13340.t1 | PANTHER | PTHR11814:SF189 | FI18412P1 | 16 | 161 | 1.7E-181 |
| 4 | g13340.t1 | PANTHER | PTHR11814 | SULFATE TRANSPORTER | 185 | 669 | 1.7E-181 |
| 6 | g13340.t1 | PANTHER | PTHR11814:SF189 | FI18412P1 | 185 | 669 | 1.7E-181 |
| 1 | g13340.t1 | Pfam | PF00916 | Sulfate permease family | 85 | 482 | 5.5E-88 |
| 2 | g13340.t1 | Pfam | PF01740 | STAS domain | 536 | 663 | 3.3E-18 |
| 11 | g13340.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 84 | - |
| 27 | g13340.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 85 | 109 | - |
| 18 | g13340.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 110 | 114 | - |
| 26 | g13340.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 115 | 133 | - |
| 13 | g13340.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 134 | 187 | - |
| 21 | g13340.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 188 | 207 | - |
| 17 | g13340.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 208 | 267 | - |
| 22 | g13340.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 268 | 286 | - |
| 14 | g13340.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 287 | 297 | - |
| 25 | g13340.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 298 | 315 | - |
| 19 | g13340.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 316 | 341 | - |
| 28 | g13340.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 342 | 363 | - |
| 12 | g13340.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 364 | 383 | - |
| 29 | g13340.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 384 | 408 | - |
| 16 | g13340.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 409 | 419 | - |
| 23 | g13340.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 420 | 440 | - |
| 10 | g13340.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 441 | 446 | - |
| 24 | g13340.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 447 | 464 | - |
| 15 | g13340.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 465 | 483 | - |
| 20 | g13340.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 484 | 510 | - |
| 9 | g13340.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 511 | 669 | - |
| 38 | g13340.t1 | ProSiteProfiles | PS50801 | STAS domain profile. | 534 | 667 | 18.71 |
| 7 | g13340.t1 | SUPERFAMILY | SSF52091 | SpoIIaa-like | 540 | 663 | 1.73E-12 |
| 36 | g13340.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 110 | 132 | - |
| 37 | g13340.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 185 | 207 | - |
| 35 | g13340.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 267 | 286 | - |
| 33 | g13340.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 382 | 404 | - |
| 31 | g13340.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 419 | 441 | - |
| 32 | g13340.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 448 | 470 | - |
| 34 | g13340.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 485 | 507 | - |
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.
