General information for g586.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Sodium-coupled monocarboxylate transporter 2.
Parent gene
- The parent gene g586 is located on chr_3: 4339889..4341987 (- 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 | g586 | g586.t1 | isoform | g586.t1 | 4339889 | 4341987 |
| chr_3 | g586 | g586.t1 | exon | g586.t1.exon1 | 4339889 | 4340900 |
| chr_3 | g586 | g586.t1 | cds | g586.t1.CDS1 | 4339889 | 4340900 |
| chr_3 | g586 | g586.t1 | exon | g586.t1.exon2 | 4340960 | 4341216 |
| chr_3 | g586 | g586.t1 | cds | g586.t1.CDS2 | 4340960 | 4341216 |
| chr_3 | g586 | g586.t1 | exon | g586.t1.exon3 | 4341280 | 4341363 |
| chr_3 | g586 | g586.t1 | cds | g586.t1.CDS3 | 4341280 | 4341363 |
| chr_3 | g586 | g586.t1 | exon | g586.t1.exon4 | 4341541 | 4341674 |
| chr_3 | g586 | g586.t1 | cds | g586.t1.CDS4 | 4341541 | 4341674 |
| chr_3 | g586 | g586.t1 | exon | g586.t1.exon5 | 4341741 | 4341987 |
| chr_3 | g586 | g586.t1 | cds | g586.t1.CDS5 | 4341741 | 4341987 |
| chr_3 | g586 | g586.t1 | TSS | g586.t1 | 4342040 | 4342040 |
| chr_3 | g586 | g586.t1 | TTS | g586.t1 | NA | NA |
Sequences
>g586.t1 Gene=g586 Length=1734
ATGAATGTGGACGATTTAAGTAAATCTTTGAAAAAATTCAAAATAATCGATCAAATTGTA
TTTGGTTCAATGTTAGGCGTATGTTCTGTTATTGGTCTTTATTTCGGTTATCAAGATTTA
AAACGGAAAAGAGCATCAAAAAATGATAATGAAGTATTGAATTTTCTAATGGGTGGAAGA
AAAATGAAAGTGTTTCCTGTGGCAATGTCTTTGATTGCTTCACTCGTGAGCGGAATTTTG
CTATTAGGAGCAAGTACTGAAATTTATCTTTATGGCACACAATATGTTTATATTATCATT
GCTATAATCATTTCTGCTGTCATACTTGATCTCATCATGATACCAGTTTTTCATAAACTT
CAAATAACATCTGTTTATGAGTATCTACAATTGAGATTTGACAAGAAAATGCGACTTTTT
GGTTCTTTAATGTACACAATTTCAAGTATTTTGTGGCTTCCTATTGTATTGTATGTCCCA
GCATTAGCATTTAATCAAATGACGTCCATAAATATTCATAAGATAACGCCAATCGTAATG
GCAGTTTGTTTATTTTATTGTAGTTTAGGCGGGATGAAAGCAGTTGTATACACTGATTTC
ATACAAATTATAATAATGTACGGTACATTGATAGTAATTGCAATCAAAGGGACAATAAAT
GTTGGAGGATTTCTCAATGTCATAGAAATAAACCTCGAAGGAAAACGTTTTGAAGCACCA
GATTTTAATCTAGACCCGACCACACGTCACACATTTTGGACTCTCGTCATTGGAGGAGCA
TTTCTTTATATAGCTCATAATGCACTTAATCAGAATATGATGCAGAGATATTTAGCATTA
CGTACAGTGAAAGAAGCACGTAAAAGTAATTTAATCTACGCAATAGGATTCATCGTCATC
ATTCTATTGTGTTGTTACAATGGTCTTTTACTTTATGCCACCTACTACAATTGTGATCCA
TTGACGACCAAACTCGCAATGGCTCGTGACCAAATGTTGCCACTTCTAGTTATGCAAACT
CTTAATGACATACCAGGTCTGTCAGGATTTTTCATAGCTGGAATTTTTAGCGCATCTTTG
AGCTCAATTTCAACCGGCCTCAATTCAATGGCATGTGTAATTCTCGAGGATTTTGTGAAG
CCATTTCGTAAGAAGAAGTTATCTGAAACAATGTGTATAGTGATAACAAGAGCTGTCGTA
TTATGTTTTGGTCTATTGGGAATTGCTCTTGTATTTGTTGTACAGAATTTAGGCACAATT
TTGCAGTTGACTTTAAGTGTTCCTACTGCTTGTTTTGGCCCTTTATTTGGAGTTTTTTTG
ATTGGATTTTTGTTTCCATGGGTTAATAAACGTGCAACATTATATAGTAGCGTAATTGGA
TTCATTATTATGATGACCTTTGTCTTTAAAGTTCAAACAGAAATGGCACTTGGACATATA
AAATTCTCAATTAAACCAATGTCAACTGATGGTTGTGATTATGAATTTAATAGTACTAAT
CTATTGCCTATGACAAGAATATCATCATCAGCAAGCAGCATTTATCAGATTTCATATTTA
TATTATACTGCAATTGGATGTATAATGGTAGTGATTTTATCAATTTTATTAACATTCTTA
TTAGGATATGAGGATTCAAGCAAAATTAATCAAAATTTATTAGCTCCTTTTGTGAGAAGA
AAAAAAGAAATTAATGAAGAAAACAATGAAAATCCATTTACAAACTTGCAATGA
>g586.t1 Gene=g586 Length=577
MNVDDLSKSLKKFKIIDQIVFGSMLGVCSVIGLYFGYQDLKRKRASKNDNEVLNFLMGGR
KMKVFPVAMSLIASLVSGILLLGASTEIYLYGTQYVYIIIAIIISAVILDLIMIPVFHKL
QITSVYEYLQLRFDKKMRLFGSLMYTISSILWLPIVLYVPALAFNQMTSINIHKITPIVM
AVCLFYCSLGGMKAVVYTDFIQIIIMYGTLIVIAIKGTINVGGFLNVIEINLEGKRFEAP
DFNLDPTTRHTFWTLVIGGAFLYIAHNALNQNMMQRYLALRTVKEARKSNLIYAIGFIVI
ILLCCYNGLLLYATYYNCDPLTTKLAMARDQMLPLLVMQTLNDIPGLSGFFIAGIFSASL
SSISTGLNSMACVILEDFVKPFRKKKLSETMCIVITRAVVLCFGLLGIALVFVVQNLGTI
LQLTLSVPTACFGPLFGVFLIGFLFPWVNKRATLYSSVIGFIIMMTFVFKVQTEMALGHI
KFSIKPMSTDGCDYEFNSTNLLPMTRISSSASSIYQISYLYYTAIGCIMVVILSILLTFL
LGYEDSSKINQNLLAPFVRRKKEINEENNENPFTNLQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 32 | g586.t1 | CDD | cd11492 | SLC5sbd_NIS-SMVT | 16 | 540 | 0.0 |
| 4 | g586.t1 | Gene3D | G3DSA:1.20.1730.10 | - | 45 | 551 | 7.5E-111 |
| 2 | g586.t1 | PANTHER | PTHR42985 | SODIUM-COUPLED MONOCARBOXYLATE TRANSPORTER | 10 | 563 | 1.8E-219 |
| 3 | g586.t1 | PANTHER | PTHR42985:SF5 | LP24461P | 10 | 563 | 1.8E-219 |
| 1 | g586.t1 | Pfam | PF00474 | Sodium:solute symporter family | 55 | 460 | 6.2E-40 |
| 18 | g586.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 14 | - |
| 20 | g586.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 15 | 37 | - |
| 7 | g586.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 38 | 63 | - |
| 27 | g586.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 64 | 83 | - |
| 14 | g586.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 84 | 94 | - |
| 19 | g586.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 95 | 118 | - |
| 8 | g586.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 119 | 138 | - |
| 22 | g586.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 139 | 163 | - |
| 17 | g586.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 164 | 174 | - |
| 31 | g586.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 175 | 192 | - |
| 11 | g586.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 193 | 203 | - |
| 23 | g586.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 204 | 230 | - |
| 13 | g586.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 231 | 249 | - |
| 30 | g586.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 250 | 269 | - |
| 6 | g586.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 270 | 289 | - |
| 24 | g586.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 290 | 315 | - |
| 15 | g586.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 316 | 349 | - |
| 21 | g586.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 350 | 374 | - |
| 5 | g586.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 375 | 393 | - |
| 29 | g586.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 394 | 414 | - |
| 16 | g586.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 415 | 419 | - |
| 25 | g586.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 420 | 445 | - |
| 9 | g586.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 446 | 451 | - |
| 28 | g586.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 452 | 469 | - |
| 12 | g586.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 470 | 518 | - |
| 26 | g586.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 519 | 543 | - |
| 10 | g586.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 544 | 577 | - |
| 46 | g586.t1 | ProSiteProfiles | PS50283 | Sodium:solute symporter family profile. | 14 | 474 | 49.48 |
| 47 | g586.t1 | TIGRFAM | TIGR00813 | sss: transporter, solute:sodium symporter (SSS) family | 55 | 460 | 1.5E-82 |
| 36 | g586.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 15 | 37 | - |
| 40 | g586.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 64 | 86 | - |
| 39 | g586.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 96 | 118 | - |
| 44 | g586.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 139 | 161 | - |
| 41 | g586.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 176 | 198 | - |
| 45 | g586.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 203 | 225 | - |
| 42 | g586.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 251 | 270 | - |
| 43 | g586.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 291 | 313 | - |
| 37 | g586.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 350 | 372 | - |
| 34 | g586.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 393 | 415 | - |
| 33 | g586.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 425 | 447 | - |
| 35 | g586.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 454 | 476 | - |
| 38 | g586.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 519 | 541 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g586/g586.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g586.t1.fa.iupred3.txt does not exist
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0016020 | membrane | CC |
| GO:0055085 | transmembrane transport | BP |
| GO:0022857 | 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.
