General information for g6015.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 g6015 is located on chr_2: 13538622..13542037 (+ 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_2 | g6015 | g6015.t1 | TSS | g6015.t1 | 13538540 | 13538540 |
| chr_2 | g6015 | g6015.t1 | isoform | g6015.t1 | 13538622 | 13542037 |
| chr_2 | g6015 | g6015.t1 | exon | g6015.t1.exon1 | 13538622 | 13538830 |
| chr_2 | g6015 | g6015.t1 | cds | g6015.t1.CDS1 | 13538622 | 13538830 |
| chr_2 | g6015 | g6015.t1 | exon | g6015.t1.exon2 | 13538887 | 13539011 |
| chr_2 | g6015 | g6015.t1 | cds | g6015.t1.CDS2 | 13538887 | 13539011 |
| chr_2 | g6015 | g6015.t1 | exon | g6015.t1.exon3 | 13539067 | 13539101 |
| chr_2 | g6015 | g6015.t1 | cds | g6015.t1.CDS3 | 13539067 | 13539101 |
| chr_2 | g6015 | g6015.t1 | exon | g6015.t1.exon4 | 13539471 | 13539540 |
| chr_2 | g6015 | g6015.t1 | cds | g6015.t1.CDS4 | 13539471 | 13539540 |
| chr_2 | g6015 | g6015.t1 | exon | g6015.t1.exon5 | 13539682 | 13539729 |
| chr_2 | g6015 | g6015.t1 | cds | g6015.t1.CDS5 | 13539682 | 13539729 |
| chr_2 | g6015 | g6015.t1 | exon | g6015.t1.exon6 | 13539812 | 13539879 |
| chr_2 | g6015 | g6015.t1 | cds | g6015.t1.CDS6 | 13539812 | 13539879 |
| chr_2 | g6015 | g6015.t1 | exon | g6015.t1.exon7 | 13540054 | 13540084 |
| chr_2 | g6015 | g6015.t1 | cds | g6015.t1.CDS7 | 13540054 | 13540084 |
| chr_2 | g6015 | g6015.t1 | exon | g6015.t1.exon8 | 13540146 | 13540275 |
| chr_2 | g6015 | g6015.t1 | cds | g6015.t1.CDS8 | 13540146 | 13540275 |
| chr_2 | g6015 | g6015.t1 | exon | g6015.t1.exon9 | 13540419 | 13540491 |
| chr_2 | g6015 | g6015.t1 | cds | g6015.t1.CDS9 | 13540419 | 13540491 |
| chr_2 | g6015 | g6015.t1 | exon | g6015.t1.exon10 | 13540550 | 13540686 |
| chr_2 | g6015 | g6015.t1 | cds | g6015.t1.CDS10 | 13540550 | 13540686 |
| chr_2 | g6015 | g6015.t1 | exon | g6015.t1.exon11 | 13540750 | 13541128 |
| chr_2 | g6015 | g6015.t1 | cds | g6015.t1.CDS11 | 13540750 | 13541128 |
| chr_2 | g6015 | g6015.t1 | exon | g6015.t1.exon12 | 13541188 | 13541229 |
| chr_2 | g6015 | g6015.t1 | cds | g6015.t1.CDS12 | 13541188 | 13541229 |
| chr_2 | g6015 | g6015.t1 | exon | g6015.t1.exon13 | 13541283 | 13541488 |
| chr_2 | g6015 | g6015.t1 | cds | g6015.t1.CDS13 | 13541283 | 13541488 |
| chr_2 | g6015 | g6015.t1 | exon | g6015.t1.exon14 | 13541848 | 13542037 |
| chr_2 | g6015 | g6015.t1 | cds | g6015.t1.CDS14 | 13541848 | 13542037 |
| chr_2 | g6015 | g6015.t1 | TTS | g6015.t1 | NA | NA |
Sequences
>g6015.t1 Gene=g6015 Length=1743
ATGATGGAAAATTTGGAAGAAGTTGCGTTGCATTTGCAACGGTTTTCATGGCTTGATTAC
ATTTTCTTTTCCTTTATGCTTTTCTTGTGCATTCTTATTGGTCTTTATTTTGGATTTTTT
AAGAAACGACAAGCAAGTGCAGAGTCAGAATATTTAGTGGGAAATCGTTCTATGCATTTC
TTCCCTATTTCCTTATCATTAATTGCAAGTTTCATATCAGGAATTACATTATTGGGTCTT
CCAACGGAAGTTTATCTTCATGGCATTCAATATGTCTATGTCACTTTTGGTGTACTTCTA
ATGGGATTTGTGATGTCAACTTTTTACTTACCAGTATTTTATGGCTTAGAAATCACATCA
TCATATGAGTATTTGGAAATGCGCTTTGACAGGCGGCTACGACTCTTTGGTTCAATACTA
TTTGCAGTGATGAATGTTTTATATCTACCAATCGTTATTTACATTCCAAGTTTAGCTTTT
AATCAAGTCACTGGCATCAATGTTCATTATACAAGTTGGTTTGTCGCAGCTATTTGCACA
TTTTATACTTCTGTGGGTGGCCTACGCGCTGTCGTATGGACTGATGTTGTTCAAACTTTC
TCAATGTTTCTGGCATTGGTTTTGGTTGCTGTGAAAGGAACAATTGATTTGAAAGACGGT
GGCTTTGAGTATGTAATTGATTCTGCATTGGAAACTGATCGATTAGAACCACCAAATATA
GGAATAAATCCATTAATACGTCATACATTATGGAGTCAAGTTATTGGTGGTGTATTTTAT
TGGGTTCAAACAAATGCTGTGTCACAAAACATGATTCAAAGATATTTGTCATTATCAAGT
CTACGTGCTGGCAAGAAATCTGTTTGGATATTTGTTTTTGGTGTTATAACTTTAATGATG
TTGTGTTCGTACAATGGATTATTAATGTATGCGACATACAAACATTGCAATCCATTAGAA
ACAAAACTTGCCAAGGCCAAAGATCAAATGCTTCCATTGTTTGTTATGGAAACTCTTGGT
GAACTTAAAGGTCTAAGCGGATTATTTATTGCCGGTGTTTTTTCAGCAGCTTTAAGCTCG
CTATCAACATGTCTCAATTCAATGAGTGCTGTTGTGTTGGAAGATTTCGTAAAGCCTTTC
ACAGAGAAGCCATTAACAGAGAGAATGATAAATTGGGTCATGAGATCAACTGTAATCGTA
ATTGGAGTTTCCTCTGTGTGCATGGTCTATATCGTTGAAAAAGCGGGCACGGTTTTACAA
TTAACTATGAGCTTAGAAGCAATTACGAATGGACCTTTGTTCGGCGTTTTTACAATTGGA
ATTTTCTTACCATGGATTAATTCATCTAGTGCATTGACTGGTGGAATTTCTGGTGTTTTA
TTCATGTCTTGGTTGATTTTCAAAGCACAGTATGCAATTGCTGTTGGACAAATGAATTTC
CCTCCAAAAGAACTTGCTGCCGATCAATGTCCCTATTCATTCATTCCAAATGCCACTATC
AGTAATGTTTCAGATGAATATATTTTCCCATTATATAAAATCTCATACATGTGGTATACG
TTAGTTGGTGCAGTTTTTACAATATTAATTTCATTGATTTGCTCAATGTTTATTTTTGGC
TTTAATGATCCAAAAACAATAGATTCACAACTCATAACTCCAGTGATAAGAAAGAAAATT
TTCAATAGTAACAATAAAGAATGCACACGACAACCTGCTGTCATTAAAGATACTGAATTT
TGA
>g6015.t1 Gene=g6015 Length=580
MMENLEEVALHLQRFSWLDYIFFSFMLFLCILIGLYFGFFKKRQASAESEYLVGNRSMHF
FPISLSLIASFISGITLLGLPTEVYLHGIQYVYVTFGVLLMGFVMSTFYLPVFYGLEITS
SYEYLEMRFDRRLRLFGSILFAVMNVLYLPIVIYIPSLAFNQVTGINVHYTSWFVAAICT
FYTSVGGLRAVVWTDVVQTFSMFLALVLVAVKGTIDLKDGGFEYVIDSALETDRLEPPNI
GINPLIRHTLWSQVIGGVFYWVQTNAVSQNMIQRYLSLSSLRAGKKSVWIFVFGVITLMM
LCSYNGLLMYATYKHCNPLETKLAKAKDQMLPLFVMETLGELKGLSGLFIAGVFSAALSS
LSTCLNSMSAVVLEDFVKPFTEKPLTERMINWVMRSTVIVIGVSSVCMVYIVEKAGTVLQ
LTMSLEAITNGPLFGVFTIGIFLPWINSSSALTGGISGVLFMSWLIFKAQYAIAVGQMNF
PPKELAADQCPYSFIPNATISNVSDEYIFPLYKISYMWYTLVGAVFTILISLICSMFIFG
FNDPKTIDSQLITPVIRKKIFNSNNKECTRQPAVIKDTEF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 32 | g6015.t1 | CDD | cd11492 | SLC5sbd_NIS-SMVT | 19 | 535 | 0.0 |
| 4 | g6015.t1 | Gene3D | G3DSA:1.20.1730.10 | - | 38 | 504 | 2.9E-117 |
| 2 | g6015.t1 | PANTHER | PTHR42985:SF20 | FI02016P | 17 | 567 | 3.9E-232 |
| 3 | g6015.t1 | PANTHER | PTHR42985 | SODIUM-COUPLED MONOCARBOXYLATE TRANSPORTER | 17 | 567 | 3.9E-232 |
| 1 | g6015.t1 | Pfam | PF00474 | Sodium:solute symporter family | 51 | 458 | 2.8E-41 |
| 16 | g6015.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 19 | - |
| 23 | g6015.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 20 | 39 | - |
| 10 | g6015.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 40 | 59 | - |
| 25 | g6015.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 60 | 80 | - |
| 17 | g6015.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 81 | 91 | - |
| 26 | g6015.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 92 | 114 | - |
| 9 | g6015.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 115 | 134 | - |
| 27 | g6015.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 135 | 155 | - |
| 14 | g6015.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 156 | 166 | - |
| 24 | g6015.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 167 | 185 | - |
| 6 | g6015.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 186 | 191 | - |
| 30 | g6015.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 192 | 211 | - |
| 15 | g6015.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 212 | 249 | - |
| 19 | g6015.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 250 | 267 | - |
| 7 | g6015.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 268 | 287 | - |
| 22 | g6015.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 288 | 313 | - |
| 13 | g6015.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 314 | 347 | - |
| 20 | g6015.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 348 | 372 | - |
| 5 | g6015.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 373 | 391 | - |
| 28 | g6015.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 392 | 412 | - |
| 12 | g6015.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 413 | 426 | - |
| 21 | g6015.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 427 | 445 | - |
| 8 | g6015.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 446 | 451 | - |
| 29 | g6015.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 452 | 473 | - |
| 18 | g6015.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 474 | 515 | - |
| 31 | g6015.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 516 | 541 | - |
| 11 | g6015.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 542 | 580 | - |
| 44 | g6015.t1 | ProSiteProfiles | PS50283 | Sodium:solute symporter family profile. | 16 | 472 | 51.856 |
| 45 | g6015.t1 | TIGRFAM | TIGR00813 | sss: transporter, solute:sodium symporter (SSS) family | 51 | 458 | 1.8E-88 |
| 35 | g6015.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 20 | 39 | - |
| 34 | g6015.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 59 | 81 | - |
| 39 | g6015.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 91 | 113 | - |
| 37 | g6015.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 133 | 155 | - |
| 42 | g6015.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 170 | 192 | - |
| 36 | g6015.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 288 | 310 | - |
| 40 | g6015.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 348 | 370 | - |
| 43 | g6015.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 390 | 412 | - |
| 33 | g6015.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 427 | 446 | - |
| 41 | g6015.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 451 | 473 | - |
| 38 | g6015.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.
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.
