Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Sodium-coupled monocarboxylate transporter 2.

Parent gene

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 g10695 g10695.t3 isoform g10695.t3 11402249 11403323
chr_1 g10695 g10695.t3 exon g10695.t3.exon1 11402249 11403323
chr_1 g10695 g10695.t3 cds g10695.t3.CDS1 11402343 11403323
chr_1 g10695 g10695.t3 TTS g10695.t3 11403411 11403411
chr_1 g10695 g10695.t3 TSS g10695.t3 NA NA

Sequences

>g10695.t3 Gene=g10695 Length=1075
CTTCGATTTCGATCCAACTGTTCGACATACATTCTGGACAATTGTAATCGGGGGAACAAT
ATTTTGGGTGAACACAAATGGTCTAAATCAAAATATGATTCAACGCTATATGTCGTTAAA
AGACGTTCGTACAGCAAGAAAGGGACAGATGATGTATGTTATCGGAGTCAGTTTTATGAT
CTTTTTATGCTGCTTTAATGGACTATTGTTGTTCGCCACATACCATGACTGTGATCCACT
CACCACGAAATTGGCCAAAGCAAAGGACCAACTGATGCCATTGTTGGTTATGGAAATATT
GAAAGACATTCCTGGATTACCCGGATTATTTATAGCTGGTGTATTTTCTGCTGCACTTTC
ATCACTCTCAACTGGATTAAATTCAATGTCATGTGTCATTCTCGAAGATTTTTGTAAGCC
ATTTGTAAAGAGAGAAATATCAGAGTCTATGAGTAGCTTAATCATGAGAGGAACTGTATT
AGTAATTGGACTGTTAGCTGTAGGATTGGTTTATGTTGTTCAACATTTAGGTTCAGTATT
GCAACTTTCAATGAGCATCCCAACTGCATGTTTTGGTCCAATGTTGGGTGTTTATGTCAT
TGGCTTTACTCTACCCTGGATTGGAAGAAGAGCTACTCTCTTCGCTGCAATGTTTGCTTG
CTTTTCAATGATGTGTCTTGTGTTTAAAGCTCAAGCAGAAATTGCACTTGGCAACATTAA
CTTTGAAACGAAGCCTTTGACTACTGAGGGTTGCACGTACAATTTTACACTAACAAGTAC
TCTCAATGCAACAGATGTCCCACATGAAGAGAATCATGAGAAACATATATGGAACATTTC
TTATTTATATTATGCTCCATTAGGTTCTTCCATCGTCATCATCACAGCTTTCCTCCTAAG
CTTCATCTTTGGCTTTCAAGACTCTAGTACTGTCGACTCTCGACTGCTTGCTCCATTTTT
ACGGAAATACATTAACTCAAATGAAAGCAGGAAGATTCAATATATGGATGCGAGTGGAAA
AGAGACTGTCATTCACAATTTTGAACTAAAAGAAGATAAGAACAATGTTACGTAG

>g10695.t3 Gene=g10695 Length=326
MIQRYMSLKDVRTARKGQMMYVIGVSFMIFLCCFNGLLLFATYHDCDPLTTKLAKAKDQL
MPLLVMEILKDIPGLPGLFIAGVFSAALSSLSTGLNSMSCVILEDFCKPFVKREISESMS
SLIMRGTVLVIGLLAVGLVYVVQHLGSVLQLSMSIPTACFGPMLGVYVIGFTLPWIGRRA
TLFAAMFACFSMMCLVFKAQAEIALGNINFETKPLTTEGCTYNFTLTSTLNATDVPHEEN
HEKHIWNISYLYYAPLGSSIVIITAFLLSFIFGFQDSSTVDSRLLAPFLRKYINSNESRK
IQYMDASGKETVIHNFELKEDKNNVT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g10695.t3 Coils Coil Coil 318 326 -
10 g10695.t3 Gene3D G3DSA:1.20.1730.10 - 1 284 8.6E-46
2 g10695.t3 PANTHER PTHR42985 SODIUM-COUPLED MONOCARBOXYLATE TRANSPORTER 1 306 2.1E-103
3 g10695.t3 PANTHER PTHR42985:SF5 LP24461P 1 306 2.1E-103
1 g10695.t3 Pfam PF00474 Sodium:solute symporter family 2 167 3.5E-13
13 g10695.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 20 -
24 g10695.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 21 43 -
19 g10695.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 44 77 -
23 g10695.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 78 102 -
15 g10695.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 103 121 -
21 g10695.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 122 142 -
18 g10695.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 143 147 -
22 g10695.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 148 170 -
14 g10695.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 171 181 -
20 g10695.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 182 201 -
17 g10695.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 202 249 -
25 g10695.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 250 274 -
16 g10695.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 275 326 -
12 g10695.t3 ProSiteProfiles PS50283 Sodium:solute symporter family profile. 1 202 21.684
8 g10695.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 21 43 -
7 g10695.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 78 100 -
5 g10695.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 121 143 -
9 g10695.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 153 175 -
4 g10695.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 182 204 -
6 g10695.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 252 274 -

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. There were no conditions that were differentially expressed