Gene loci information

Transcript annotation

  • This transcript has been annotated as 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.t2 isoform g10695.t2 11402062 11403323
chr_1 g10695 g10695.t2 exon g10695.t2.exon1 11402062 11402186
chr_1 g10695 g10695.t2 cds g10695.t2.CDS1 11402071 11402186
chr_1 g10695 g10695.t2 exon g10695.t2.exon2 11402249 11403323
chr_1 g10695 g10695.t2 cds g10695.t2.CDS2 11402249 11403323
chr_1 g10695 g10695.t2 TTS g10695.t2 11403411 11403411
chr_1 g10695 g10695.t2 TSS g10695.t2 NA NA

Sequences

>g10695.t2 Gene=g10695 Length=1200
GTTATTCAAATGATTCTCATGTATGGAACACTCTTTCTGATTGTCATAAAAGGAACAATG
AACGTTGGCGGCTTGTCCGTTGTGATTGAAAGAAATGCGGCAAGCGGAAGATTTGAGGCG
CCTAACTTCGATTTCGATCCAACTGTTCGACATACATTCTGGACAATTGTAATCGGGGGA
ACAATATTTTGGGTGAACACAAATGGTCTAAATCAAAATATGATTCAACGCTATATGTCG
TTAAAAGACGTTCGTACAGCAAGAAAGGGACAGATGATGTATGTTATCGGAGTCAGTTTT
ATGATCTTTTTATGCTGCTTTAATGGACTATTGTTGTTCGCCACATACCATGACTGTGAT
CCACTCACCACGAAATTGGCCAAAGCAAAGGACCAACTGATGCCATTGTTGGTTATGGAA
ATATTGAAAGACATTCCTGGATTACCCGGATTATTTATAGCTGGTGTATTTTCTGCTGCA
CTTTCATCACTCTCAACTGGATTAAATTCAATGTCATGTGTCATTCTCGAAGATTTTTGT
AAGCCATTTGTAAAGAGAGAAATATCAGAGTCTATGAGTAGCTTAATCATGAGAGGAACT
GTATTAGTAATTGGACTGTTAGCTGTAGGATTGGTTTATGTTGTTCAACATTTAGGTTCA
GTATTGCAACTTTCAATGAGCATCCCAACTGCATGTTTTGGTCCAATGTTGGGTGTTTAT
GTCATTGGCTTTACTCTACCCTGGATTGGAAGAAGAGCTACTCTCTTCGCTGCAATGTTT
GCTTGCTTTTCAATGATGTGTCTTGTGTTTAAAGCTCAAGCAGAAATTGCACTTGGCAAC
ATTAACTTTGAAACGAAGCCTTTGACTACTGAGGGTTGCACGTACAATTTTACACTAACA
AGTACTCTCAATGCAACAGATGTCCCACATGAAGAGAATCATGAGAAACATATATGGAAC
ATTTCTTATTTATATTATGCTCCATTAGGTTCTTCCATCGTCATCATCACAGCTTTCCTC
CTAAGCTTCATCTTTGGCTTTCAAGACTCTAGTACTGTCGACTCTCGACTGCTTGCTCCA
TTTTTACGGAAATACATTAACTCAAATGAAAGCAGGAAGATTCAATATATGGATGCGAGT
GGAAAAGAGACTGTCATTCACAATTTTGAACTAAAAGAAGATAAGAACAATGTTACGTAG

>g10695.t2 Gene=g10695 Length=396
MILMYGTLFLIVIKGTMNVGGLSVVIERNAASGRFEAPNFDFDPTVRHTFWTIVIGGTIF
WVNTNGLNQNMIQRYMSLKDVRTARKGQMMYVIGVSFMIFLCCFNGLLLFATYHDCDPLT
TKLAKAKDQLMPLLVMEILKDIPGLPGLFIAGVFSAALSSLSTGLNSMSCVILEDFCKPF
VKREISESMSSLIMRGTVLVIGLLAVGLVYVVQHLGSVLQLSMSIPTACFGPMLGVYVIG
FTLPWIGRRATLFAAMFACFSMMCLVFKAQAEIALGNINFETKPLTTEGCTYNFTLTSTL
NATDVPHEENHEKHIWNISYLYYAPLGSSIVIITAFLLSFIFGFQDSSTVDSRLLAPFLR
KYINSNESRKIQYMDASGKETVIHNFELKEDKNNVT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g10695.t2 Gene3D G3DSA:1.20.1730.10 - 1 354 2.0E-59
2 g10695.t2 PANTHER PTHR42985 SODIUM-COUPLED MONOCARBOXYLATE TRANSPORTER 2 376 5.9E-137
3 g10695.t2 PANTHER PTHR42985:SF5 LP24461P 2 376 5.9E-137
1 g10695.t2 Pfam PF00474 Sodium:solute symporter family 2 236 7.8E-16
15 g10695.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 6 -
28 g10695.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 7 26 -
21 g10695.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 27 45 -
26 g10695.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 46 68 -
16 g10695.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 69 88 -
23 g10695.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 89 113 -
20 g10695.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 114 147 -
25 g10695.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 148 172 -
17 g10695.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 173 191 -
30 g10695.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 192 212 -
19 g10695.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 213 217 -
24 g10695.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 218 240 -
14 g10695.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 241 251 -
29 g10695.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 252 271 -
22 g10695.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 272 319 -
27 g10695.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 320 344 -
18 g10695.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 345 396 -
13 g10695.t2 ProSiteProfiles PS50283 Sodium:solute symporter family profile. 1 272 22.139
7 g10695.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 7 26 -
5 g10695.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 46 68 -
8 g10695.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 89 111 -
11 g10695.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 148 170 -
4 g10695.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 191 213 -
9 g10695.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 223 245 -
6 g10695.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 252 274 -
10 g10695.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 322 344 -

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