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 g10696 g10696.t6 isoform g10696.t6 11405373 11406491
chr_1 g10696 g10696.t6 exon g10696.t6.exon1 11405373 11405377
chr_1 g10696 g10696.t6 exon g10696.t6.exon2 11405435 11406491
chr_1 g10696 g10696.t6 cds g10696.t6.CDS1 11405475 11406491
chr_1 g10696 g10696.t6 TTS g10696.t6 11406509 11406509
chr_1 g10696 g10696.t6 TSS g10696.t6 NA NA

Sequences

>g10696.t6 Gene=g10696 Length=1062
CCTGATTTTAATTTTGATCCTACTTTGAGAACTTCATTTTGGATAATGGTCATTGGTGGT
TCATTTTTTCGTTTATATGCTGGAATAAATCAATCAATGATACAGCGATATATGGCATTG
AAGAACGTCCATGTAGCACGAAAATGTCAATATGTCTATTTAGGTGGAATAATTATTTTG
AATCTCATGTGTTATTACAATGGTCTACTACTTTATGCTTATTTTTATGATTGTGATCCA
TTGACAACAAAATTGGCAAAGGCAAAAGATCAATTAATGCCACTCTTGGTGATGGAAATA
TTGCGAGATATTCCTGGAATGCCTGGATTATTTATAGCTGGTGTGTTTTCTGCTGCACTT
TCATCACTTTCAACAGCTTTAAACTCATTTTCTGCGGTTGTTCTCGAGGACTTTTGCAAA
CCATTTGCAAAGGATGGTGTGTCAGAACGAACAAGTGCAATAATAATGCGTATGACAGTG
TTAGTGGTTGGAGTGATGAGCGTAGCTCTTGTATATGTTGTGCAGCATATGGGATCCGTG
CTTCAACTAGCATACACTATACCATCAGTTGCATTCGGGCCGATGTTGGGCATTTATATA
ATTGGACTTTGTATTCCGCACATTGGAAAACGTGCGACATTCTATGGAGCTTTGACCGGA
TGTAGTGTAATGATTGCTTTCATTTCGAAAGTACAAATTGAAGTTGCTTTGGGCAAAATT
AGTCACCCAATAAAACCAGTCTCAATTGATGGTTGTACATACGATTTTGTAGCTACTAAT
ATGACAACAAACATCAATGAGCCTTCAGTTACGGAAAGAAATATCTTTCACATTTCATTT
ATATATTACACTCTACTGGGGTCGGTTATCGTTATCGTAACATCAATACTATACAGTTTT
ATTGTGGGCTTCAATGATCTTAGTGATGTCGATATTAATTTGCTTGCTCCTTTCCTGAGA
AAATACTTTAAGAATGCAGAAAGAGATGATGAAGACAAAAAGTACCAAATAATTCTTGAC
AGAGACTCTATTATAGATAAGAAAAAAAATTGTGACGAATAA

>g10696.t6 Gene=g10696 Length=338
MVIGGSFFRLYAGINQSMIQRYMALKNVHVARKCQYVYLGGIIILNLMCYYNGLLLYAYF
YDCDPLTTKLAKAKDQLMPLLVMEILRDIPGMPGLFIAGVFSAALSSLSTALNSFSAVVL
EDFCKPFAKDGVSERTSAIIMRMTVLVVGVMSVALVYVVQHMGSVLQLAYTIPSVAFGPM
LGIYIIGLCIPHIGKRATFYGALTGCSVMIAFISKVQIEVALGKISHPIKPVSIDGCTYD
FVATNMTTNINEPSVTERNIFHISFIYYTLLGSVIVIVTSILYSFIVGFNDLSDVDINLL
APFLRKYFKNAERDDEDKKYQIILDRDSIIDKKKNCDE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g10696.t6 Gene3D G3DSA:1.20.1730.10 - 1 296 4.1E-47
2 g10696.t6 PANTHER PTHR42985 SODIUM-COUPLED MONOCARBOXYLATE TRANSPORTER 1 312 6.6E-107
3 g10696.t6 PANTHER PTHR42985:SF5 LP24461P 1 312 6.6E-107
1 g10696.t6 Pfam PF00474 Sodium:solute symporter family 15 205 1.2E-16
14 g10696.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 35 -
21 g10696.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 36 60 -
17 g10696.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 61 94 -
24 g10696.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 95 119 -
13 g10696.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 120 138 -
20 g10696.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 139 159 -
18 g10696.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 160 164 -
23 g10696.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 165 190 -
12 g10696.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 191 196 -
22 g10696.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 197 218 -
16 g10696.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 219 264 -
19 g10696.t6 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 265 289 -
15 g10696.t6 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 290 338 -
11 g10696.t6 ProSiteProfiles PS50283 Sodium:solute symporter family profile. 1 219 22.54
7 g10696.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 36 58 -
4 g10696.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 95 117 -
6 g10696.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 138 160 -
9 g10696.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 170 192 -
5 g10696.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 199 221 -
8 g10696.t6 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 265 287 -

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