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.t4 TSS g10696.t4 11404019 11404019
chr_1 g10696 g10696.t4 isoform g10696.t4 11404633 11406491
chr_1 g10696 g10696.t4 exon g10696.t4.exon1 11404633 11404925
chr_1 g10696 g10696.t4 exon g10696.t4.exon2 11404993 11405074
chr_1 g10696 g10696.t4 exon g10696.t4.exon3 11405206 11405377
chr_1 g10696 g10696.t4 cds g10696.t4.CDS1 11405265 11405377
chr_1 g10696 g10696.t4 exon g10696.t4.exon4 11405435 11406491
chr_1 g10696 g10696.t4 cds g10696.t4.CDS2 11405435 11406491
chr_1 g10696 g10696.t4 TTS g10696.t4 11406509 11406509

Sequences

>g10696.t4 Gene=g10696 Length=1604
GGTAAGACATTTTTCTGACTTCTTTTCAAGAGCATGCTCGTATGTTCACAATTTTTATTT
CGAAGAAAATTCTCATCATTACCTACAGAATTTAATTAAAAAAATTCTTTGATAAATGAA
ACTTTTTAATAAGTTCATTTTTTTTCTCGAGCTTTCTAACTTTCAATTTCTTTTTATGTG
GCTTTTATAATTAAAATGGTACTTTTTAGTACCTCCAAATGAGATTTGATGTTAAAGTAT
GTATTTTTGGTTCAGCAATGTATTCATTATCAACTTTATTATGGATGCCAATTGCTATTT
ATGTACCAGCTTTAGCATTCAGTCAAACAACTGGTATTGATGTACACATGATTACACCTA
TCGTGATGGGCATCTTATATTATATGTTCTTACACAACATGTAGGCTGTTGTATGGACTG
ATGTTATTCAGATTATGCTCATGTATGGAACATTAGTTGTGATTATTGTTAGAGGCACTT
CACTCGTTGGAGGATTTTCTGTAGTCATAGAGAAAAATATTGAGAGTGGAAGACTGGCAC
CACCTGATTTTAATTTTGATCCTACTTTGAGAACTTCATTTTGGATAATGGTCATTGGTG
GTTCATTTTTTCGTTTATATGCTGGAATAAATCAATCAATGATACAGCGATATATGGCAT
TGAAGAACGTCCATGTAGCACGAAAATGTCAATATGTCTATTTAGGTGGAATAATTATTT
TGAATCTCATGTGTTATTACAATGGTCTACTACTTTATGCTTATTTTTATGATTGTGATC
CATTGACAACAAAATTGGCAAAGGCAAAAGATCAATTAATGCCACTCTTGGTGATGGAAA
TATTGCGAGATATTCCTGGAATGCCTGGATTATTTATAGCTGGTGTGTTTTCTGCTGCAC
TTTCATCACTTTCAACAGCTTTAAACTCATTTTCTGCGGTTGTTCTCGAGGACTTTTGCA
AACCATTTGCAAAGGATGGTGTGTCAGAACGAACAAGTGCAATAATAATGCGTATGACAG
TGTTAGTGGTTGGAGTGATGAGCGTAGCTCTTGTATATGTTGTGCAGCATATGGGATCCG
TGCTTCAACTAGCATACACTATACCATCAGTTGCATTCGGGCCGATGTTGGGCATTTATA
TAATTGGACTTTGTATTCCGCACATTGGAAAACGTGCGACATTCTATGGAGCTTTGACCG
GATGTAGTGTAATGATTGCTTTCATTTCGAAAGTACAAATTGAAGTTGCTTTGGGCAAAA
TTAGTCACCCAATAAAACCAGTCTCAATTGATGGTTGTACATACGATTTTGTAGCTACTA
ATATGACAACAAACATCAATGAGCCTTCAGTTACGGAAAGAAATATCTTTCACATTTCAT
TTATATATTACACTCTACTGGGGTCGGTTATCGTTATCGTAACATCAATACTATACAGTT
TTATTGTGGGCTTCAATGATCTTAGTGATGTCGATATTAATTTGCTTGCTCCTTTCCTGA
GAAAATACTTTAAGAATGCAGAAAGAGATGATGAAGACAAAAAGTACCAAATAATTCTTG
ACAGAGACTCTATTATAGATAAGAAAAAAAATTGTGACGAATAA

>g10696.t4 Gene=g10696 Length=389
MLMYGTLVVIIVRGTSLVGGFSVVIEKNIESGRLAPPDFNFDPTLRTSFWIMVIGGSFFR
LYAGINQSMIQRYMALKNVHVARKCQYVYLGGIIILNLMCYYNGLLLYAYFYDCDPLTTK
LAKAKDQLMPLLVMEILRDIPGMPGLFIAGVFSAALSSLSTALNSFSAVVLEDFCKPFAK
DGVSERTSAIIMRMTVLVVGVMSVALVYVVQHMGSVLQLAYTIPSVAFGPMLGIYIIGLC
IPHIGKRATFYGALTGCSVMIAFISKVQIEVALGKISHPIKPVSIDGCTYDFVATNMTTN
INEPSVTERNIFHISFIYYTLLGSVIVIVTSILYSFIVGFNDLSDVDINLLAPFLRKYFK
NAERDDEDKKYQIILDRDSIIDKKKNCDE

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g10696.t4 Gene3D G3DSA:1.20.1730.10 - 1 347 9.0E-54
2 g10696.t4 PANTHER PTHR42985 SODIUM-COUPLED MONOCARBOXYLATE TRANSPORTER 2 363 1.2E-128
3 g10696.t4 PANTHER PTHR42985:SF5 LP24461P 2 363 1.2E-128
1 g10696.t4 Pfam PF00474 Sodium:solute symporter family 2 256 1.2E-18
15 g10696.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 6 -
26 g10696.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 7 25 -
22 g10696.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 26 44 -
29 g10696.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 45 65 -
16 g10696.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 66 85 -
28 g10696.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 86 111 -
21 g10696.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 112 145 -
24 g10696.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 146 170 -
17 g10696.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 171 189 -
27 g10696.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 190 210 -
20 g10696.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 211 215 -
30 g10696.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 216 241 -
14 g10696.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 242 247 -
23 g10696.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 248 269 -
19 g10696.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 270 315 -
25 g10696.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 316 340 -
18 g10696.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 341 389 -
13 g10696.t4 ProSiteProfiles PS50283 Sodium:solute symporter family profile. 1 270 23.244
8 g10696.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 2 24 -
9 g10696.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 44 66 -
4 g10696.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 87 109 -
10 g10696.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 146 168 -
7 g10696.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 189 211 -
5 g10696.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 221 243 -
11 g10696.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 250 272 -
6 g10696.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 316 338 -

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