Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Solute carrier family 15 member 1.

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 g11732 g11732.t2 TSS g11732.t2 18113547 18113547
chr_1 g11732 g11732.t2 isoform g11732.t2 18113731 18115562
chr_1 g11732 g11732.t2 exon g11732.t2.exon1 18113731 18113764
chr_1 g11732 g11732.t2 cds g11732.t2.CDS1 18113731 18113764
chr_1 g11732 g11732.t2 exon g11732.t2.exon2 18113847 18113941
chr_1 g11732 g11732.t2 cds g11732.t2.CDS2 18113847 18113941
chr_1 g11732 g11732.t2 exon g11732.t2.exon3 18113995 18114302
chr_1 g11732 g11732.t2 cds g11732.t2.CDS3 18113995 18114302
chr_1 g11732 g11732.t2 exon g11732.t2.exon4 18114377 18115562
chr_1 g11732 g11732.t2 cds g11732.t2.CDS4 18114377 18115562
chr_1 g11732 g11732.t2 TTS g11732.t2 18115764 18115764

Sequences

>g11732.t2 Gene=g11732 Length=1623
ATGTTTCGAAATGATTTAAATAATGAAGAAAAACAATATCTTTTTGCTGAAATTCCAAAA
AATGAGGGTAAAAATAAAAGGAAATTATATAGTTCAAATTCATCTTCATATAAAGATATT
AATGTATTGGTAAATCCAGTGTTTCCGATTGCGGTTATTTTAGTCCTTCTCTCTAAAACA
TTTGAAGCCACAGCTGCCAATGGAATAAGAAGTATTTTGAGTCTGTTTTTAAGAGATAGT
TTAATGCTTAGCGAAAGATTTTCAATAATAGTTTTGCACACTTTCAATTTTATTTCTCAA
TTTTTACCCATCATTTCTGCTATAATATCTGATTGTTATTTGGGTACTGTAAAAACTTTA
TTAATATTTTTCGTACCTTACGCAATAGGATATTTTCTACTTTTTGCATCAACATTTCCT
TATCTGTTTACGGCTCATTTACTCGTTTATGCATCATTATTGTTGATTGGTGTTGGAAAT
GGTTTTCTTCGAGCTTGTATAACAACACTAGGTGCAAATCAGTATATTTTACCACAACAA
AGACTTGATCTCGATCGTTATTTTTCTGGATATTACTTTTTCTATTATGTGGGAATATTA
ATAGGAAAAATTTTGCCTCCATATATGAGAAAATCAGTTCTTTTAACATCATATTGTATG
GAAATTGGAGAATGCTATACAACTGTTTTTGGTTTTTTAACAATCACATTTTTGATATCT
TGGATTTTATTTCTGAGTGGATTAAAATTATATAAAAAGGAATATCCAACACTAGACAAT
ACTATGATAAAAACAATCGACTGCATTTTACATGCCGTTATTAGAAAAATTTGTTTAAAA
TCAACTGAAAAAAATTTTCTTGACAATTCTATTGGAAGACATTCTCAAGAATTTGTTGAG
GATGTGAGGACATTTTTAAAAATTATAAAATTGTTCCTTCCATTGCCAATTTTTTACGCG
TTACTCAATCAACAGGACTCAACCTTTACTTTTCAAGCTACTTTGACTGATACTAACATA
ATGGGAATCGAAATTCAACCAGATCAGTTTAAAAGCATTGGGCCAATCATTTTATTAATT
CTTATTCCAATTTGGGAAAAAATTATTACTCCACTGTTAACAAGATGTGGAATTTATTTA
AGTTCTCTTGAGTGTATGTTCATTGGTTGTCTTTTTGCAACACTGAGCTTTGTTTGTGCA
GGTTTATTACAACATTTTATAATTGTTGAGAGTAGTGTGAAGCAGTATTCAGTGTTATGG
CAATTTCCCCAATTTTTATTTATAATGATTGCTGAACTTCTAATTTCTATTCATGGACTG
AAATATGCTTATACCAATGCACCAAGTAGTATGAAATCATTATTAACTGCAATATTTTTC
ATGAATAATGCCTTTGGAAATTTATTGGTGATAATTATTACTCAAATTGGTTTGTTTAAA
GAAAATCATGCTATGGATTTTCTTTTTTATGCATTCTTTATGTTAATAGCAACAATATTG
ATTAAATTTTTAGCACATTCTCATGACAAAGACTTTTCACAAGATATAAATGAAGAAAAA
ACTTTTGAAGCATTTATTTGTGTTAATGAAATTCAAGCAAGTAATATGGAAGAAAACATC
TAA

>g11732.t2 Gene=g11732 Length=540
MFRNDLNNEEKQYLFAEIPKNEGKNKRKLYSSNSSSYKDINVLVNPVFPIAVILVLLSKT
FEATAANGIRSILSLFLRDSLMLSERFSIIVLHTFNFISQFLPIISAIISDCYLGTVKTL
LIFFVPYAIGYFLLFASTFPYLFTAHLLVYASLLLIGVGNGFLRACITTLGANQYILPQQ
RLDLDRYFSGYYFFYYVGILIGKILPPYMRKSVLLTSYCMEIGECYTTVFGFLTITFLIS
WILFLSGLKLYKKEYPTLDNTMIKTIDCILHAVIRKICLKSTEKNFLDNSIGRHSQEFVE
DVRTFLKIIKLFLPLPIFYALLNQQDSTFTFQATLTDTNIMGIEIQPDQFKSIGPIILLI
LIPIWEKIITPLLTRCGIYLSSLECMFIGCLFATLSFVCAGLLQHFIIVESSVKQYSVLW
QFPQFLFIMIAELLISIHGLKYAYTNAPSSMKSLLTAIFFMNNAFGNLLVIIITQIGLFK
ENHAMDFLFYAFFMLIATILIKFLAHSHDKDFSQDINEEKTFEAFICVNEIQASNMEENI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g11732.t2 Gene3D G3DSA:1.20.1250.20 MFS general substrate transporter like domains 43 513 5.4E-92
3 g11732.t2 PANTHER PTHR11654 OLIGOPEPTIDE TRANSPORTER-RELATED 62 410 1.9E-61
5 g11732.t2 PANTHER PTHR11654:SF465 - 62 410 1.9E-61
2 g11732.t2 PANTHER PTHR11654 OLIGOPEPTIDE TRANSPORTER-RELATED 413 513 1.9E-61
4 g11732.t2 PANTHER PTHR11654:SF465 - 413 513 1.9E-61
1 g11732.t2 Pfam PF00854 POT family 118 475 1.2E-67
23 g11732.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 39 -
34 g11732.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 40 58 -
30 g11732.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 59 86 -
32 g11732.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 87 109 -
22 g11732.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 110 120 -
39 g11732.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 121 143 -
29 g11732.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 144 148 -
35 g11732.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 149 170 -
21 g11732.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 171 190 -
37 g11732.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 191 209 -
27 g11732.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 210 228 -
36 g11732.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 229 248 -
19 g11732.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 249 303 -
40 g11732.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 304 322 -
28 g11732.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 323 352 -
38 g11732.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 353 373 -
18 g11732.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 374 384 -
31 g11732.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 385 408 -
26 g11732.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 409 419 -
33 g11732.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 420 442 -
20 g11732.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 443 453 -
42 g11732.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 454 475 -
25 g11732.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 476 486 -
41 g11732.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 487 505 -
24 g11732.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 506 540 -
16 g11732.t2 SUPERFAMILY SSF103473 MFS general substrate transporter 52 518 5.75E-11
9 g11732.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 40 57 -
6 g11732.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 87 109 -
14 g11732.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 121 143 -
10 g11732.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 147 166 -
15 g11732.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 187 209 -
8 g11732.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 229 251 -
11 g11732.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 386 408 -
12 g11732.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 418 440 -
7 g11732.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 453 475 -
13 g11732.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 485 507 -

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.

Raw TPM values