Gene loci information

Transcript annotation

  • This transcript has been annotated as hypothetical.

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 g12690 g12690.t2 TTS g12690.t2 25287801 25287801
chr_1 g12690 g12690.t2 isoform g12690.t2 25287807 25289183
chr_1 g12690 g12690.t2 exon g12690.t2.exon1 25287807 25289183
chr_1 g12690 g12690.t2 cds g12690.t2.CDS1 25287807 25289183
chr_1 g12690 g12690.t2 TSS g12690.t2 25289225 25289225

Sequences

>g12690.t2 Gene=g12690 Length=1377
ATGAGTTCAATAAAATTATATTTATTAGAATTATCAGTGTTTCTTTTTAATTTTTCATCT
ATATTAACATCAACATTATTAGTAAATCAAATGTTAAAGCAATCATGCATTCAATTTGGT
TATGAAAAATCATTATGCGATGTAATTAGTGAAAATAACAAGAATACAACAAAAATAGAA
GAAGAACTTCAACCTTATGTTGCAAAAATTAAAGTTGTCATAACTATTTTGAATTCAAGT
GTTCCAGCAGTTTTACAACTTTTCCTCGGATCTTGGTCTGATAAAAATGGAAGGAAAAAA
GTAATAAATTCTGCTGCACTTGGGTTTGTTTTGACACACACATCAATTACTGCAGTTTGC
TATTATTCAGAGAATATTCTTCCATTACCAGCATGGATATTCATAATTTGTTATATTCCT
GTTAATTTTCTTGGTGGATTTTCATCAATTATGATAACAACATTTTGCTATATAACAGAT
ATTTGTGAAAAACCGAATCGACCTTATCATTTCACATTAGTTGAACTTATGATGGTGACG
AGTATATTTTTTGGAGCTATATTATGCTCTTTCATCCTATCAATGTCAAATGTCATATTT
GTGTTTACAACCGCTACTATTTGTACATTATTAGGCGCAATAATTGTTATTATTTTTGTC
GATGAATCAATACAAATAGTACAAAATTCGTCATCAAGTTTAAAAAGTATTCTATCAACA
AAACACATTATAAAAATGATAAGAACTTGTTTTAAATCAAGAAAACTTTATGGAAGGTCA
ATTTTATTAAGTTTAATTTTAATAATGACATTGAATAGATTTGTAAGTGATGAGGAGAAA
ATTATTGGTTATTTATATGAAAGAATGGTCTTTAATTGGACTTTAGAAGATCATAATAAT
TATCAAGCTGTTCGAATTATTGTAAAAGTTTTAGGAACATTTTTTGCAATGTCTGTACTT
AAAAAATTGTTTGGATTTTCTGATATTATTTTGATATGTTTAGCAATTTTTCTAAATTTT
ATTGATAATGTTTTTATAGCATTTGCTTCTCAAACTTGGCATATGTATGCAATATCATTA
ATTTCTTGTATAAAAATGATTATTCATCCTTTGTGTCGATCGATAATTTCCTCAACGGTA
TCTAAAAATGAAATGGGAAAAGTCATGAGTTTCACATCATCAATTGAATCACTTGCAAAT
GTCATTGCACCTACAATTTTGATTGCTATCTATGAAGCAACTTATATCACTTTTCCTGGT
GCATTATTTCTTGTTTGTGCTGCAATTTGCTTTATGAATTTATTTATTGTTTTCTATGTA
ATGATAGTAAGAAGAATTGTTCAAAATATCAAGGAAAAATACACAGAAATTTATTGA

>g12690.t2 Gene=g12690 Length=458
MSSIKLYLLELSVFLFNFSSILTSTLLVNQMLKQSCIQFGYEKSLCDVISENNKNTTKIE
EELQPYVAKIKVVITILNSSVPAVLQLFLGSWSDKNGRKKVINSAALGFVLTHTSITAVC
YYSENILPLPAWIFIICYIPVNFLGGFSSIMITTFCYITDICEKPNRPYHFTLVELMMVT
SIFFGAILCSFILSMSNVIFVFTTATICTLLGAIIVIIFVDESIQIVQNSSSSLKSILST
KHIIKMIRTCFKSRKLYGRSILLSLILIMTLNRFVSDEEKIIGYLYERMVFNWTLEDHNN
YQAVRIIVKVLGTFFAMSVLKKLFGFSDIILICLAIFLNFIDNVFIAFASQTWHMYAISL
ISCIKMIIHPLCRSIISSTVSKNEMGKVMSFTSSIESLANVIAPTILIAIYEATYITFPG
ALFLVCAAICFMNLFIVFYVMIVRRIVQNIKEKYTEIY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
16 g12690.t2 Gene3D G3DSA:1.20.1250.20 MFS general substrate transporter like domains 66 441 1.8E-29
2 g12690.t2 PANTHER PTHR23507 ZGC:174356 6 441 2.4E-70
3 g12690.t2 PANTHER PTHR23507:SF1 ZGC:174356 6 441 2.4E-70
1 g12690.t2 Pfam PF07690 Major Facilitator Superfamily 73 404 1.3E-22
26 g12690.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
31 g12690.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 28 -
22 g12690.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 29 100 -
38 g12690.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 101 119 -
24 g12690.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 120 130 -
30 g12690.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 131 158 -
20 g12690.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 159 169 -
32 g12690.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 170 193 -
27 g12690.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 194 198 -
39 g12690.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 199 220 -
18 g12690.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 221 255 -
37 g12690.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 256 275 -
28 g12690.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 276 301 -
29 g12690.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 302 320 -
19 g12690.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 321 328 -
33 g12690.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 329 349 -
23 g12690.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 350 354 -
36 g12690.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 355 376 -
17 g12690.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 377 396 -
34 g12690.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 397 416 -
25 g12690.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 417 421 -
35 g12690.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 422 443 -
21 g12690.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 444 458 -
15 g12690.t2 SUPERFAMILY SSF103473 MFS general substrate transporter 74 442 2.49E-29
5 g12690.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 6 28 -
6 g12690.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 101 123 -
12 g12690.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 128 150 -
10 g12690.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 171 193 -
11 g12690.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 198 220 -
13 g12690.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 256 275 -
9 g12690.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 301 320 -
14 g12690.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 327 349 -
8 g12690.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 354 376 -
7 g12690.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 397 416 -
4 g12690.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 421 443 -

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: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