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.t4 TTS g12690.t4 25287801 25287801
chr_1 g12690 g12690.t4 isoform g12690.t4 25287807 25289183
chr_1 g12690 g12690.t4 exon g12690.t4.exon1 25287807 25288792
chr_1 g12690 g12690.t4 cds g12690.t4.CDS1 25287807 25288792
chr_1 g12690 g12690.t4 exon g12690.t4.exon2 25288946 25289183
chr_1 g12690 g12690.t4 cds g12690.t4.CDS2 25288946 25289183
chr_1 g12690 g12690.t4 TSS g12690.t4 25289225 25289225

Sequences

>g12690.t4 Gene=g12690 Length=1224
ATGAGTTCAATAAAATTATATTTATTAGAATTATCAGTGTTTCTTTTTAATTTTTCATCT
ATATTAACATCAACATTATTAGTAAATCAAATGTTAAAGCAATCATGCATTCAATTTGGT
TATGAAAAATCATTATGCGATGTAATTAGTGAAAATAACAAGAATACAACAAAAATAGAA
GAAGAACTTCAACCTTATGTTGCAAAAATTAAAGTTGTCATAACTATTTTGAATTCAACA
TGGATATTCATAATTTGTTATATTCCTGTTAATTTTCTTGGTGGATTTTCATCAATTATG
ATAACAACATTTTGCTATATAACAGATATTTGTGAAAAACCGAATCGACCTTATCATTTC
ACATTAGTTGAACTTATGATGGTGACGAGTATATTTTTTGGAGCTATATTATGCTCTTTC
ATCCTATCAATGTCAAATGTCATATTTGTGTTTACAACCGCTACTATTTGTACATTATTA
GGCGCAATAATTGTTATTATTTTTGTCGATGAATCAATACAAATAGTACAAAATTCGTCA
TCAAGTTTAAAAAGTATTCTATCAACAAAACACATTATAAAAATGATAAGAACTTGTTTT
AAATCAAGAAAACTTTATGGAAGGTCAATTTTATTAAGTTTAATTTTAATAATGACATTG
AATAGATTTGTAAGTGATGAGGAGAAAATTATTGGTTATTTATATGAAAGAATGGTCTTT
AATTGGACTTTAGAAGATCATAATAATTATCAAGCTGTTCGAATTATTGTAAAAGTTTTA
GGAACATTTTTTGCAATGTCTGTACTTAAAAAATTGTTTGGATTTTCTGATATTATTTTG
ATATGTTTAGCAATTTTTCTAAATTTTATTGATAATGTTTTTATAGCATTTGCTTCTCAA
ACTTGGCATATGTATGCAATATCATTAATTTCTTGTATAAAAATGATTATTCATCCTTTG
TGTCGATCGATAATTTCCTCAACGGTATCTAAAAATGAAATGGGAAAAGTCATGAGTTTC
ACATCATCAATTGAATCACTTGCAAATGTCATTGCACCTACAATTTTGATTGCTATCTAT
GAAGCAACTTATATCACTTTTCCTGGTGCATTATTTCTTGTTTGTGCTGCAATTTGCTTT
ATGAATTTATTTATTGTTTTCTATGTAATGATAGTAAGAAGAATTGTTCAAAATATCAAG
GAAAAATACACAGAAATTTATTGA

>g12690.t4 Gene=g12690 Length=407
MSSIKLYLLELSVFLFNFSSILTSTLLVNQMLKQSCIQFGYEKSLCDVISENNKNTTKIE
EELQPYVAKIKVVITILNSTWIFIICYIPVNFLGGFSSIMITTFCYITDICEKPNRPYHF
TLVELMMVTSIFFGAILCSFILSMSNVIFVFTTATICTLLGAIIVIIFVDESIQIVQNSS
SSLKSILSTKHIIKMIRTCFKSRKLYGRSILLSLILIMTLNRFVSDEEKIIGYLYERMVF
NWTLEDHNNYQAVRIIVKVLGTFFAMSVLKKLFGFSDIILICLAIFLNFIDNVFIAFASQ
TWHMYAISLISCIKMIIHPLCRSIISSTVSKNEMGKVMSFTSSIESLANVIAPTILIAIY
EATYITFPGALFLVCAAICFMNLFIVFYVMIVRRIVQNIKEKYTEIY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
14 g12690.t4 Gene3D G3DSA:1.20.1250.20 MFS general substrate transporter like domains 72 390 5.4E-22
2 g12690.t4 PANTHER PTHR23507 ZGC:174356 73 390 3.4E-50
3 g12690.t4 PANTHER PTHR23507:SF1 ZGC:174356 73 390 3.4E-50
1 g12690.t4 Pfam PF07690 Major Facilitator Superfamily 76 353 3.4E-14
15 g12690.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 6 -
32 g12690.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 7 28 -
25 g12690.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 29 80 -
31 g12690.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 81 108 -
18 g12690.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 109 119 -
33 g12690.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 120 142 -
23 g12690.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 143 147 -
28 g12690.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 148 169 -
19 g12690.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 170 204 -
30 g12690.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 205 224 -
21 g12690.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 225 250 -
34 g12690.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 251 269 -
17 g12690.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 270 277 -
35 g12690.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 278 298 -
22 g12690.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 299 303 -
29 g12690.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 304 325 -
20 g12690.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 326 345 -
27 g12690.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 346 365 -
24 g12690.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 366 370 -
26 g12690.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 371 392 -
16 g12690.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 393 407 -
13 g12690.t4 SUPERFAMILY SSF103473 MFS general substrate transporter 74 391 7.59E-22
5 g12690.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 6 28 -
4 g12690.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 81 103 -
12 g12690.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 118 140 -
8 g12690.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 147 169 -
7 g12690.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 205 224 -
10 g12690.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 272 294 -
11 g12690.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 304 326 -
6 g12690.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 346 365 -
9 g12690.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 370 392 -

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