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_4 g15009 g15009.t2 isoform g15009.t2 3503177 3509080
chr_4 g15009 g15009.t2 exon g15009.t2.exon1 3503177 3504235
chr_4 g15009 g15009.t2 cds g15009.t2.CDS1 3503177 3504235
chr_4 g15009 g15009.t2 exon g15009.t2.exon2 3504299 3504495
chr_4 g15009 g15009.t2 cds g15009.t2.CDS2 3504299 3504495
chr_4 g15009 g15009.t2 exon g15009.t2.exon3 3504546 3504654
chr_4 g15009 g15009.t2 cds g15009.t2.CDS3 3504546 3504597
chr_4 g15009 g15009.t2 exon g15009.t2.exon4 3509051 3509080
chr_4 g15009 g15009.t2 TSS g15009.t2 NA NA
chr_4 g15009 g15009.t2 TTS g15009.t2 NA NA

Sequences

>g15009.t2 Gene=g15009 Length=1395
GCTGAATTAAGAAAAAATAATTTAAAAATAGTATTTATACTGTTTTGCCTTGTTTTATTT
GTTATTTCTATTTGAATCATTTTAAAAATGTTTTTATTTCAAAATTTATATTTAAGACAA
TTAATAGCAATCATTCCAGCTGGTTTAATTGCAATATGTTGTGGAATTCAACTTGCTTAT
GGAATTTTCAACACAACTCTTAGTCAAAGTGGCTGGATGTTTGATTACTCACTTGCTGCT
ATTGCAATGGTTCCAATTGCTTTTCACATAGCATCAATTTTTGGTTCTTTCCTTGGTTGC
TTTTTATATTACAAAACAGACATATTTTGGATTCATTTTACATCATCAATTTTCATGATA
ATTGGATCAATTCTCTTTGCAATACCATCAAATTTTTTCTACATAATTTTAACTTCGAGA
ATTCTAACAGGATTTTCTTTTGGCATCACTTTTAACACTGCTTTAATTTACATCTCAGAA
ATTTCTTCACCATCAAATCGTGCTCGAAATCTTTGCATTTTTAATTTTAATCTTGTGCTT
GGAATGTTTTTACAAACATGTCTTCAAAGATTCCAACTTATTGCTGGAACAATTTCTTTA
GGACTTGCAATTGCATCATTACCAATTGCATATTATAAAATGCCACCATCATATGTGTTT
TTAATCTTAAATTCACGTGACAGTCATGACAGTTTTCTTTATTTTCAAAATAACAAAATG
AATTCAAGTTATGAAGATTTTAAAGTCAGTATTATGACAGAGACGACAAAAAAATTAAAT
TTGAAATCAACACAAAATATTCGATCACTTGGAATGGTCCTAATGGCAGCAATTGGGTAT
TTTGCAGTTTTTAATGCATTTCATAATCATCTTAGACTTGTATTTATGAAAAGTTATTTG
ATGGAATTTACAGAAATGTCTGCAATGGGTTGTCAATTAATTGGTAGTTTTATGATCATT
CTGGTCATTGAAGAATTGCACAAAAAATGGATTTTTTCATCATCTGCTTTTATGGGTGCA
ATAATTCTGAGTGGCTTTGGCAGCATTTTAATTTTAATTAATTTTTATTATTTTATTCCT
GCAATTTTCTTTTTAACTTTTGAATTTTTCATTGGATTTGGTTTGAATGCAATTTGTCAT
ATTCTCAAAGCTGAATTATTTACGTTAAGAGAAAAGCCATTTTTTGTAGCTTTGTCTTGC
ATGATTCAAGAATTATTACAAATTGCTGCTCTCATTGTTGTTTATAGTTATGGTTTAAGT
CTTGGAAGTAATCCACTTTATTGGCCCTTTCTTTTTGCACCAACTGTTTTTGTAACTGGA
ATTTTTATAATGCTTTATTTAAAAGATACAAGAATGCTGTCATTGATGGAAGTTAATAAA
CTTTATGAAAAGTAA

>g15009.t2 Gene=g15009 Length=435
MFLFQNLYLRQLIAIIPAGLIAICCGIQLAYGIFNTTLSQSGWMFDYSLAAIAMVPIAFH
IASIFGSFLGCFLYYKTDIFWIHFTSSIFMIIGSILFAIPSNFFYIILTSRILTGFSFGI
TFNTALIYISEISSPSNRARNLCIFNFNLVLGMFLQTCLQRFQLIAGTISLGLAIASLPI
AYYKMPPSYVFLILNSRDSHDSFLYFQNNKMNSSYEDFKVSIMTETTKKLNLKSTQNIRS
LGMVLMAAIGYFAVFNAFHNHLRLVFMKSYLMEFTEMSAMGCQLIGSFMIILVIEELHKK
WIFSSSAFMGAIILSGFGSILILINFYYFIPAIFFLTFEFFIGFGLNAICHILKAELFTL
REKPFFVALSCMIQELLQIAALIVVYSYGLSLGSNPLYWPFLFAPTVFVTGIFIMLYLKD
TRMLSLMEVNKLYEK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g15009.t2 Gene3D G3DSA:1.20.1250.20 MFS general substrate transporter like domains 10 435 1.0E-27
2 g15009.t2 PANTHER PTHR23529 GH19118P-RELATED 9 435 1.0E-23
1 g15009.t2 Pfam PF00083 Sugar (and other) transporter 33 433 2.5E-16
19 g15009.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
34 g15009.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 34 -
28 g15009.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 35 48 -
37 g15009.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 49 73 -
23 g15009.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 74 79 -
33 g15009.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 80 99 -
30 g15009.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 100 104 -
40 g15009.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 105 127 -
22 g15009.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 128 138 -
41 g15009.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 139 156 -
29 g15009.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 157 161 -
35 g15009.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 162 183 -
24 g15009.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 184 237 -
31 g15009.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 238 258 -
26 g15009.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 259 277 -
32 g15009.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 278 294 -
20 g15009.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 295 305 -
39 g15009.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 306 327 -
27 g15009.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 328 332 -
38 g15009.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 333 353 -
18 g15009.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 354 364 -
36 g15009.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 365 386 -
25 g15009.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 387 397 -
42 g15009.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 398 418 -
21 g15009.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 419 435 -
16 g15009.t2 ProSitePatterns PS00217 Sugar transport proteins signature 2. 113 138 -
15 g15009.t2 SUPERFAMILY SSF103473 MFS general substrate transporter 21 422 1.83E-17
6 g15009.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 13 35 -
12 g15009.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 50 72 -
9 g15009.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 79 101 -
7 g15009.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 107 129 -
11 g15009.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 142 159 -
8 g15009.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 164 183 -
14 g15009.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 237 259 -
3 g15009.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 274 295 -
5 g15009.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 302 324 -
4 g15009.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 329 351 -
13 g15009.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 364 386 -
10 g15009.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 396 418 -

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:0016021 integral component of membrane CC
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