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_3 g4084 g4084.t12 TSS g4084.t12 30504329 30504329
chr_3 g4084 g4084.t12 isoform g4084.t12 30504848 30505984
chr_3 g4084 g4084.t12 exon g4084.t12.exon1 30504848 30505285
chr_3 g4084 g4084.t12 cds g4084.t12.CDS1 30505246 30505285
chr_3 g4084 g4084.t12 exon g4084.t12.exon2 30505339 30505559
chr_3 g4084 g4084.t12 cds g4084.t12.CDS2 30505339 30505559
chr_3 g4084 g4084.t12 exon g4084.t12.exon3 30505937 30505984
chr_3 g4084 g4084.t12 cds g4084.t12.CDS3 30505937 30505954
chr_3 g4084 g4084.t12 TTS g4084.t12 30505973 30505973

Sequences

>g4084.t12 Gene=g4084 Length=707
GAGAAGGACTTTCTGGTTTATTGCCTGGTGTTTTAGGCTTAATTCAAGGTGTTGGAGGAA
ATGCTCAATGTATTCCTAATGAAGATTTAGATGACCCAAAATATGTACAATATTTTCCAC
CACCTCGTTTCTCAACACAGACCTTCTTCATCATCATTTCCTCACTCTTTATTGCAAGCT
TAATTGCCTTCATTTTACTTGATCAATTAAAATCAGTTAAAAAAGAATATGCAAATGTGA
CAATTTCACATGGTAACAAATATGAATACAATAGGAATGCTGAAAATGAAGAACATAAAG
TGAATAATGAAACAGATAGAAAGAAGCCTGAAGAGAAAATTAAGAAGCTATCGGTTGCAA
ATTATCATGGATTACTTGTGCTTCTTGGAACAATTTGTATGTTTACAAATGCAATTGTGC
CCTCTATCATGCCTTTTGGTACATTACCTTACGGAAATGTGACTTATCATCTGAGTGTGA
CTTTATCCGCAATTGCAAATCCAGTGGCATGTTTTATAGCAGTTTTTCTCACTGGTACAT
CAATTCGAAATATAATAACGCTGTCTATTACTTCTTTGCCTTTTGTGATATATTCTATGA
CTACATCTGTAATGTCACCGTCACCTCCAATGATGGACACAATTTACGGTGAATTTTTTA
ACAATAAAAGAAATTAAATTGTTGCCTTTTATATACTTTAGAATAAA

>g4084.t12 Gene=g4084 Length=92
MFTNAIVPSIMPFGTLPYGNVTYHLSVTLSAIANPVACFIAVFLTGTSIRNIITLSITSL
PFVIYSMTTSVMSPSPPMMDTIYGEFFNNKRN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g4084.t12 PANTHER PTHR12929 SOLUTE CARRIER FAMILY 52 2 86 4.2E-21
1 g4084.t12 Pfam PF06237 Protein of unknown function (DUF1011) 1 84 2.4E-26
6 g4084.t12 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 20 -
9 g4084.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 21 45 -
5 g4084.t12 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 46 51 -
8 g4084.t12 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 52 72 -
7 g4084.t12 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 73 92 -
4 g4084.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 22 44 -
3 g4084.t12 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 51 73 -

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:0005887 integral component of plasma membrane CC
GO:0032218 riboflavin transport BP
GO:0032217 riboflavin 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