Gene loci information

Transcript annotation

  • This transcript has been annotated as Protein O-mannosyltransferase 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_2 g4730 g4730.t3 isoform g4730.t3 4457969 4458663
chr_2 g4730 g4730.t3 exon g4730.t3.exon1 4457969 4458663
chr_2 g4730 g4730.t3 cds g4730.t3.CDS1 4458013 4458663
chr_2 g4730 g4730.t3 TSS g4730.t3 NA NA
chr_2 g4730 g4730.t3 TTS g4730.t3 NA NA

Sequences

>g4730.t3 Gene=g4730 Length=695
CATCTGATCAAAAAGAACGAGAACGACAGCTTTTAAAATCTGAAATGATTCCATTAGAAG
CAATTGAGCTTTCATTCTGGCAGAAATTTAAAGAACTTCAAATTAAAATGTTTTGGCAAT
CGGAAACAATCCAAAATCACATGTATAGCTCAGAACCAATTGAATGGCCGCTGATGTCGA
AATCGATCGCTTATTGGTATAAAAAAGACACAAATGCACAAATTCATCTTCTTGGAAATT
TATTACTTTGGTATTCTTGCTCATTTTCAATTTTTATTTATGCTGCAATTTTTGTTTTTT
ATTTATTGAGAAGAAGACGAAATATTTTTGACCTAAATGAAGAAGAATGGACGAAATTTG
AAAATACTGGTTGTGTTTTGTTTATCGGTTATATTTTCAATTTCTTACCATATTTCTTTG
TTGAAAGAACAATGTTTTTGCACAATTACTTGCCTGCTTTAGTTTTTAAAATTTGTCTTT
TATGTGCAACAATTGAGCATATTTTAAATATTCTGAAAAAATTTAATTTGAGAATTTTAA
TTGTTGCTTACAAGCTTTTAGTTTTGTTTTGGCTCTTATACATCTTACATGTTTTCCAAA
CTTTCCTAAGTGTCAGTTATGGTCGAACTTCATTGACGTCTGATATGATTATGAAATTAA
GATGGAAAGACACTTGGGATTTTATATTTTCATAG

>g4730.t3 Gene=g4730 Length=216
MIPLEAIELSFWQKFKELQIKMFWQSETIQNHMYSSEPIEWPLMSKSIAYWYKKDTNAQI
HLLGNLLLWYSCSFSIFIYAAIFVFYLLRRRRNIFDLNEEEWTKFENTGCVLFIGYIFNF
LPYFFVERTMFLHNYLPALVFKICLLCATIEHILNILKKFNLRILIVAYKLLVLFWLLYI
LHVFQTFLSVSYGRTSLTSDMIMKLRWKDTWDFIFS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g4730.t3 PANTHER PTHR10050 DOLICHYL-PHOSPHATE-MANNOSE–PROTEIN MANNOSYLTRANSFERASE 8 215 7.1E-51
1 g4730.t3 Pfam PF16192 C-terminal four TMM region of protein-O-mannosyltransferase 11 211 1.7E-54
10 g4730.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 66 -
15 g4730.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 67 88 -
8 g4730.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 89 108 -
14 g4730.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 109 126 -
9 g4730.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 127 137 -
13 g4730.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 138 157 -
7 g4730.t3 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 158 163 -
12 g4730.t3 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 164 184 -
11 g4730.t3 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 185 216 -
3 g4730.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 66 88 -
4 g4730.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 109 131 -
6 g4730.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 135 157 -
5 g4730.t3 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 164 186 -

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

There are no GO annotations for this transcript.

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