Gene loci information

Transcript annotation

  • This transcript has been annotated as UDP-N-acetylglucosamine–dolichyl-phosphate N-acetylglucosaminephosphotransferase.

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 g3847 g3847.t5 isoform g3847.t5 28345829 28349583
chr_3 g3847 g3847.t5 exon g3847.t5.exon1 28345829 28346048
chr_3 g3847 g3847.t5 TSS g3847.t5 28345844 28345844
chr_3 g3847 g3847.t5 exon g3847.t5.exon2 28346109 28346304
chr_3 g3847 g3847.t5 cds g3847.t5.CDS1 28346162 28346304
chr_3 g3847 g3847.t5 exon g3847.t5.exon3 28346366 28346938
chr_3 g3847 g3847.t5 cds g3847.t5.CDS2 28346366 28346938
chr_3 g3847 g3847.t5 exon g3847.t5.exon4 28349579 28349583
chr_3 g3847 g3847.t5 cds g3847.t5.CDS3 28349579 28349582
chr_3 g3847 g3847.t5 TTS g3847.t5 28350108 28350108

Sequences

>g3847.t5 Gene=g3847 Length=994
AGTAATAGCAAGACAGTTTAGAGCCACCACTCGAGTAATTTTGATACTTTTTCATAAATA
ATCTTTCTTATAAAAATTCTATTAAGAAAATAAAAATAAGATTCAAATAAAACTATCTAA
TAATTATAACATTTGAATCAATAATGTCAAAAAGAACACGGTAAATCATAATCTTAAAGC
ACATGCATTCTCTTTCATCATTGTATTCTAAATTATACACAAAAACAATAAAGGATTTAA
TCAGCTAATTGTTTGTTTAGATACATAGAGAAAATGTTGTTCTCAATTATTATCAACCTA
GTTATTTCAATATGTGCATACTTTCTTGCATGTAAACTCATACCGGGATTAAAAGAAATG
TTTCTAAAAGCTGGAATCTCTGGAATTGACATGAACAAAAGAAACAAAAACAAAATTCCT
GAAGCATTTGGTGTGGTAACTGGTTGTGTGTTCTTAATCGCACTATTTTGCTTTATTCCA
ATACCATTTGGTCATATATTTTTTGAGGGAAAAACTGATGTGAACTTTCCACATCATGAA
TTTGTGGAATTAATTGCAGCTCTGTTATCAATTTGTTGTATGATTTTACTTGGTTTTGCT
GATGATGTACTTGATCTACGATGGCGTCATAAATTATTATTACCAACTATTGCCTCATTA
CCTCTCTTAATTGTATATTATGTGAATTTCAATTCAACAACTATAATTTTACCAAAGATA
GTTCATAACATTATATCGAAATCAATCGATATTGGATTTCTCTATTACATTTATATGGGA
ATGCTTGCAGTTTTCTGCACAAATGCTATCAATATTTTAGCAGGAATAAATGGATTAGAA
GTGGGTCAATCTATCATCATCTCAAGCTGTGTCATCATTTTTAACATGATTCAAATTATC
AATGACTCGGTTGCAGAGAAACATCAACTCTCATTATATATTATGCTTCCTTACTTGGCT
ACAACTTTAGCTTTGTGGAAATTTAACAAATACC

>g3847.t5 Gene=g3847 Length=240
MLFSIIINLVISICAYFLACKLIPGLKEMFLKAGISGIDMNKRNKNKIPEAFGVVTGCVF
LIALFCFIPIPFGHIFFEGKTDVNFPHHEFVELIAALLSICCMILLGFADDVLDLRWRHK
LLLPTIASLPLLIVYYVNFNSTTIILPKIVHNIISKSIDIGFLYYIYMGMLAVFCTNAIN
ILAGINGLEVGQSIIISSCVIIFNMIQIINDSVAEKHQLSLYIMLPYLATTLALWKFNKY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
25 g3847.t5 CDD cd06855 GT_GPT_euk 23 240 8.84443E-86
2 g3847.t5 PANTHER PTHR10571 UDP-N-ACETYLGLUCOSAMINE–DOLICHYL-PHOSPHATE N-ACETYLGLUCOSAMINEPHOSPHOTRANSFERASE 4 240 9.4E-87
1 g3847.t5 Pfam PF00953 Glycosyl transferase family 4 94 240 8.4E-27
14 g3847.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 5 -
22 g3847.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 6 23 -
11 g3847.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 24 50 -
24 g3847.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 51 70 -
17 g3847.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 71 89 -
19 g3847.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 90 109 -
12 g3847.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 110 120 -
21 g3847.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 121 138 -
16 g3847.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 139 161 -
18 g3847.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 162 183 -
13 g3847.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 184 189 -
20 g3847.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 190 209 -
15 g3847.t5 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 210 220 -
23 g3847.t5 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 221 237 -
10 g3847.t5 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 238 240 -
4 g3847.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 4 26 -
8 g3847.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 53 75 -
3 g3847.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 90 109 -
7 g3847.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 121 140 -
5 g3847.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 160 182 -
9 g3847.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 187 209 -
6 g3847.t5 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 219 238 -

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:0003975 UDP-N-acetylglucosamine-dolichyl-phosphate N-acetylglucosaminephosphotransferase activity MF
GO:0016021 integral component of membrane CC
GO:0006487 protein N-linked glycosylation BP
GO:0006488 dolichol-linked oligosaccharide biosynthetic process BP
GO:0008963 phospho-N-acetylmuramoyl-pentapeptide-transferase 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