Gene loci information

Transcript annotation

  • This transcript has been annotated as Alpha-1,6-mannosyl-glycoprotein 2-beta-N-acetylglucosaminyltransferase.

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 g5154 g5154.t5 TTS g5154.t5 7321316 7321316
chr_2 g5154 g5154.t5 isoform g5154.t5 7321716 7322787
chr_2 g5154 g5154.t5 exon g5154.t5.exon1 7321716 7322612
chr_2 g5154 g5154.t5 cds g5154.t5.CDS1 7321716 7322549
chr_2 g5154 g5154.t5 exon g5154.t5.exon2 7322687 7322787
chr_2 g5154 g5154.t5 TSS g5154.t5 7322893 7322893

Sequences

>g5154.t5 Gene=g5154 Length=998
ATGAGACGACCTAATAGGCGTATGTTTTTTACTCTTGTTCTTATCATTTTTTGGTTTACG
GGAATAATTTTTGTCAAAATAAAAGAAACATCATTTGGTAAAATTGTACAAATACTGATG
CATCAACAAATTTTCAATTCTTATCACTTGCAAGACTTATTAAAATGCATAATGAAGAGC
AGAGAATTTTAAATATTGAGCGCTATGGACCGATAACGAAAGACACATTTTTCATAACAA
TTCAAGTTCACAATCGGATTGCATATTTGCGACATCTTGTTGACAGTTTGAAGAAAGCAA
AAAATATTGATAAAGCGCTTTTAATTTTTTCACATGATTTATATGACAACGAAATTAATG
AATTGATAAGATCAATTGATTTTTGTATGGTTTTACAAATTTTCTATCCTTATTCAATTC
AAATTTATTCAAATGTTTTTCCTGGAACTGATGTCAATGATTGTCCTAGAAATATAAAGA
AAATTGATGCAATTGTTAAGAAATGCAATAATTTTGATCATCCTGATTCTTATGGACATT
ATCGAGAAGCAAAATTTACACAAATGAAACATCATTGGTGGTGGAAGTTAAATAGAATTT
TTGATGAATTGAATGTTACAAAAGAACTTGATATAAGATTGTTGCTACTTGAAGAAGATC
ATTTTGTTGCTGAAGATTTTCTCTACATTTACAAAGAAATGCAAAAACAAATTTCATTTG
AATGTCCAAAATGTAACATAATTGCACTTGGAACTTATGAAGAAAAACTTAATGAAAATA
CTTATAATAAAATTGAAATTTCACCATGGACAACTAATATTCATAATATGGGAATGGCAT
TAAATAAGACAACATGGAAGGCTGTGAAAAATTGTGCAGAATATTTTTGCACTTATGATG
AATATAATTATGACTTTAGTTTGCAAAATATCAACATAAGATGCCTAAAAGATAAACTTT
TTACTGCATTAATTCGTGGTCCTCGAATTTTTCATACA

>g5154.t5 Gene=g5154 Length=278
MHNEEQRILNIERYGPITKDTFFITIQVHNRIAYLRHLVDSLKKAKNIDKALLIFSHDLY
DNEINELIRSIDFCMVLQIFYPYSIQIYSNVFPGTDVNDCPRNIKKIDAIVKKCNNFDHP
DSYGHYREAKFTQMKHHWWWKLNRIFDELNVTKELDIRLLLLEEDHFVAEDFLYIYKEMQ
KQISFECPKCNIIALGTYEEKLNENTYNKIEISPWTTNIHNMGMALNKTTWKAVKNCAEY
FCTYDEYNYDFSLQNINIRCLKDKLFTALIRGPRIFHT

Protein features from InterProScan

Transcript Database ID Name Start End E.value
2 g5154.t5 PANTHER PTHR12871 BETA-1,2-N-ACETYLGLUCOSAMINYLTRANSFERASE II 2 277 0e+00
3 g5154.t5 PANTHER PTHR12871:SF0 ALPHA-1,6-MANNOSYL-GLYCOPROTEIN 2-BETA-N-ACETYLGLUCOSAMINYLTRANSFERASE 2 277 0e+00
1 g5154.t5 Pfam PF05060 N-acetylglucosaminyltransferase II (MGAT2) 2 278 0e+00
4 g5154.t5 SUPERFAMILY SSF53448 Nucleotide-diphospho-sugar transferases 24 254 2e-06

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

Data is missing for g5154/g5154.t5; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5154.t5.fa.iupred3.txt does not exist

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0008455 alpha-1,6-mannosylglycoprotein 2-beta-N-acetylglucosaminyltransferase activity MF
GO:0005795 Golgi stack CC
GO:0016021 integral component of membrane CC
GO:0009312 oligosaccharide biosynthetic process BP

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