Gene loci information

Transcript annotation

  • This transcript has been annotated as Alpha-1,3-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 g8598 g8598.t1 TTS g8598.t1 31662271 31662271
chr_2 g8598 g8598.t1 isoform g8598.t1 31662657 31664397
chr_2 g8598 g8598.t1 exon g8598.t1.exon1 31662657 31662767
chr_2 g8598 g8598.t1 cds g8598.t1.CDS1 31662657 31662767
chr_2 g8598 g8598.t1 exon g8598.t1.exon2 31662841 31663102
chr_2 g8598 g8598.t1 cds g8598.t1.CDS2 31662841 31663102
chr_2 g8598 g8598.t1 exon g8598.t1.exon3 31663162 31663285
chr_2 g8598 g8598.t1 cds g8598.t1.CDS3 31663162 31663285
chr_2 g8598 g8598.t1 exon g8598.t1.exon4 31663347 31663477
chr_2 g8598 g8598.t1 cds g8598.t1.CDS4 31663347 31663477
chr_2 g8598 g8598.t1 exon g8598.t1.exon5 31663545 31663623
chr_2 g8598 g8598.t1 cds g8598.t1.CDS5 31663545 31663623
chr_2 g8598 g8598.t1 exon g8598.t1.exon6 31663683 31663884
chr_2 g8598 g8598.t1 cds g8598.t1.CDS6 31663683 31663884
chr_2 g8598 g8598.t1 exon g8598.t1.exon7 31663945 31664397
chr_2 g8598 g8598.t1 cds g8598.t1.CDS7 31663945 31664397
chr_2 g8598 g8598.t1 TSS g8598.t1 31664495 31664495

Sequences

>g8598.t1 Gene=g8598 Length=1362
ATGAGAGCGAATAAACGTTTTCTACTTGCTCTTGGCATAATTGGTGTATGGTCGTTGCTC
ACATATCTAATTGTAATTAAAAATCACGATTATCAACAAAGTGGAAAATCAAAATTTCAC
GAGCGAATAATTTCACTAGAAAATGAAATTAGAAAAGAAACTGAAGATCGTAAAGACCTC
ATATCGCGATATCAAAATTTAATAAAAGTTCTAAGTGCACCAACAACTGCACTACCGATA
ATAAATGATAATAATATAAAAGAGAATGAAGTGGAACAGAATCAACTAAACAATAAAATA
AATTTCATTGGAAAGTATATTGATAATGATAACAATCGGCCTGTGATTCCAGTTATTGTT
ATCGCATGCAACCGCGTTTCAATTTCACGATCACTCGACCTTCTCATCAAATATCGTCCC
AATCGCGATCAATTTCCCATAATTGTGTCTCAGGATTGTGGTGATGAAGCAACACGTGAA
GTAATTTTATCATATAAGGATGAAGTGCAATTAGTACAGCAGCCAGATTTAAGTGACATT
GAAGTTCCACCAAAGGATAAAAAATTCAAAGGATATTATAAAATTTCTCGTCATTACAAT
TGGGCCTTAAATCTTGTGTTCTCTTATGGCTATGAATTTGTGATCATCGTTGAAGATGAC
CTTGATGTGGCACCCGACTTTTATGAATACTTTTTAGGAACGTTTCCACTTCTACGTGCT
GATAATACTTTATGGTGTGTTTCAGGTTGGAATGATAACGGAAAAGCTGGGTTAATTGAT
GAATCAGCTCCTGATTTGCTCTATCGTTCCGATTTCTTTCCTGGCCTCGGTTGGATGATG
AGTAAAAAATTATGGGATGAAATTGGACCAAAATGGCCAAAAGCATTTTGGGATGATTGG
ATAAGAAATCCAGAACAGAGACTGAATAGAGCATGCATACGACCAGAGTTGCCGCGAACA
AGAACATTCGGAAAAATTGGGGTTTCAAATGGTTTATTCTTTGAAAAACATTTAAAATAT
ATAAAATTAAGTGAAACTCCAGTTGAATTTTCAAAAAAAGATTTGAGTTATTTATTAAAA
GAGAATTATGATAAACAATTTGTCGAAGAAGTTTATAAAATTCCTGTTGTGACATTTGAG
GAATTAAGGAAAGGTCTTGTGAAAGTTGATGGGCCTGTGAGAATACAATACAATAATAGA
AATCAATATAAATTAGCGGCAAAGAATTTAGGAATCATGGAAGATTTTAAGAGTGGTGTT
CCAAGAACAGCTTATGCTGGCATCGTATCAGCATTTTATCAAAATCGTCGTGTATATTTA
GCGCCAAGTGCAAATTGGAAAGGCTACGATCCATCATGGTGA

>g8598.t1 Gene=g8598 Length=453
MRANKRFLLALGIIGVWSLLTYLIVIKNHDYQQSGKSKFHERIISLENEIRKETEDRKDL
ISRYQNLIKVLSAPTTALPIINDNNIKENEVEQNQLNNKINFIGKYIDNDNNRPVIPVIV
IACNRVSISRSLDLLIKYRPNRDQFPIIVSQDCGDEATREVILSYKDEVQLVQQPDLSDI
EVPPKDKKFKGYYKISRHYNWALNLVFSYGYEFVIIVEDDLDVAPDFYEYFLGTFPLLRA
DNTLWCVSGWNDNGKAGLIDESAPDLLYRSDFFPGLGWMMSKKLWDEIGPKWPKAFWDDW
IRNPEQRLNRACIRPELPRTRTFGKIGVSNGLFFEKHLKYIKLSETPVEFSKKDLSYLLK
ENYDKQFVEEVYKIPVVTFEELRKGLVKVDGPVRIQYNNRNQYKLAAKNLGIMEDFKSGV
PRTAYAGIVSAFYQNRRVYLAPSANWKGYDPSW

Protein features from InterProScan

Transcript Database ID Name Start End E.value
11 g8598.t1 CDD cd02514 GT13_GLCNAC-TI 115 442 5.70941E-169
7 g8598.t1 Coils Coil Coil 36 63 -
5 g8598.t1 Gene3D G3DSA:3.90.550.10 Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 114 338 7.5E-98
6 g8598.t1 Gene3D G3DSA:3.10.180.20 - 374 453 1.2E-31
2 g8598.t1 PANTHER PTHR10468 PROTEIN O-LINKED-MANNOSE BETA-1,2-N-ACETYLGLUCOSAMINYLTRANSFERASE 1/ALPHA-1,3-MANNOSYL-GLYCOPROTEIN 2-BETA-N-ACETYLGLUCOSAMINYLTRANSFERASE 36 449 4.0E-149
3 g8598.t1 PANTHER PTHR10468:SF0 ALPHA-1,3-MANNOSYL-GLYCOPROTEIN 2-BETA-N-ACETYLGLUCOSAMINYLTRANSFERASE 36 449 4.0E-149
1 g8598.t1 Pfam PF03071 GNT-I family 106 453 1.5E-151
8 g8598.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 6 -
10 g8598.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 7 26 -
9 g8598.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 27 453 -
4 g8598.t1 SUPERFAMILY SSF53448 Nucleotide-diphospho-sugar transferases 113 453 4.45E-62
12 g8598.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 7 26 -

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:0008375 acetylglucosaminyltransferase activity MF
GO:0006486 protein glycosylation BP

KEGG

Pathway

  • This transcript belongs to the following pathways

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