General information for g5154.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Alpha-1,6-mannosyl-glycoprotein 2-beta-N-acetylglucosaminyltransferase.
Parent gene
- The parent gene g5154 is located on chr_2: 7321716..7322787 (- strand)
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.t1 | TTS | g5154.t1 | 7321316 | 7321316 |
| chr_2 | g5154 | g5154.t1 | isoform | g5154.t1 | 7321443 | 7322787 |
| chr_2 | g5154 | g5154.t1 | exon | g5154.t1.exon1 | 7321443 | 7322629 |
| chr_2 | g5154 | g5154.t1 | cds | g5154.t1.CDS1 | 7321443 | 7322629 |
| chr_2 | g5154 | g5154.t1 | exon | g5154.t1.exon2 | 7322691 | 7322787 |
| chr_2 | g5154 | g5154.t1 | cds | g5154.t1.CDS2 | 7322691 | 7322787 |
| chr_2 | g5154 | g5154.t1 | TSS | g5154.t1 | 7322893 | 7322893 |
Sequences
>g5154.t1 Gene=g5154 Length=1284
ATGAGACGACCTAATAGGCGTATGTTTTTTACTCTTGTTCTTATCATTTTTTGGTTTACG
GGAATAATTTTTGTCAAAATAAAAGAAACATCATTTGGAAATTTTTTTAATACAAATTGT
ACAAATACTGATGCATCAACAAATTTTCAATTCTTATCACTTGCAAGACTTATTAAAATG
CATAATGAAGAGCAGAGAATTTTAAATATTGAGCGCTATGGACCGATAACGAAAGACACA
TTTTTCATAACAATTCAAGTTCACAATCGGATTGCATATTTGCGACATCTTGTTGACAGT
TTGAAGAAAGCAAAAAATATTGATAAAGCGCTTTTAATTTTTTCACATGATTTATATGAC
AACGAAATTAATGAATTGATAAGATCAATTGATTTTTGTATGGTTTTACAAATTTTCTAT
CCTTATTCAATTCAAATTTATTCAAATGTTTTTCCTGGAACTGATGTCAATGATTGTCCT
AGAAATATAAAGAAAATTGATGCAATTGTTAAGAAATGCAATAATTTTGATCATCCTGAT
TCTTATGGACATTATCGAGAAGCAAAATTTACACAAATGAAACATCATTGGTGGTGGAAG
TTAAATAGAATTTTTGATGAATTGAATGTTACAAAAGAACTTGATATAAGATTGTTGCTA
CTTGAAGAAGATCATTTTGTTGCTGAAGATTTTCTCTACATTTACAAAGAAATGCAAAAA
CAAATTTCATTTGAATGTCCAAAATGTAACATAATTGCACTTGGAACTTATGAAGAAAAA
CTTAATGAAAATACTTATAATAAAATTGAAATTTCACCATGGACAACTAATATTCATAAT
ATGGGAATGGCATTAAATAAGACAACATGGAAGGCTGTGAAAAATTGTGCAGAATATTTT
TGCACTTATGATGAATATAATTATGACTTTAGTTTGCAAAATATCAACATAAGATGCCTA
AAAGATAAACTTTTTACTGCATTAATTCGTGGTCCTCGAATTTTTCATACAGGTGAATGT
GGTGTGCATCACATACATAAAAATTGTAATGTAAATAAAAAAATTGATGAAATTAATTTG
AATCTCAGTGAGGCTAAAAAACATAGACTGTTGTACCCAGAAGACTTGGAAATAAGCTCA
GTAGATTTGAAACATCCAGTACTCATATTGACCAATAATGGTGGATGGGCGGACAAAAGA
GATCATTGTTTGTGCATGCAAATGACGTGGAATAAAGTAAACTCAAAATGTCATGGTGTG
TTGACATTGCCAAATGATTTATGA
>g5154.t1 Gene=g5154 Length=427
MRRPNRRMFFTLVLIIFWFTGIIFVKIKETSFGNFFNTNCTNTDASTNFQFLSLARLIKM
HNEEQRILNIERYGPITKDTFFITIQVHNRIAYLRHLVDSLKKAKNIDKALLIFSHDLYD
NEINELIRSIDFCMVLQIFYPYSIQIYSNVFPGTDVNDCPRNIKKIDAIVKKCNNFDHPD
SYGHYREAKFTQMKHHWWWKLNRIFDELNVTKELDIRLLLLEEDHFVAEDFLYIYKEMQK
QISFECPKCNIIALGTYEEKLNENTYNKIEISPWTTNIHNMGMALNKTTWKAVKNCAEYF
CTYDEYNYDFSLQNINIRCLKDKLFTALIRGPRIFHTGECGVHHIHKNCNVNKKIDEINL
NLSEAKKHRLLYPEDLEISSVDLKHPVLILTNNGGWADKRDHCLCMQMTWNKVNSKCHGV
LTLPNDL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g5154.t1 | PANTHER | PTHR12871 | BETA-1,2-N-ACETYLGLUCOSAMINYLTRANSFERASE II | 43 | 410 | 8.8E-143 |
| 3 | g5154.t1 | PANTHER | PTHR12871:SF0 | ALPHA-1,6-MANNOSYL-GLYCOPROTEIN 2-BETA-N-ACETYLGLUCOSAMINYLTRANSFERASE | 43 | 410 | 8.8E-143 |
| 1 | g5154.t1 | Pfam | PF05060 | N-acetylglucosaminyltransferase II (MGAT2) | 57 | 405 | 9.3E-137 |
| 7 | g5154.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 25 | - |
| 8 | g5154.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 8 | - |
| 9 | g5154.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 9 | 20 | - |
| 10 | g5154.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 21 | 25 | - |
| 6 | g5154.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 26 | 427 | - |
| 5 | g5154.t1 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 83 | 354 | 4.39E-7 |
| 4 | g5154.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 25 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5154/g5154.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5154.t1.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 transcript has been annotated with K00736 (alpha-1,6-mannosyl-glycoprotein beta-1,2-N-acetylglucosaminyltransferase)
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. There were no conditions that were differentially expressed