General information for g3862.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 g3862 is located on chr_3: 28408062..28412824 (- 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_3 | g3862 | g3862.t1 | isoform | g3862.t1 | 28405935 | 28409385 |
| chr_3 | g3862 | g3862.t1 | exon | g3862.t1.exon1 | 28405935 | 28406275 |
| chr_3 | g3862 | g3862.t1 | cds | g3862.t1.CDS1 | 28405935 | 28406275 |
| chr_3 | g3862 | g3862.t1 | exon | g3862.t1.exon2 | 28406338 | 28406446 |
| chr_3 | g3862 | g3862.t1 | cds | g3862.t1.CDS2 | 28406338 | 28406446 |
| chr_3 | g3862 | g3862.t1 | exon | g3862.t1.exon3 | 28407381 | 28407603 |
| chr_3 | g3862 | g3862.t1 | cds | g3862.t1.CDS3 | 28407381 | 28407603 |
| chr_3 | g3862 | g3862.t1 | exon | g3862.t1.exon4 | 28407659 | 28407992 |
| chr_3 | g3862 | g3862.t1 | cds | g3862.t1.CDS4 | 28407659 | 28407992 |
| chr_3 | g3862 | g3862.t1 | exon | g3862.t1.exon5 | 28408062 | 28408223 |
| chr_3 | g3862 | g3862.t1 | cds | g3862.t1.CDS5 | 28408062 | 28408223 |
| chr_3 | g3862 | g3862.t1 | exon | g3862.t1.exon6 | 28408399 | 28408515 |
| chr_3 | g3862 | g3862.t1 | cds | g3862.t1.CDS6 | 28408399 | 28408515 |
| chr_3 | g3862 | g3862.t1 | exon | g3862.t1.exon7 | 28408577 | 28408729 |
| chr_3 | g3862 | g3862.t1 | cds | g3862.t1.CDS7 | 28408577 | 28408729 |
| chr_3 | g3862 | g3862.t1 | exon | g3862.t1.exon8 | 28409379 | 28409385 |
| chr_3 | g3862 | g3862.t1 | cds | g3862.t1.CDS8 | 28409379 | 28409385 |
| chr_3 | g3862 | g3862.t1 | TSS | g3862.t1 | 28410011 | 28410011 |
| chr_3 | g3862 | g3862.t1 | TTS | g3862.t1 | NA | NA |
Sequences
>g3862.t1 Gene=g3862 Length=1446
ATGAGAGCTTATCCTCCATACACCAACAAGCGAAAAATTCAACTTGTACTTCCGAATAGC
CCATACACGGTACTTGCAAGAAGGAAACGACTTTTACGACTTTGCATAGTACTATTTATT
TTAGTTTTTATCATTGTTCAACTCAATGTAATTAACTATGATTTCCATTCAACCACAAAT
GTTGATTCGTCACATAATAATGACACAACTCAGGCCCTTCTGCAGTCTATTCCTGCCGTA
CTTCATAAATATCTTAAACCAAAAAATAATTCACAAGTAGTAACTAATAGTAGTCAGATA
GCCAATAATGAAAAATATCAAGCGATTAATATCAGCGAAATCCAACGTTCAATCGAACGA
TATAACGAATATCAGACAATAATAAATGAAGAAATTTTTGGACCGTTGTATAATGACTCT
ATCGTCATTGTGGTACAAGTGCATAAACGTATAACATATTTGAGGCACTTGATTGTTTCA
TTGGCTCAAGCGAGAGATATTTCAAAGACGCTTCTTATATTTTCACATGATTATTACGAT
GAAGAAATTAACGAATTAGTGCAATCTATTGATTTTTGCAAAGTGATGCAAATTTTTTAT
CCCTTTTCTATACAAACACATCCGAATGAATTTCCGGGTACGAATCCAAATGATTGTAGA
CGTGACATGAAAAAAGAGCAAGCATTAATTGCTAAATGCAACAATGCAGAATATCCTGAT
CTTTATGGACATTATAGAGAAGCTTCATTTACTCAAACGAAACATCACTGGTGGTGGAAA
GCAAATCGTGTTTTTGATCAACTTGAAGTTACCAAGTACCACAAGGGACTAGTTCTTTTT
CTTGAAGAAGATCATTACGTTGCTGAGGATTTTCTCTATCTTTTAAAAATGATGCAATTG
AAAGCTTTTGAGTTATGCGCAAAATGCAACATCATGTCATTAGGAACATACTTAAAGACG
TTCAATTATTACACTTATAATAACAATCATAAAAAGGTTGAAGTTACACCGTGGATCTCT
AGTAAACACAATATGGGATTTTCTTTCAATAGATCAACGTGGCATCAAATTAAAAGTTGT
GCAAAATTTTTCTGCTCGTATGATGATTACAACTGGGATTGGAGCTTAAGTTATACAAGC
CATCAATGTCTGAAAAACAAATTATTTGCAATGGTAACTCGTGGTCCAAGAGTATTTCAC
ATTGGTGAGTGTGGTGTGCATCATAAATGTGGAAAAAAATCTGAGAAAGATTCAGGAAAT
CAAGTTATATCAAAAGTTCAGCAAGTTTTAAATGTTGCAACAAAGTCAAATCAGCTTTTT
CCAAACAATCTTATGTTAACCGTAGCAAGTATTGTAAAGAAACAGAAAATACGAAAGGGA
AATGGTGGATGGTCAGATAAAAGGGATCATTTGCTATGTCTTAATATGACTTTAGGAGTA
AGATAG
>g3862.t1 Gene=g3862 Length=481
MRAYPPYTNKRKIQLVLPNSPYTVLARRKRLLRLCIVLFILVFIIVQLNVINYDFHSTTN
VDSSHNNDTTQALLQSIPAVLHKYLKPKNNSQVVTNSSQIANNEKYQAINISEIQRSIER
YNEYQTIINEEIFGPLYNDSIVIVVQVHKRITYLRHLIVSLAQARDISKTLLIFSHDYYD
EEINELVQSIDFCKVMQIFYPFSIQTHPNEFPGTNPNDCRRDMKKEQALIAKCNNAEYPD
LYGHYREASFTQTKHHWWWKANRVFDQLEVTKYHKGLVLFLEEDHYVAEDFLYLLKMMQL
KAFELCAKCNIMSLGTYLKTFNYYTYNNNHKKVEVTPWISSKHNMGFSFNRSTWHQIKSC
AKFFCSYDDYNWDWSLSYTSHQCLKNKLFAMVTRGPRVFHIGECGVHHKCGKKSEKDSGN
QVISKVQQVLNVATKSNQLFPNNLMLTVASIVKKQKIRKGNGGWSDKRDHLLCLNMTLGV
R
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g3862.t1 | PANTHER | PTHR12871 | BETA-1,2-N-ACETYLGLUCOSAMINYLTRANSFERASE II | 32 | 478 | 3.3E-174 |
| 1 | g3862.t1 | Pfam | PF05060 | N-acetylglucosaminyltransferase II (MGAT2) | 116 | 473 | 8.7E-153 |
| 5 | g3862.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 30 | - |
| 7 | g3862.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 31 | 51 | - |
| 6 | g3862.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 52 | 481 | - |
| 4 | g3862.t1 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 139 | 408 | 1.8E-11 |
| 3 | g3862.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 31 | 53 | - |
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: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.
