General information for g5130.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Alpha-1,3-mannosyl-glycoprotein 4-beta-N-acetylglucosaminyltransferase B.
Parent gene
- The parent gene g5130 is located on chr_2: 7217565..7218677 (- 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 | g5130 | g5130.t1 | isoform | g5130.t1 | 7217565 | 7218677 |
| chr_2 | g5130 | g5130.t1 | exon | g5130.t1.exon1 | 7217565 | 7217597 |
| chr_2 | g5130 | g5130.t1 | cds | g5130.t1.CDS1 | 7217565 | 7217597 |
| chr_2 | g5130 | g5130.t1 | exon | g5130.t1.exon2 | 7217782 | 7218040 |
| chr_2 | g5130 | g5130.t1 | cds | g5130.t1.CDS2 | 7217782 | 7218040 |
| chr_2 | g5130 | g5130.t1 | exon | g5130.t1.exon3 | 7218108 | 7218412 |
| chr_2 | g5130 | g5130.t1 | cds | g5130.t1.CDS3 | 7218108 | 7218412 |
| chr_2 | g5130 | g5130.t1 | exon | g5130.t1.exon4 | 7218552 | 7218677 |
| chr_2 | g5130 | g5130.t1 | cds | g5130.t1.CDS4 | 7218552 | 7218677 |
| chr_2 | g5130 | g5130.t1 | TSS | g5130.t1 | NA | NA |
| chr_2 | g5130 | g5130.t1 | TTS | g5130.t1 | NA | NA |
Sequences
>g5130.t1 Gene=g5130 Length=723
ATGTTCAAGTCAGCAGAACTTCCATACCTCATAACATTCTTCCAGATGTTTTACAACGAT
AAACCTGTGGATTGGCTTCTAGAGCATTTAATTTATACGAAAGTTTGTAACTGGGAGAAA
GATATGAAACACTGCAAATATGAAAAAGCAAAATTGTGGATTCACTATAAACCATCGCTG
TTTCAACACATTGGAATGACGTCATCGCTCAAAGGCAAAGTACAGAAGCTCAAAGATCGT
CAATTTGGCAAAATTCCTGCATTCTATCCACATAAGAATAATCCATTAGCACAAGTTAGA
ACACAAATTTCATCATACAAATCGTATACATTAAATAAAGCATACTTGGGCGAGAGTTTC
TTTTGGGGTTTGCTGCCACAATCGGGAGATTATTTAGAGTTTATTTTTAATCAACCTACA
GTAATTAAGAAATATCTCTTTCGTAGTGGAAATCATGAACATCCATCGGATAAATTTTAT
AACACAACTGTCGAAGTCTTGCCTGATCAGCTTAACGAAGAGTCGATTGTATGGCAACAG
TATAATACCACGACTGATGGATATTTGATTATCGGTAGCTTCAATGCATTTGGCATTGCT
GAAGGAAGCGTTGATAATCGAATAGGAAAACTACGAGAACTGAGACTGCATGTGCATACT
GAAAGTGAAAATTGGGTTATTTTAAGTGAGATTTTCCTACAAGACGAAAAGAACTCGAGC
TGA
>g5130.t1 Gene=g5130 Length=240
MFKSAELPYLITFFQMFYNDKPVDWLLEHLIYTKVCNWEKDMKHCKYEKAKLWIHYKPSL
FQHIGMTSSLKGKVQKLKDRQFGKIPAFYPHKNNPLAQVRTQISSYKSYTLNKAYLGESF
FWGLLPQSGDYLEFIFNQPTVIKKYLFRSGNHEHPSDKFYNTTVEVLPDQLNEESIVWQQ
YNTTTDGYLIIGSFNAFGIAEGSVDNRIGKLRELRLHVHTESENWVILSEIFLQDEKNSS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g5130.t1 | PANTHER | PTHR12062 | N-ACETYLGLUCOSAMINYLTRANSFERASE VI | 1 | 235 | 0 |
| 3 | g5130.t1 | PANTHER | PTHR12062:SF9 | FI02046P | 1 | 235 | 0 |
| 1 | g5130.t1 | Pfam | PF04666 | N-Acetylglucosaminyltransferase-IV (GnT-IV) conserved region | 1 | 82 | 0 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
Data is missing for g5130/g5130.t1; file /home/yuki.yoshida/nias/analysis/reanalysis/18_revice/midgebase/iupred3/g5130.t1.fa.iupred3.txt does not exist
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K00738 (alpha-1,3-mannosylglycoprotein beta-1,4-N-acetylglucosaminyltransferase A/B)
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.
