General information for g6045.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Polypeptide N-acetylgalactosaminyltransferase 2.
Parent gene
- The parent gene g6045 is located on chr_2: 13845193..13848370 (- 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 | g6045 | g6045.t1 | isoform | g6045.t1 | 13845193 | 13848370 |
| chr_2 | g6045 | g6045.t1 | exon | g6045.t1.exon1 | 13845193 | 13845497 |
| chr_2 | g6045 | g6045.t1 | cds | g6045.t1.CDS1 | 13845193 | 13845497 |
| chr_2 | g6045 | g6045.t1 | exon | g6045.t1.exon2 | 13845815 | 13845984 |
| chr_2 | g6045 | g6045.t1 | cds | g6045.t1.CDS2 | 13845815 | 13845984 |
| chr_2 | g6045 | g6045.t1 | exon | g6045.t1.exon3 | 13846666 | 13846727 |
| chr_2 | g6045 | g6045.t1 | cds | g6045.t1.CDS3 | 13846666 | 13846727 |
| chr_2 | g6045 | g6045.t1 | exon | g6045.t1.exon4 | 13846827 | 13846882 |
| chr_2 | g6045 | g6045.t1 | cds | g6045.t1.CDS4 | 13846827 | 13846882 |
| chr_2 | g6045 | g6045.t1 | exon | g6045.t1.exon5 | 13847635 | 13848244 |
| chr_2 | g6045 | g6045.t1 | cds | g6045.t1.CDS5 | 13847635 | 13848244 |
| chr_2 | g6045 | g6045.t1 | exon | g6045.t1.exon6 | 13848356 | 13848370 |
| chr_2 | g6045 | g6045.t1 | cds | g6045.t1.CDS6 | 13848356 | 13848370 |
| chr_2 | g6045 | g6045.t1 | TSS | g6045.t1 | 13849303 | 13849303 |
| chr_2 | g6045 | g6045.t1 | TTS | g6045.t1 | NA | NA |
Sequences
>g6045.t1 Gene=g6045 Length=1218
ATGTCTCCAAAAAATAATGAAATAAAATTTTTCATCTCATGTTTCTGTTTCACAGCTGAA
GATGGCTTAGAGCTGGCAAAAATCAACAAAGTTCGTATAATTAGAAACGAGAAACGCGAA
GGTCTCGTGAGATCGAGAGTGCGTGGTGCTGAGATTGCGACAGCCGACATTCTCACATTT
CTTGACAGTCACTGTGAATGTAATGAAGACTGGCTACCACCACTTATTGAGCGTGTTGTT
GAGGATGAAACACGAGTCGTTTGCCCTGTAATTGACGTCATTTCTATGGACAATTTTCAA
TATATTGGAGCATCAGCGGACTTGCGTGGGGGTTTTGACTGGAATTTAGTTTTCAAGTGG
GAGTATTTGTCACCACAAGAACGACAAGCAAGACAAAAGGACCCAACAACACCAATACGA
ACACCAATGATTGCAGGCGGTTTGTTTGTGATAAATAAAAAGTATTTTGAGAAACTTGGT
CGATATGATATGCAAATGGATGTTTGGGGTGGAGAAAATTTAGAAATTTCCTTCAGAGTA
TGGCAGTGCGGTGGAAGCTTAGAAATTATTCCGTGTTCAAGAGTTGGCCATGTTTTTAGA
AAAAGACATCCTTATACTTTCCCTGGCGGCAGTGGAAACGTTTTTGCTCGCAATACACGT
CGAGCGGCTGAAGTTTGGATGGATGAATATAAGCAGTATTATTATGCATCAGTTCCTTTA
GCTAAAAATATTCCATTTGGGAACATCGACGATAGATTAGCATTAAAAGAGAAGCTTCAT
TGCAAGCCATTCAAGTGGTATTTAGAAAATGTCTATCCTGAACTGATTGTGCCGGAAACG
CAAGCTAGAGGAAGTATTAGACAAGGTCCATATTGTGTTGATACGCTTGGTCATTTGGTT
GATGGAACTGTTGGATTATATCAATGTCATGAAACAGGTGGTAATCAAGAGTGGACACTT
ACAAAACGTGGCCAAATAAAGCACATCGATCTGTGTCTCACACTAGTCAATTTTACACGC
GGCTCAATGGTCGTGATGAAATATTGTGATGAGTCAGAAAATCAACAATGGGTGCTGCGT
GATGGAGGATTATTGCAGCATAGCAAATTGAATGTATGTCTCGATTCGCGATGGGTCAGT
GAACGTGGCATAACAGCCGAACGATGCAATTCTGCATTGGATTCACAACAATGGCGATTT
ATGTCGGATTTATCATGA
>g6045.t1 Gene=g6045 Length=405
MSPKNNEIKFFISCFCFTAEDGLELAKINKVRIIRNEKREGLVRSRVRGAEIATADILTF
LDSHCECNEDWLPPLIERVVEDETRVVCPVIDVISMDNFQYIGASADLRGGFDWNLVFKW
EYLSPQERQARQKDPTTPIRTPMIAGGLFVINKKYFEKLGRYDMQMDVWGGENLEISFRV
WQCGGSLEIIPCSRVGHVFRKRHPYTFPGGSGNVFARNTRRAAEVWMDEYKQYYYASVPL
AKNIPFGNIDDRLALKEKLHCKPFKWYLENVYPELIVPETQARGSIRQGPYCVDTLGHLV
DGTVGLYQCHETGGNQEWTLTKRGQIKHIDLCLTLVNFTRGSMVVMKYCDESENQQWVLR
DGGLLQHSKLNVCLDSRWVSERGITAERCNSALDSQQWRFMSDLS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g6045.t1 | CDD | cd02510 | pp-GalNAc-T | 20 | 272 | 2.30065E-159 |
| 14 | g6045.t1 | CDD | cd00161 | RICIN | 291 | 400 | 2.98532E-23 |
| 8 | g6045.t1 | Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 17 | 275 | 2.8E-129 |
| 7 | g6045.t1 | Gene3D | G3DSA:2.80.10.50 | - | 279 | 404 | 1.3E-37 |
| 3 | g6045.t1 | PANTHER | PTHR11675 | N-ACETYLGALACTOSAMINYLTRANSFERASE | 16 | 402 | 4.7E-183 |
| 4 | g6045.t1 | PANTHER | PTHR11675:SF49 | POLYPEPTIDE N-ACETYLGALACTOSAMINYLTRANSFERASE 2 | 16 | 402 | 4.7E-183 |
| 2 | g6045.t1 | Pfam | PF00535 | Glycosyl transferase family 2 | 29 | 156 | 3.9E-20 |
| 1 | g6045.t1 | Pfam | PF00652 | Ricin-type beta-trefoil lectin domain | 286 | 398 | 5.3E-21 |
| 10 | g6045.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 26 | - |
| 11 | g6045.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 9 | - |
| 12 | g6045.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 10 | 18 | - |
| 13 | g6045.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 19 | 26 | - |
| 9 | g6045.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 27 | 405 | - |
| 17 | g6045.t1 | ProSiteProfiles | PS50231 | Lectin domain of ricin B chain profile. | 292 | 401 | 24.545 |
| 16 | g6045.t1 | SMART | SM00458 | ricin_3 | 280 | 401 | 5.8E-18 |
| 6 | g6045.t1 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 25 | 274 | 1.59E-49 |
| 5 | g6045.t1 | SUPERFAMILY | SSF50370 | Ricin B-like lectins | 269 | 400 | 5.81E-31 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K00710 (polypeptide N-acetylgalactosaminyltransferase)
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.
