General information for g13318.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Polypeptide N-acetylgalactosaminyltransferase 3.
Parent gene
- The parent gene g13318 is located on chr_1: 29168291..29170246 (+ 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_1 | g13318 | g13318.t2 | isoform | g13318.t2 | 29168291 | 29170246 |
| chr_1 | g13318 | g13318.t2 | exon | g13318.t2.exon1 | 29168291 | 29169109 |
| chr_1 | g13318 | g13318.t2 | cds | g13318.t2.CDS1 | 29168312 | 29169109 |
| chr_1 | g13318 | g13318.t2 | exon | g13318.t2.exon2 | 29169754 | 29170246 |
| chr_1 | g13318 | g13318.t2 | cds | g13318.t2.CDS2 | 29169754 | 29169903 |
| chr_1 | g13318 | g13318.t2 | TTS | g13318.t2 | 29170253 | 29170253 |
| chr_1 | g13318 | g13318.t2 | TSS | g13318.t2 | NA | NA |
Sequences
>g13318.t2 Gene=g13318 Length=1312
TGGGGTGGCGATAATATTGAAATGAGCATGAGAATATGGATGTGTGGCGGCAGTATTGAA
ATTGCACCGTGTTCACATGTTGGTCATCTTTTTCGAAAAAGTTCACCTTATACTTTCCCT
GGTGGTGTCAACGAAATTTTAAATAGAAATTTAGCACGTGTTGCTGATGTTTGGATGGAT
CAATGGAAAGAATTTTATTATAAATTTAATCATAATGCAAATTCTTTAAGAGCAACATTG
AATACAACTGAAAGAGTAATTTTAAGGCAAAAACTTCAATGTAAACCTTTTACTTGGTAT
TTACAGAATGTTTGGAAAGAAAATTTCTTTCCTGCTAAAAATCGCTTCTTTGGAAGAATT
CAAATTGCAAATTTGACTACAATTGGACCTGAATATAGAAAATATTATGACATCATTCAG
GAGTTTAGTCGTGTGATTCATTTTCAAGAACAAAGTATCGATGAGCGCTGGAACAAATTG
ATTAAATATTTCAACAAGCGAACTGAGGCAATCAATGAGCTCTTTCGTCATAATTCCAAT
GATTATTTGTGTTTGCAAAAACCCAAGACTAACAACGCTGTGACTCCATATGGCCAAACT
TTTATACGAAAATGCTCAAAACTTTATGATAGTTTAGATGAAATGTTTGTCATTACAATT
GATGGAAAAATTATGACAAATGAAAATTTGTGCTTGGATTCATTTAAAATTCATACATCG
GATGACTCGAATGATGAAAAGAATGGAAAGGATGAGAATTATGCAAAAATGGTTACGTGC
TCAACTAAAAGTACGCAGTACTTTATTTATAATACTAATACACTCCAATTATTACAAGCG
AATACAGGCATGTGTTTGCAAGGAACCAACATTCCAGCTGAAAATGAAAGTTACAAAATA
TTGCTGACCGATTGCAGTGAAAACAATAAACAACAGAAGTGGATTCTTTTTCCAGTCGAA
TGGCATTGATGGAAGTAATCATATGACGAATAAGAATTTGTGTTGTAGTTGATGTTTTGT
GTGATGATTGGAATTTTTCACGTAATTATTTCAACTTCAACTCATGAGTTGAGTGAGGAG
AAAGATAATTTCATGTAGCTTTTTTTCATTACCTTTTTTGCGGTAAAATATAAAATAACT
GTGATAAAAAAGAAATAATTGAACGAGCCACGAGAAGAAAACAAAAACAAGCGAAAGACA
ATTCTGTGGAATGTTTCATTTCGTCTTTCAGTTTTGATATCTTTTTTTTGTGTTTTACTT
CATGTAATCAATGATTGTGTATTTTGTAATAAAAAAATAATTGTGAAAGTTG
>g13318.t2 Gene=g13318 Length=315
MSMRIWMCGGSIEIAPCSHVGHLFRKSSPYTFPGGVNEILNRNLARVADVWMDQWKEFYY
KFNHNANSLRATLNTTERVILRQKLQCKPFTWYLQNVWKENFFPAKNRFFGRIQIANLTT
IGPEYRKYYDIIQEFSRVIHFQEQSIDERWNKLIKYFNKRTEAINELFRHNSNDYLCLQK
PKTNNAVTPYGQTFIRKCSKLYDSLDEMFVITIDGKIMTNENLCLDSFKIHTSDDSNDEK
NGKDENYAKMVTCSTKSTQYFIYNTNTLQLLQANTGMCLQGTNIPAENESYKILLTDCSE
NNKQQKWILFPVEWH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g13318.t2 | Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 1 | 100 | 0.0000000 |
| 7 | g13318.t2 | Gene3D | G3DSA:2.80.10.50 | - | 163 | 313 | 0.0000000 |
| 2 | g13318.t2 | PANTHER | PTHR11675 | N-ACETYLGALACTOSAMINYLTRANSFERASE | 1 | 314 | 0.0000000 |
| 3 | g13318.t2 | PANTHER | PTHR11675:SF118 | POLYPEPTIDE N-ACETYLGALACTOSAMINYLTRANSFERASE 3 | 1 | 314 | 0.0000000 |
| 1 | g13318.t2 | Pfam | PF00652 | Ricin-type beta-trefoil lectin domain | 171 | 307 | 0.0000000 |
| 9 | g13318.t2 | ProSiteProfiles | PS50231 | Lectin domain of ricin B chain profile. | 164 | 310 | 15.7730000 |
| 6 | g13318.t2 | SMART | SM00458 | ricin_3 | 165 | 310 | 0.0000006 |
| 5 | g13318.t2 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 1 | 100 | 0.0000000 |
| 4 | g13318.t2 | SUPERFAMILY | SSF50370 | Ricin B-like lectins | 169 | 309 | 0.0000000 |
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 gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
