General information for g6746.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as N-acetylgalactosaminyltransferase 6.
Parent gene
- The parent gene g6746 is located on chr_2: 18446550..18448376 (+ 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 | g6746 | g6746.t1 | isoform | g6746.t1 | 18446550 | 18448376 |
| chr_2 | g6746 | g6746.t1 | exon | g6746.t1.exon1 | 18446550 | 18447835 |
| chr_2 | g6746 | g6746.t1 | cds | g6746.t1.CDS1 | 18446550 | 18447835 |
| chr_2 | g6746 | g6746.t1 | exon | g6746.t1.exon2 | 18447899 | 18448376 |
| chr_2 | g6746 | g6746.t1 | cds | g6746.t1.CDS2 | 18447899 | 18448376 |
| chr_2 | g6746 | g6746.t1 | TSS | g6746.t1 | 18448047 | 18448047 |
| chr_2 | g6746 | g6746.t1 | TTS | g6746.t1 | 18448579 | 18448579 |
Sequences
>g6746.t1 Gene=g6746 Length=1764
ATGAAAAGTATATCGAACACATCATCGTTTAATAATTTGCTACCGTCATCACAGAACATT
CTATTTTCTAATGATAAAATTCAGAAGCAAAATCATCAATTTGGAGCATTTTTTGGCCGA
ATTCGAAATGAAAAATTGCAGAAAATCGACTGGCATGATTATGAACAAATAAAAAAGGAT
GCACAACGAATTGGATTTGGTGAAAATGGAAAATCTGAAAAATTAGATGAAACTGAGAAA
AGCTTAGAAGATGATTTCTTTCGGCAGAATGGTTTTAATGCTTTGCTCAGTGATAAAATA
AGCATTAATCGGAGTATTCCTGATATTAGACATGTGAAATGCAAAGAAAAGAAATATTTA
TCAGAACTTCCTTCTGTGTCAGTTATAATACCATTCTACAATGAGCACTTTTCAACTTTA
TTACGAACAGTATATTCAGTAATAAATAGAAGTCCAAGTGATTTATTAAATGAAATTATT
TTGGTAGATGATTGTAGTAAGAAAGATTTTTTAAAAGACAAGCTCGATTCATATGTAAGA
GAAAATTTGCCAAAAGTCAAAATCGTACGAATGAAAGAAAGAGGGGGTTTGGTTACTGCA
AGAACAGCTGGAGCAAAAATAGCAAACGGCGATGTTCTAATTTTTCTTGATTCACATACT
GAAGCAAACGTAAATTGGCTACCTCCATTAATTGAACCAATTGCTGAAAATTATCGTATA
TGCGTTTGTCCATTTATTGATGTGATTGCATATGACACATTTGAATATCGAGCTCAAGAT
GAAGGAGCCAGAGGTGCATTTGATTGGCAACTTTTTTATAAACGCCTTCCTTTAACCAAA
AAAGATCTTGAAAACCCAACGGAACCTTTTAATTCTCCAGTTATGGCTGGAGGTTTATTT
GCTATATCATCAAAATTTTTCTGGGAATTAGGAGGATATGATGAAGGACTTCAAATTTGG
GGAGGAGAACAATACGAACTAAGTTTTAAAATTTGGCAGTGTCATGGCAAGATTGTTGAT
GCTCCATGCTCTCGTGTAGGACACATTTATCGAAAATTTGCTTCATTTGACAGTGGTGGA
AAAGGAGATTATTTAACAAGAAATCATAAGCGCGTTGTTGAGACTTGGATGGATGAACCT
TATAAATCTTATGTATATAACAAAAATTTAAGATATAAATCAGTCGATGCAGGTGATTTG
ACTAAGCAAAAGGAAATAAGAGAAAAATTAAAATGCAAATCTTTTGATTGGTTCATGAAA
GAAGTAGCTTTTGATTTGATGGATAAATACCCACCAGTTGAACCACCAGATTTTGCAAAC
GGTGCCATATGGTCAATTTCTAATCCGAATTTTTGTGTTGATACTATGAATGGTCAAAGT
GAAAATGATCGAGTTAGCTTAAATACTTGTTCATCAGATTTAAAAAATCCACGTCATTCA
CAATTCTTTGCTTTGAGTTGGCAACGTGATATTCGTTTAAAAAACTTGAAAACTCAATGC
TGGGATGTATCAGAGTCAGGTAACGCACCAATTGTTATTTATGGTTGTCATGCAATGCAA
GGAAATCAACTCTTTCGATATCTTCTCGATACTAAGCAAATTCAACATGTAATAACCTCT
CGATGTCTTGATGCAGATTTTCAAACAATGAAGTTATTCGTAAGCAATTGTGATAGTAAT
AGCCTAAACCAAAAATGGAATTTTGGAAATGTTAATTCAACTGCATTAAATAATTGGGAA
ATTTCTGGTGCAAAATTAATCTAA
>g6746.t1 Gene=g6746 Length=587
MKSISNTSSFNNLLPSSQNILFSNDKIQKQNHQFGAFFGRIRNEKLQKIDWHDYEQIKKD
AQRIGFGENGKSEKLDETEKSLEDDFFRQNGFNALLSDKISINRSIPDIRHVKCKEKKYL
SELPSVSVIIPFYNEHFSTLLRTVYSVINRSPSDLLNEIILVDDCSKKDFLKDKLDSYVR
ENLPKVKIVRMKERGGLVTARTAGAKIANGDVLIFLDSHTEANVNWLPPLIEPIAENYRI
CVCPFIDVIAYDTFEYRAQDEGARGAFDWQLFYKRLPLTKKDLENPTEPFNSPVMAGGLF
AISSKFFWELGGYDEGLQIWGGEQYELSFKIWQCHGKIVDAPCSRVGHIYRKFASFDSGG
KGDYLTRNHKRVVETWMDEPYKSYVYNKNLRYKSVDAGDLTKQKEIREKLKCKSFDWFMK
EVAFDLMDKYPPVEPPDFANGAIWSISNPNFCVDTMNGQSENDRVSLNTCSSDLKNPRHS
QFFALSWQRDIRLKNLKTQCWDVSESGNAPIVIYGCHAMQGNQLFRYLLDTKQIQHVITS
RCLDADFQTMKLFVSNCDSNSLNQKWNFGNVNSTALNNWEISGAKLI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g6746.t1 | CDD | cd02510 | pp-GalNAc-T | 127 | 423 | 0.00 |
| 11 | g6746.t1 | CDD | cd00161 | RICIN | 441 | 568 | 0.00 |
| 9 | g6746.t1 | Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 45 | 433 | 0.00 |
| 8 | g6746.t1 | Gene3D | G3DSA:2.80.10.50 | - | 434 | 582 | 0.00 |
| 3 | g6746.t1 | PANTHER | PTHR11675:SF41 | POLYPEPTIDE N-ACETYLGALACTOSAMINYLTRANSFERASE 10 | 41 | 580 | 0.00 |
| 4 | g6746.t1 | PANTHER | PTHR11675 | N-ACETYLGALACTOSAMINYLTRANSFERASE | 41 | 580 | 0.00 |
| 2 | g6746.t1 | Pfam | PF00535 | Glycosyl transferase family 2 | 127 | 310 | 0.00 |
| 1 | g6746.t1 | Pfam | PF00652 | Ricin-type beta-trefoil lectin domain | 441 | 566 | 0.00 |
| 10 | g6746.t1 | ProSiteProfiles | PS50231 | Lectin domain of ricin B chain profile. | 439 | 569 | 18.45 |
| 7 | g6746.t1 | SMART | SM00458 | ricin_3 | 441 | 569 | 0.00 |
| 6 | g6746.t1 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 103 | 425 | 0.00 |
| 5 | g6746.t1 | SUPERFAMILY | SSF50370 | Ricin B-like lectins | 432 | 570 | 0.00 |
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.
