General information for g6549.t7
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Polypeptide N-acetylgalactosaminyltransferase 5.
Parent gene
- The parent gene g6549 is located on chr_2: 17612608..17613894 (- 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 | g6549 | g6549.t7 | TTS | g6549.t7 | 17607799 | 17607799 |
| chr_2 | g6549 | g6549.t7 | isoform | g6549.t7 | 17607938 | 17610554 |
| chr_2 | g6549 | g6549.t7 | exon | g6549.t7.exon1 | 17607938 | 17608688 |
| chr_2 | g6549 | g6549.t7 | cds | g6549.t7.CDS1 | 17608515 | 17608688 |
| chr_2 | g6549 | g6549.t7 | exon | g6549.t7.exon2 | 17608761 | 17608929 |
| chr_2 | g6549 | g6549.t7 | cds | g6549.t7.CDS2 | 17608761 | 17608929 |
| chr_2 | g6549 | g6549.t7 | exon | g6549.t7.exon3 | 17609123 | 17609187 |
| chr_2 | g6549 | g6549.t7 | cds | g6549.t7.CDS3 | 17609123 | 17609187 |
| chr_2 | g6549 | g6549.t7 | exon | g6549.t7.exon4 | 17609254 | 17609393 |
| chr_2 | g6549 | g6549.t7 | cds | g6549.t7.CDS4 | 17609254 | 17609393 |
| chr_2 | g6549 | g6549.t7 | exon | g6549.t7.exon5 | 17610088 | 17610268 |
| chr_2 | g6549 | g6549.t7 | cds | g6549.t7.CDS5 | 17610088 | 17610268 |
| chr_2 | g6549 | g6549.t7 | exon | g6549.t7.exon6 | 17610327 | 17610355 |
| chr_2 | g6549 | g6549.t7 | cds | g6549.t7.CDS6 | 17610327 | 17610355 |
| chr_2 | g6549 | g6549.t7 | exon | g6549.t7.exon7 | 17610418 | 17610493 |
| chr_2 | g6549 | g6549.t7 | cds | g6549.t7.CDS7 | 17610418 | 17610493 |
| chr_2 | g6549 | g6549.t7 | exon | g6549.t7.exon8 | 17610549 | 17610554 |
| chr_2 | g6549 | g6549.t7 | cds | g6549.t7.CDS8 | 17610549 | 17610551 |
| chr_2 | g6549 | g6549.t7 | TSS | g6549.t7 | NA | NA |
Sequences
>g6549.t7 Gene=g6549 Length=1417
ACTATGGCGGGTGGTTTGTTTTCAATAGATAAAGATTATTTCTATGAAATTGGTTCATAT
GACGAGGGAATGGATATTTGGGGTGGTGAAAATTTGGAAATGAGTTTTCGTATTTGGCAA
TGCGGCGGAATTTTGGAAATTGCTCCCTGTAGCCACGTTGGTCATGTTTTCAGAGATAAA
AGTCCATATACTTTCCCTGGCGGTGTGGCAAATATTGTACTTAAAAATGCTGCTCGTGTT
GCAGCTGTTTGGCTTGACGAATGGAAAGAATTTTACTTCGCTATGAGTCCAGGTGCACGA
AAAACATCAGCTGGAGATGTGTCTGCACGTCTTGCTCTAAGAGAAAAATTAAAGTGCAAG
AGTTTCAGATGGTATCTTGAAAATATTTATCCTGAGAGTCAAATGCCATTAGATTATTAT
TTCCTCGGAGAAATTCGAAATGTCGAAAGTCAGAATTGTTTAGATACGATGGGTCATAAA
TCAGGAGAGAAAGTTGGATCATCATATTGTCACGGACTGGGAGGTAATCAAGTTTTCGCC
TACACTAAACGACAACAAATTATGTCAGATGATAACTGTCTTGATGCCAGTAACGCTCAT
GGACCAGTTAACTTAGTTAGATGTCATGGAATGGGTGGGAATCAGGAATGGAGTTATGAT
GAGACTGACCTTACAATTAAGCATGTGAATTCAGGAAATTGTCTTACAAGAGCCACTCGA
GAAGATCCTTCAACGCCACAACTTCGTCCATGTAACTTTTCTAAAGGTCAACAGTGGTTA
ATGCAATCAAAGTTTAAGTGGCAAACAAAGCAAGGTACAGAAGATGAAGAGAGAAGATAG
GGGTTGCTGAAATTGGCCAATATGGATTGATTTAATTTATTTTCCTACATCGTTCCTCTT
ATCTTGTACAATATAAGACCCCATTTTTATATAATTTCTTTTTGCAAGAAACATCCGGAA
CAAACTTAAACTAAGTTCTTTAGATATACATAAACCAACAATGAACATGCGATTTCCATT
TTAGACAATCAGTTATTTTCGATAAAATACAAACCACTTAGATAGATTACAAAACAAAAG
AAGAACAAGTATGAAGTAAAAATTAAAATAATTAAGAAAGTTAGCAAAAGAATTAAATCT
TTTGCAAAAAAAATAATGTGATCAACCTATAATATGATGATTAAGTTGAAAAGAAAGGAC
CTTTTTGCAACACATTGTTTAGTTCATTATTATTAATTGCGTTTAATACCTCGATGGATT
TAGAGCATTTTTATTAGAGAGTATATATAAAATTGAAATTTGCATATCACAATGCAAGGC
ACAACATAAATATTAGAATGGAACAATTTTTTCTAAGAAAAAAAATAGAGAGAGCCAGAA
TAATTGAGGATGTGTGTTTCAAAAGCCAGAAAATGGA
>g6549.t7 Gene=g6549 Length=278
MAGGLFSIDKDYFYEIGSYDEGMDIWGGENLEMSFRIWQCGGILEIAPCSHVGHVFRDKS
PYTFPGGVANIVLKNAARVAAVWLDEWKEFYFAMSPGARKTSAGDVSARLALREKLKCKS
FRWYLENIYPESQMPLDYYFLGEIRNVESQNCLDTMGHKSGEKVGSSYCHGLGGNQVFAY
TKRQQIMSDDNCLDASNAHGPVNLVRCHGMGGNQEWSYDETDLTIKHVNSGNCLTRATRE
DPSTPQLRPCNFSKGQQWLMQSKFKWQTKQGTEDEERR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g6549.t7 | CDD | cd00161 | RICIN | 142 | 260 | 0.000 |
| 8 | g6549.t7 | Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 1 | 131 | 0.000 |
| 7 | g6549.t7 | Gene3D | G3DSA:2.80.10.50 | - | 137 | 265 | 0.000 |
| 2 | g6549.t7 | PANTHER | PTHR11675 | N-ACETYLGALACTOSAMINYLTRANSFERASE | 1 | 262 | 0.000 |
| 3 | g6549.t7 | PANTHER | PTHR11675:SF47 | POLYPEPTIDE N-ACETYLGALACTOSAMINYLTRANSFERASE 13 | 1 | 262 | 0.000 |
| 1 | g6549.t7 | Pfam | PF00652 | Ricin-type beta-trefoil lectin domain | 141 | 258 | 0.000 |
| 9 | g6549.t7 | ProSiteProfiles | PS50231 | Lectin domain of ricin B chain profile. | 152 | 261 | 21.076 |
| 6 | g6549.t7 | SMART | SM00458 | ricin_3 | 138 | 261 | 0.000 |
| 5 | g6549.t7 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 2 | 131 | 0.000 |
| 4 | g6549.t7 | SUPERFAMILY | SSF50370 | Ricin B-like lectins | 134 | 261 | 0.000 |
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.
