General information for g6549.t5
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.t5 | TTS | g6549.t5 | 17606620 | 17606620 |
| chr_2 | g6549 | g6549.t5 | isoform | g6549.t5 | 17607361 | 17611677 |
| chr_2 | g6549 | g6549.t5 | exon | g6549.t5.exon1 | 17607361 | 17608688 |
| chr_2 | g6549 | g6549.t5 | cds | g6549.t5.CDS1 | 17608515 | 17608688 |
| chr_2 | g6549 | g6549.t5 | exon | g6549.t5.exon2 | 17608761 | 17608929 |
| chr_2 | g6549 | g6549.t5 | cds | g6549.t5.CDS2 | 17608761 | 17608929 |
| chr_2 | g6549 | g6549.t5 | exon | g6549.t5.exon3 | 17609123 | 17609187 |
| chr_2 | g6549 | g6549.t5 | cds | g6549.t5.CDS3 | 17609123 | 17609187 |
| chr_2 | g6549 | g6549.t5 | exon | g6549.t5.exon4 | 17609254 | 17609393 |
| chr_2 | g6549 | g6549.t5 | cds | g6549.t5.CDS4 | 17609254 | 17609393 |
| chr_2 | g6549 | g6549.t5 | exon | g6549.t5.exon5 | 17610088 | 17610268 |
| chr_2 | g6549 | g6549.t5 | cds | g6549.t5.CDS5 | 17610088 | 17610268 |
| chr_2 | g6549 | g6549.t5 | exon | g6549.t5.exon6 | 17610327 | 17610355 |
| chr_2 | g6549 | g6549.t5 | cds | g6549.t5.CDS6 | 17610327 | 17610355 |
| chr_2 | g6549 | g6549.t5 | exon | g6549.t5.exon7 | 17610418 | 17610493 |
| chr_2 | g6549 | g6549.t5 | cds | g6549.t5.CDS7 | 17610418 | 17610493 |
| chr_2 | g6549 | g6549.t5 | exon | g6549.t5.exon8 | 17610549 | 17610782 |
| chr_2 | g6549 | g6549.t5 | cds | g6549.t5.CDS8 | 17610549 | 17610782 |
| chr_2 | g6549 | g6549.t5 | exon | g6549.t5.exon9 | 17610849 | 17610949 |
| chr_2 | g6549 | g6549.t5 | cds | g6549.t5.CDS9 | 17610849 | 17610949 |
| chr_2 | g6549 | g6549.t5 | exon | g6549.t5.exon10 | 17611007 | 17611230 |
| chr_2 | g6549 | g6549.t5 | cds | g6549.t5.CDS10 | 17611007 | 17611230 |
| chr_2 | g6549 | g6549.t5 | exon | g6549.t5.exon11 | 17611334 | 17611677 |
| chr_2 | g6549 | g6549.t5 | cds | g6549.t5.CDS11 | 17611334 | 17611467 |
| chr_2 | g6549 | g6549.t5 | TSS | g6549.t5 | NA | NA |
Sequences
>g6549.t5 Gene=g6549 Length=2891
GTTCATGAAGATAAATTTATCAGTCACCATCAACTTGACGAAGATCCAATTGTTAACGAT
GATGAAATAAATACAAATTTAAATAATGCTGATAATGATTTTAACAATGATGATGACGTG
ATACACATATCGAAAACATATCGATCGACAGATCTAAAGAAATGGCGGCCAGCGCCGGTG
GTGCGTGAAAATGTAGGAAAACCAGGTGAAATGGGCAAGCCGGTCAAAATGAAATCATAT
CAGCAGGAAGAAATGAAAGAGAAATTCAAAGAAAATCAATTCAATTTGTTAGCAAGTGAT
ATGATATGGTTGAATCGATCGCTCGCTGATGTGCGGCACAAAGACTGTCGAACTAAAACA
TACCCAAGTAGATTGCCAACAACAAGTATAGTTATAGTTTTTCATAATGAAGCATGGAGC
ACATTGCTCAGAACAATATGGAGTGTAATTAATCGTTCACCACGACCGTTATTAAAAGAA
ATCATTCTCGTTGATGATGCAAGCGAGCGTGAATATTTAGGTGAAAAATTAGAGGAATAT
GTAAAAACACTGCCTGTTCCAACATCAGTTTTACGCACCGGTAAAAGGTCTGGTCTCATT
AGAGCACGTTTATTGGGTGCTGCTGCTGTAAAAGGTCAAGTTATAACTTTTCTCGATGCT
CATTGTGAATGTACTGAAGGTTGGTTAGAACCTTTGTTGTCGAGAATTGCTTTGGACAGA
AAAACAGTTGTTTGTCCAATAATCGATGTTATTAGTGATGAAACGTTTGAATATGTTACT
GCTTCTGATCAAACTTGGGGTGGTTTTAATTGGAAGCTCAATTTTAGATGGTATCGAGTA
CCTGCTAGAGAAATGGCAAGAAGAAATAATGATAGGACTTCACCTCTTCGAACGCCAACT
ATGGCGGGTGGTTTGTTTTCAATAGATAAAGATTATTTCTATGAAATTGGTTCATATGAC
GAGGGAATGGATATTTGGGGTGGTGAAAATTTGGAAATGAGTTTTCGTATTTGGCAATGC
GGCGGAATTTTGGAAATTGCTCCCTGTAGCCACGTTGGTCATGTTTTCAGAGATAAAAGT
CCATATACTTTCCCTGGCGGTGTGGCAAATATTGTACTTAAAAATGCTGCTCGTGTTGCA
GCTGTTTGGCTTGACGAATGGAAAGAATTTTACTTCGCTATGAGTCCAGGTGCACGAAAA
ACATCAGCTGGAGATGTGTCTGCACGTCTTGCTCTAAGAGAAAAATTAAAGTGCAAGAGT
TTCAGATGGTATCTTGAAAATATTTATCCTGAGAGTCAAATGCCATTAGATTATTATTTC
CTCGGAGAAATTCGAAATGTCGAAAGTCAGAATTGTTTAGATACGATGGGTCATAAATCA
GGAGAGAAAGTTGGATCATCATATTGTCACGGACTGGGAGGTAATCAAGTTTTCGCCTAC
ACTAAACGACAACAAATTATGTCAGATGATAACTGTCTTGATGCCAGTAACGCTCATGGA
CCAGTTAACTTAGTTAGATGTCATGGAATGGGTGGGAATCAGGAATGGAGTTATGATGAG
ACTGACCTTACAATTAAGCATGTGAATTCAGGAAATTGTCTTACAAGAGCCACTCGAGAA
GATCCTTCAACGCCACAACTTCGTCCATGTAACTTTTCTAAAGGTCAACAGTGGTTAATG
CAATCAAAGTTTAAGTGGCAAACAAAGCAAGGTACAGAAGATGAAGAGAGAAGATAGGGG
TTGCTGAAATTGGCCAATATGGATTGATTTAATTTATTTTCCTACATCGTTCCTCTTATC
TTGTACAATATAAGACCCCATTTTTATATAATTTCTTTTTGCAAGAAACATCCGGAACAA
ACTTAAACTAAGTTCTTTAGATATACATAAACCAACAATGAACATGCGATTTCCATTTTA
GACAATCAGTTATTTTCGATAAAATACAAACCACTTAGATAGATTACAAAACAAAAGAAG
AACAAGTATGAAGTAAAAATTAAAATAATTAAGAAAGTTAGCAAAAGAATTAAATCTTTT
GCAAAAAAAATAATGTGATCAACCTATAATATGATGATTAAGTTGAAAAGAAAGGACCTT
TTTGCAACACATTGTTTAGTTCATTATTATTAATTGCGTTTAATACCTCGATGGATTTAG
AGCATTTTTATTAGAGAGTATATATAAAATTGAAATTTGCATATCACAATGCAAGGCACA
ACATAAATATTAGAATGGAACAATTTTTTCTAAGAAAAAAAATAGAGAGAGCCAGAATAA
TTGAGGATGTGTGTTTCAAAAGCCAGAAAATGGAGATAAAAAATTTATATTAAGTATATA
TGTTGAAATTCATCGGATTCATGTGTTTAGAAATTAAGTAGGAATCAATTTATAAAATAT
TTAAAATCCTTTTTATATTAACGTACTGCATTGTGTGCCACGAAGATTTTGGCAAAATAA
AAAAAAAATGAATTAGAAGAAAGAAATTAAAATCTCAATCTTCCGCAAGAACACACATTT
CAAAATGATTTATATTACAAAAAGAGATGTATGTAAATAGAACAAATTTTGAGTAATCAG
TTGATACAATTAAACACATGGTGGAGGTGCAATTTTCTTTACTCCCACAACTATCTTTAA
CAAAAATATCTCTCGTTTATAAAATATTATTTAATGAAGAAAATAGAGTAACGTTATCAA
AAATAATAGTATTTAGTCGAATAAGATGTTATTTTCAATTTTTTTCGCCATTAAATTATT
TTTTAATGAAAATCTTTTCCTCTTTATATTTTTTTTCTTTTGTCTAAATGAATTTTAAAT
AAAGAGTATTTAATTATGAAATTTAATTGTGTTCATTCATTCCTGAAAATTGATAATTTG
GCACTTTTAGA
>g6549.t5 Gene=g6549 Length=508
MGKPVKMKSYQQEEMKEKFKENQFNLLASDMIWLNRSLADVRHKDCRTKTYPSRLPTTSI
VIVFHNEAWSTLLRTIWSVINRSPRPLLKEIILVDDASEREYLGEKLEEYVKTLPVPTSV
LRTGKRSGLIRARLLGAAAVKGQVITFLDAHCECTEGWLEPLLSRIALDRKTVVCPIIDV
ISDETFEYVTASDQTWGGFNWKLNFRWYRVPAREMARRNNDRTSPLRTPTMAGGLFSIDK
DYFYEIGSYDEGMDIWGGENLEMSFRIWQCGGILEIAPCSHVGHVFRDKSPYTFPGGVAN
IVLKNAARVAAVWLDEWKEFYFAMSPGARKTSAGDVSARLALREKLKCKSFRWYLENIYP
ESQMPLDYYFLGEIRNVESQNCLDTMGHKSGEKVGSSYCHGLGGNQVFAYTKRQQIMSDD
NCLDASNAHGPVNLVRCHGMGGNQEWSYDETDLTIKHVNSGNCLTRATREDPSTPQLRPC
NFSKGQQWLMQSKFKWQTKQGTEDEERR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g6549.t5 | CDD | cd02510 | pp-GalNAc-T | 59 | 359 | 0.000 |
| 11 | g6549.t5 | CDD | cd00161 | RICIN | 372 | 490 | 0.000 |
| 9 | g6549.t5 | Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 1 | 367 | 0.000 |
| 8 | g6549.t5 | Gene3D | G3DSA:2.80.10.50 | - | 368 | 495 | 0.000 |
| 3 | g6549.t5 | PANTHER | PTHR11675 | N-ACETYLGALACTOSAMINYLTRANSFERASE | 9 | 497 | 0.000 |
| 4 | g6549.t5 | PANTHER | PTHR11675:SF101 | POLYPEPTIDE N-ACETYLGALACTOSAMINYLTRANSFERASE 1 | 9 | 497 | 0.000 |
| 2 | g6549.t5 | Pfam | PF00535 | Glycosyl transferase family 2 | 59 | 243 | 0.000 |
| 1 | g6549.t5 | Pfam | PF00652 | Ricin-type beta-trefoil lectin domain | 371 | 488 | 0.000 |
| 10 | g6549.t5 | ProSiteProfiles | PS50231 | Lectin domain of ricin B chain profile. | 382 | 491 | 21.076 |
| 7 | g6549.t5 | SMART | SM00458 | ricin_3 | 368 | 491 | 0.000 |
| 6 | g6549.t5 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 35 | 361 | 0.000 |
| 5 | g6549.t5 | SUPERFAMILY | SSF50370 | Ricin B-like lectins | 364 | 491 | 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 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.
