Gene loci information

Transcript annotation

  • This transcript has been annotated as N-acetylgalactosaminyltransferase 6.

Parent gene

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.t4 isoform g6746.t4 18445949 18448376
chr_2 g6746 g6746.t4 exon g6746.t4.exon1 18445949 18446383
chr_2 g6746 g6746.t4 exon g6746.t4.exon2 18446467 18447835
chr_2 g6746 g6746.t4 cds g6746.t4.CDS1 18446550 18447835
chr_2 g6746 g6746.t4 exon g6746.t4.exon3 18447899 18448376
chr_2 g6746 g6746.t4 cds g6746.t4.CDS2 18447899 18448376
chr_2 g6746 g6746.t4 TTS g6746.t4 18448579 18448579
chr_2 g6746 g6746.t4 TSS g6746.t4 NA NA

Sequences

>g6746.t4 Gene=g6746 Length=2282
TTTTGTTATTTAATAAGTTTCTTTCCAAAAAACACTTGAAAATTTATTTTTATTTTACCG
CATAAATATTTTTAACTGCACTCTATGTTGTTGTACAAAGACATCTGTTTTAAAATTGTA
TTCACTCTATTTTGACGTCCATTTATTGTTTACATGAATTTATATCAATATAATTCTCAT
TTATCGGTTTATTATATTTTTTTCTAAAAGAATATACATTTTTAATAAATTGTTAGAATT
ATAATTAGATAAAGATTATACCTAAGGGTAGTCTTTAATAAAAGGACCTAAAATAAAGAT
TTTTTAAAAAAAAAAAATTTAAATGTTAGAGAGATAATAACAGATATCCTTAATCAATAT
ATTTTTTGTTGACAACTCATCAATCAATTGACAATAGGCACATTTTTAAATAAAATTTTC
AATGACCTGATATAGATAAAAAGATGAGACGAAATTTACTGAAATTAACTAAATTGCTGA
TAATATCGGTTGTGTTCTTTTTACTAGTTGTACTATTCATGAAAAGTATATCGAACACAT
CATCGTTTAATAATTTGCTACCGTCATCACAGAACATTCTATTTTCTAATGATAAAATTC
AGAAGCAAAATCATCAATTTGGAGCATTTTTTGGCCGAATTCGAAATGAAAAATTGCAGA
AAATCGACTGGCATGATTATGAACAAATAAAAAAGGATGCACAACGAATTGGATTTGGTG
AAAATGGAAAATCTGAAAAATTAGATGAAACTGAGAAAAGCTTAGAAGATGATTTCTTTC
GGCAGAATGGTTTTAATGCTTTGCTCAGTGATAAAATAAGCATTAATCGGAGTATTCCTG
ATATTAGACATGTGAAATGCAAAGAAAAGAAATATTTATCAGAACTTCCTTCTGTGTCAG
TTATAATACCATTCTACAATGAGCACTTTTCAACTTTATTACGAACAGTATATTCAGTAA
TAAATAGAAGTCCAAGTGATTTATTAAATGAAATTATTTTGGTAGATGATTGTAGTAAGA
AAGATTTTTTAAAAGACAAGCTCGATTCATATGTAAGAGAAAATTTGCCAAAAGTCAAAA
TCGTACGAATGAAAGAAAGAGGGGGTTTGGTTACTGCAAGAACAGCTGGAGCAAAAATAG
CAAACGGCGATGTTCTAATTTTTCTTGATTCACATACTGAAGCAAACGTAAATTGGCTAC
CTCCATTAATTGAACCAATTGCTGAAAATTATCGTATATGCGTTTGTCCATTTATTGATG
TGATTGCATATGACACATTTGAATATCGAGCTCAAGATGAAGGAGCCAGAGGTGCATTTG
ATTGGCAACTTTTTTATAAACGCCTTCCTTTAACCAAAAAAGATCTTGAAAACCCAACGG
AACCTTTTAATTCTCCAGTTATGGCTGGAGGTTTATTTGCTATATCATCAAAATTTTTCT
GGGAATTAGGAGGATATGATGAAGGACTTCAAATTTGGGGAGGAGAACAATACGAACTAA
GTTTTAAAATTTGGCAGTGTCATGGCAAGATTGTTGATGCTCCATGCTCTCGTGTAGGAC
ACATTTATCGAAAATTTGCTTCATTTGACAGTGGTGGAAAAGGAGATTATTTAACAAGAA
ATCATAAGCGCGTTGTTGAGACTTGGATGGATGAACCTTATAAATCTTATGTATATAACA
AAAATTTAAGATATAAATCAGTCGATGCAGGTGATTTGACTAAGCAAAAGGAAATAAGAG
AAAAATTAAAATGCAAATCTTTTGATTGGTTCATGAAAGAAGTAGCTTTTGATTTGATGG
ATAAATACCCACCAGTTGAACCACCAGATTTTGCAAACGGTGCCATATGGTCAATTTCTA
ATCCGAATTTTTGTGTTGATACTATGAATGGTCAAAGTGAAAATGATCGAGTTAGCTTAA
ATACTTGTTCATCAGATTTAAAAAATCCACGTCATTCACAATTCTTTGCTTTGAGTTGGC
AACGTGATATTCGTTTAAAAAACTTGAAAACTCAATGCTGGGATGTATCAGAGTCAGGTA
ACGCACCAATTGTTATTTATGGTTGTCATGCAATGCAAGGAAATCAACTCTTTCGATATC
TTCTCGATACTAAGCAAATTCAACATGTAATAACCTCTCGATGTCTTGATGCAGATTTTC
AAACAATGAAGTTATTCGTAAGCAATTGTGATAGTAATAGCCTAAACCAAAAATGGAATT
TTGGAAATGTTAATTCAACTGCATTAAATAATTGGGAAATTTCTGGTGCAAAATTAATCT
AA

>g6746.t4 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.t4 CDD cd02510 pp-GalNAc-T 127 423 0.00
11 g6746.t4 CDD cd00161 RICIN 441 568 0.00
9 g6746.t4 Gene3D G3DSA:3.90.550.10 Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 45 433 0.00
8 g6746.t4 Gene3D G3DSA:2.80.10.50 - 434 582 0.00
3 g6746.t4 PANTHER PTHR11675:SF41 POLYPEPTIDE N-ACETYLGALACTOSAMINYLTRANSFERASE 10 41 580 0.00
4 g6746.t4 PANTHER PTHR11675 N-ACETYLGALACTOSAMINYLTRANSFERASE 41 580 0.00
2 g6746.t4 Pfam PF00535 Glycosyl transferase family 2 127 310 0.00
1 g6746.t4 Pfam PF00652 Ricin-type beta-trefoil lectin domain 441 566 0.00
10 g6746.t4 ProSiteProfiles PS50231 Lectin domain of ricin B chain profile. 439 569 18.45
7 g6746.t4 SMART SM00458 ricin_3 441 569 0.00
6 g6746.t4 SUPERFAMILY SSF53448 Nucleotide-diphospho-sugar transferases 103 425 0.00
5 g6746.t4 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

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.

Raw TPM values