Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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 g4336 g4336.t4 TSS g4336.t4 1389059 1389059
chr_2 g4336 g4336.t4 isoform g4336.t4 1389203 1390557
chr_2 g4336 g4336.t4 exon g4336.t4.exon1 1389203 1389241
chr_2 g4336 g4336.t4 cds g4336.t4.CDS1 1389203 1389241
chr_2 g4336 g4336.t4 exon g4336.t4.exon2 1389756 1390216
chr_2 g4336 g4336.t4 cds g4336.t4.CDS2 1389756 1390216
chr_2 g4336 g4336.t4 exon g4336.t4.exon3 1390283 1390557
chr_2 g4336 g4336.t4 cds g4336.t4.CDS3 1390283 1390556
chr_2 g4336 g4336.t4 TTS g4336.t4 1391344 1391344

Sequences

>g4336.t4 Gene=g4336 Length=775
ATGAGCTCAAATAGTGTAAAAAGATTGCTTTTGAGACACTGCAAAGGCAGAAGTTCTCTT
ATCAAACTTATCATAAATTTTACAATTGTTGGCTGTGTCTGTTTGTTTTTACTCTCACAA
CTGTATAAACATAGTTCATCATCAAAAAATGAAGATGATTTGCCAATTGCAGAAGAATTG
ATTCAAGAAAAGGCCTTTAAACCGCGACCAATCGTTTTACCGTTAATTGAGGAAGAAGAT
TTTCAATATATTGAGCCAAAAACATCATTTTTCAAACAAAAACATAATGTTCTGATGAAA
AGAAAAGACTGGCATGATTATGAGCATATACAGATGGAGAAAAATAGAAAAGGACCGGGT
GAACAGGGAAAATCATTCCGTCTTACTGATCCGAATGATATCGAAATTAATAATGAATTA
TTAAAAGTTAATGGCTATTGGGCTCGTGCTTCTGATATAATTTCTGTAAATCGATCAGTC
AATGATATCAGACATCCACTATGTCAAAAGAAGAAATATTTACTAGAACTTCCAACCGCT
TCAGTGATAATTCCATTTTTCAATGATCATTTGTCTGTTCTAATGCGAACAGTTCATAGC
TGTATAAATCGTGCTCCGGCTCATCTACTTAAAGAAGTAATTCTCGTCAATGATCATTCA
ACAAAGACAGAACTCTATGATGAATTAAAAAAATATTTAGCTGAAAATTTTGATGGCAAA
GCACATGTAGTTGATTTGCCAAAAAGATCAGGATTGATTACAGCCAGACTTGCAG

>g4336.t4 Gene=g4336 Length=258
MSSNSVKRLLLRHCKGRSSLIKLIINFTIVGCVCLFLLSQLYKHSSSSKNEDDLPIAEEL
IQEKAFKPRPIVLPLIEEEDFQYIEPKTSFFKQKHNVLMKRKDWHDYEHIQMEKNRKGPG
EQGKSFRLTDPNDIEINNELLKVNGYWARASDIISVNRSVNDIRHPLCQKKKYLLELPTA
SVIIPFFNDHLSVLMRTVHSCINRAPAHLLKEVILVNDHSTKTELYDELKKYLAENFDGK
AHVVDLPKRSGLITARLA

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g4336.t4 Gene3D G3DSA:3.90.550.10 Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 98 258 2.8E-50
2 g4336.t4 PANTHER PTHR11675:SF41 POLYPEPTIDE N-ACETYLGALACTOSAMINYLTRANSFERASE 10 98 257 1.8E-40
3 g4336.t4 PANTHER PTHR11675 N-ACETYLGALACTOSAMINYLTRANSFERASE 98 257 1.8E-40
1 g4336.t4 Pfam PF00535 Glycosyl transferase family 2 181 257 2.8E-12
7 g4336.t4 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 19 -
9 g4336.t4 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 20 42 -
8 g4336.t4 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 43 258 -
5 g4336.t4 SUPERFAMILY SSF53448 Nucleotide-diphospho-sugar transferases 157 257 5.91E-15
4 g4336.t4 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 20 42 -

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. There were no conditions that were differentially expressed