Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Putative polypeptide N-acetylgalactosaminyltransferase 9.

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_3 g2201 g2201.t2 TSS g2201.t2 15947314 15947314
chr_3 g2201 g2201.t2 isoform g2201.t2 15947380 15948233
chr_3 g2201 g2201.t2 exon g2201.t2.exon1 15947380 15948113
chr_3 g2201 g2201.t2 cds g2201.t2.CDS1 15947380 15948113
chr_3 g2201 g2201.t2 exon g2201.t2.exon2 15948178 15948233
chr_3 g2201 g2201.t2 cds g2201.t2.CDS2 15948178 15948232
chr_3 g2201 g2201.t2 TTS g2201.t2 NA NA

Sequences

>g2201.t2 Gene=g2201 Length=790
ATGTATACGTCAAAATTTAGACTTTGTAGAATTTTATTTACTGCTGGCTTCATATGGCTT
ATGACTGTTTTAACTTTATTTCACTATTGGGAATTGATTATGGAACATCAAATAAAGTTA
ACAAAATTTTCAAAAAATCCTACTGATGATAATTTAGTGTCTCAAGATTTTCATACAGAA
AAGTTAATTCAAACAACCGCGAGCAATAAAGAAGCAGAGAAAATAAGCACGAGAGAGGCA
ACAACGTGGAAAAAATTTACAATAATGACAGATAAACGAACACGAAGACCTCACAAGAGT
AGAAAAACCACAACAGAATCTACCACGACCACTACAACAACCACATCATCCTCCACATCT
ACAACTTTATCAACTACACAAGCAACAACACGAAAAAAGAGAGCATATGAGAGAGTTATC
ACACCTGTTCCTGATGCAATCTACACTCTCCTAAATTTGCCTAAAAATGTTGGCGAAGGT
GGTGCTATCGTTCGAATTCAAGATCCACCACCTGAAATTAAGCAGAAAATTGATGCCGGC
TGGTCGAGACATGAATTTAATGAATTTCTTTCTGATTTAATCTCAGTTAATCGCTCAGTT
CCAGACCCAAGAAGTGAATACTGTAAACAAAAAGGATTATATCTTGAAAATCTGCCAATG
ACGTCAGTTATCATTATTTTTCACAATGAAGCATGGTCGACATTACTAAGGACAGTACAT
TCTGTTCTCAATAGATCTCCACCACATTTAATTAAGGAAATTATTTTAGTTGATGATTAT
TCAAATATGT

>g2201.t2 Gene=g2201 Length=263
MYTSKFRLCRILFTAGFIWLMTVLTLFHYWELIMEHQIKLTKFSKNPTDDNLVSQDFHTE
KLIQTTASNKEAEKISTREATTWKKFTIMTDKRTRRPHKSRKTTTESTTTTTTTTSSSTS
TTLSTTQATTRKKRAYERVITPVPDAIYTLLNLPKNVGEGGAIVRIQDPPPEIKQKIDAG
WSRHEFNEFLSDLISVNRSVPDPRSEYCKQKGLYLENLPMTSVIIIFHNEAWSTLLRTVH
SVLNRSPPHLIKEIILVDDYSNM

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g2201.t2 Gene3D G3DSA:3.90.550.10 Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 147 263 2.9E-39
7 g2201.t2 MobiDBLite mobidb-lite consensus disorder prediction 93 130 -
6 g2201.t2 MobiDBLite mobidb-lite consensus disorder prediction 104 130 -
2 g2201.t2 PANTHER PTHR11675 N-ACETYLGALACTOSAMINYLTRANSFERASE 6 263 1.6E-42
3 g2201.t2 PANTHER PTHR11675:SF112 POLYPEPTIDE N-ACETYLGALACTOSAMINYLTRANSFERASE 9-RELATED 6 263 1.6E-42
1 g2201.t2 Pfam PF00535 Glycosyl transferase family 2 222 261 3.8E-9
9 g2201.t2 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 1 11 -
11 g2201.t2 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 12 30 -
10 g2201.t2 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 31 263 -
5 g2201.t2 SUPERFAMILY SSF53448 Nucleotide-diphospho-sugar transferases 197 261 3.84E-12
4 g2201.t2 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 12 34 -

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