General information for g1141.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Polypeptide N-acetylgalactosaminyltransferase 1.
Parent gene
- The parent gene g1141 is located on chr_3: 8388583..8389318 (- 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_3 | g1141 | g1141.t2 | TTS | g1141.t2 | 8388389 | 8388389 |
| chr_3 | g1141 | g1141.t2 | isoform | g1141.t2 | 8388583 | 8389318 |
| chr_3 | g1141 | g1141.t2 | exon | g1141.t2.exon1 | 8388583 | 8389318 |
| chr_3 | g1141 | g1141.t2 | cds | g1141.t2.CDS1 | 8388584 | 8389318 |
| chr_3 | g1141 | g1141.t2 | TSS | g1141.t2 | 8389467 | 8389467 |
Sequences
>g1141.t2 Gene=g1141 Length=736
ATGATTAGTTTACGAAGAAATTTTCTCTCGAAAATTCTCCTTCTCGTCATTGTTTTTATA
TTATGCATTTTCTATATAAGAAGTTTAAATAATTTAAATGCAATAAGCGCAGACAGGACC
AAATTTTTAAATGTACCTCAACAACAACGTCTCGTGCAACTAGATGCAGCCGATTCAATA
GATCAACAAATTCAGGAACCACAAGATAATCAAATAATAATAGGACTAGTCAATGAAAAC
AATAAAGTTGAAGGGTCGAAATATAAGGAAAAGACTATCAACAAGTATGAACTTGAAATT
TTAAGAGATCTTAAAAAACAACAAGAAATACCGAATCTCGGAGCAAATGGAGCAATTGCT
CATTTACGAGATCCTGACGATATTGCCGAAGGTGAAAGACAGTTGTCAAAGATTGCACTT
AATGAAGAGTTAAGCAACCACATATCATATAATCGTTCAATACCGGATGCTCGTCATCCT
GCTTGCAGGAAGAAATCTTATGACATTTCAACGCTACCTACCACTTCTGTCATCATCATT
TTCTTTAACGAGCCATATTCGGTTTTAGTTAGAACAGTACATAGTGTAATAAATACAAGT
CCGGAAAGACTTCTTAAAGAAGTTATTCTTGTTGATGATGGTTCAAGTAATATTGAACTC
AAGAAAAAATTAGACCATTATGTAAAGACACGTTTTAACGATAAAGTAAAGGTGCTACGA
TTAAAGAATAGGTAAG
>g1141.t2 Gene=g1141 Length=244
MISLRRNFLSKILLLVIVFILCIFYIRSLNNLNAISADRTKFLNVPQQQRLVQLDAADSI
DQQIQEPQDNQIIIGLVNENNKVEGSKYKEKTINKYELEILRDLKKQQEIPNLGANGAIA
HLRDPDDIAEGERQLSKIALNEELSNHISYNRSIPDARHPACRKKSYDISTLPTTSVIII
FFNEPYSVLVRTVHSVINTSPERLLKEVILVDDGSSNIELKKKLDHYVKTRFNDKVKVLR
LKNR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g1141.t2 | Coils | Coil | Coil | 236 | 244 | - |
| 6 | g1141.t2 | Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 90 | 244 | 1.5E-41 |
| 2 | g1141.t2 | PANTHER | PTHR11675 | N-ACETYLGALACTOSAMINYLTRANSFERASE | 11 | 244 | 8.1E-41 |
| 3 | g1141.t2 | PANTHER | PTHR11675:SF43 | POLYPEPTIDE N-ACETYLGALACTOSAMINYLTRANSFERASE 1 | 11 | 244 | 8.1E-41 |
| 1 | g1141.t2 | Pfam | PF00535 | Glycosyl transferase family 2 | 176 | 243 | 6.9E-12 |
| 8 | g1141.t2 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 10 | g1141.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 29 | - |
| 9 | g1141.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 30 | 244 | - |
| 5 | g1141.t2 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 151 | 242 | 1.31E-13 |
| 4 | g1141.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 29 | - |
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.
