General information for g4336.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as N-acetylgalactosaminyltransferase 6.
Parent gene
- The parent gene g4336 is located on chr_2: 1391277..1392233 (+ 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 | g4336 | g4336.t6 | TSS | g4336.t6 | 1389059 | 1389059 |
| chr_2 | g4336 | g4336.t6 | isoform | g4336.t6 | 1389203 | 1391939 |
| chr_2 | g4336 | g4336.t6 | exon | g4336.t6.exon1 | 1389203 | 1389241 |
| chr_2 | g4336 | g4336.t6 | cds | g4336.t6.CDS1 | 1389203 | 1389241 |
| chr_2 | g4336 | g4336.t6 | exon | g4336.t6.exon2 | 1389756 | 1390216 |
| chr_2 | g4336 | g4336.t6 | cds | g4336.t6.CDS2 | 1389756 | 1390216 |
| chr_2 | g4336 | g4336.t6 | exon | g4336.t6.exon3 | 1390283 | 1390557 |
| chr_2 | g4336 | g4336.t6 | cds | g4336.t6.CDS3 | 1390283 | 1390557 |
| chr_2 | g4336 | g4336.t6 | exon | g4336.t6.exon4 | 1390627 | 1390710 |
| chr_2 | g4336 | g4336.t6 | cds | g4336.t6.CDS4 | 1390627 | 1390710 |
| chr_2 | g4336 | g4336.t6 | exon | g4336.t6.exon5 | 1390771 | 1391199 |
| chr_2 | g4336 | g4336.t6 | cds | g4336.t6.CDS5 | 1390771 | 1391199 |
| chr_2 | g4336 | g4336.t6 | exon | g4336.t6.exon6 | 1391250 | 1391450 |
| chr_2 | g4336 | g4336.t6 | cds | g4336.t6.CDS6 | 1391250 | 1391269 |
| chr_2 | g4336 | g4336.t6 | exon | g4336.t6.exon7 | 1391514 | 1391939 |
| chr_2 | g4336 | g4336.t6 | TTS | g4336.t6 | 1392013 | 1392013 |
Sequences
>g4336.t6 Gene=g4336 Length=1915
ATGAGCTCAAATAGTGTAAAAAGATTGCTTTTGAGACACTGCAAAGGCAGAAGTTCTCTT
ATCAAACTTATCATAAATTTTACAATTGTTGGCTGTGTCTGTTTGTTTTTACTCTCACAA
CTGTATAAACATAGTTCATCATCAAAAAATGAAGATGATTTGCCAATTGCAGAAGAATTG
ATTCAAGAAAAGGCCTTTAAACCGCGACCAATCGTTTTACCGTTAATTGAGGAAGAAGAT
TTTCAATATATTGAGCCAAAAACATCATTTTTCAAACAAAAACATAATGTTCTGATGAAA
AGAAAAGACTGGCATGATTATGAGCATATACAGATGGAGAAAAATAGAAAAGGACCGGGT
GAACAGGGAAAATCATTCCGTCTTACTGATCCGAATGATATCGAAATTAATAATGAATTA
TTAAAAGTTAATGGCTATTGGGCTCGTGCTTCTGATATAATTTCTGTAAATCGATCAGTC
AATGATATCAGACATCCACTATGTCAAAAGAAGAAATATTTACTAGAACTTCCAACCGCT
TCAGTGATAATTCCATTTTTCAATGATCATTTGTCTGTTCTAATGCGAACAGTTCATAGC
TGTATAAATCGTGCTCCGGCTCATCTACTTAAAGAAGTAATTCTCGTCAATGATCATTCA
ACAAAGACAGAACTCTATGATGAATTAAAAAAATATTTAGCTGAAAATTTTGATGGCAAA
GCACATGTAGTTGATTTGCCAAAAAGATCAGGATTGATTACAGCCAGACTTGCAGGTGCA
CGAGTGGCTACAGGTGATGTACTTATATTCTTAGACTCACACACAGAAGCAAATACAAAT
TGGCTACCACCGTTATTGGATCCAATTGCTGAAGACTATCGAACATGTGTTTGTCCATTT
ATTGATGTAATTGATGCACAAGATTATCAATATAGAGCTCAAGATGAAGGAAATAGGGGT
GCTTTTGAATGGAATTTCTTATATAAAAGAATTGACATCAGACCAGGTGATCAAGAGACG
CCTGCTGACAATTTTCCTTCTCCCGTAATGGCTGGAGGTCTTTTTGCAATATCAGCAAAA
TTCTTTTGGGAACTGGGCGGTTATGACTCAGGACTAGATATCTGGGGAGGTGAACAATAC
GAATTGAGTTTTAAAATTTGGCTCTGTGGTGGCACCATGGTCGATTCACCGTGCTCAAGA
ATTGGGCATATTTACAAATCAAATCCATTTCCTGATCCAAGAGGATATGACTATGTGTCA
AAGAATTTTAAAAGAGTTGCTGAAGTAAGTATGGATGGACGAATATAAAGAATACATTTA
TCAACGTAAACCAGAAAGATTTTCAAAAGTTGATGTCGGTGACATTTCAAAACAATTAGA
GATCAAAAAGAAAAATAAATGCAAACCATTCAGTTATTTCCTTGAAGTAGTTGCTCCAGA
TATGCTTGAAAAATATCCGCCAACACAAATTGAATTTGCTAGTGGCACAATTGAAAGTGT
AGCTTTTGGTGACTATTGTATTGACTCAATGGGACAATTTTATCACGACCTTGGACTTTA
TAGATGTTCATACAATAAAAAACATCCATCAGGTCATCAACATTTCTTCCTTGGCCATAA
TCGAGATATTGAATTTTATTCAGATGCAGCCTATTGTATTGATTCATACGGTTCAAGTAT
CAGACTTGCAGCTTGTCATCATCGGCAAGGTACTCAATATTTCCGTTATGATCTCGATAC
ACAACATATTTATAGTCAAAAAGATGAACGCAAGTGCCTCGAAGCTGATTCTGCACGAAA
AAAAATTGTCGTCAGTCGATGCAAAGATGATGAAATTAAGCAAAAATGGAAGTGGGGAAA
TGTGAATGAAGACAATCTCAGACATTGGGAAGAGCGTGGTGCTAAAATAAAATAA
>g4336.t6 Gene=g4336 Length=435
MSSNSVKRLLLRHCKGRSSLIKLIINFTIVGCVCLFLLSQLYKHSSSSKNEDDLPIAEEL
IQEKAFKPRPIVLPLIEEEDFQYIEPKTSFFKQKHNVLMKRKDWHDYEHIQMEKNRKGPG
EQGKSFRLTDPNDIEINNELLKVNGYWARASDIISVNRSVNDIRHPLCQKKKYLLELPTA
SVIIPFFNDHLSVLMRTVHSCINRAPAHLLKEVILVNDHSTKTELYDELKKYLAENFDGK
AHVVDLPKRSGLITARLAGARVATGDVLIFLDSHTEANTNWLPPLLDPIAEDYRTCVCPF
IDVIDAQDYQYRAQDEGNRGAFEWNFLYKRIDIRPGDQETPADNFPSPVMAGGLFAISAK
FFWELGGYDSGLDIWGGEQYELSFKIWLCGGTMVDSPCSRIGHIYKSNPFPDPRGYDYVS
KNFKRVAEVSMDGRI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g4336.t6 | CDD | cd02510 | pp-GalNAc-T | 181 | 432 | 1.90797E-139 |
| 6 | g4336.t6 | Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 98 | 434 | 2.2E-131 |
| 2 | g4336.t6 | PANTHER | PTHR11675:SF41 | POLYPEPTIDE N-ACETYLGALACTOSAMINYLTRANSFERASE 10 | 98 | 432 | 1.0E-124 |
| 3 | g4336.t6 | PANTHER | PTHR11675 | N-ACETYLGALACTOSAMINYLTRANSFERASE | 98 | 432 | 1.0E-124 |
| 1 | g4336.t6 | Pfam | PF00535 | Glycosyl transferase family 2 | 181 | 365 | 3.1E-30 |
| 7 | g4336.t6 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 19 | - |
| 9 | g4336.t6 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 20 | 42 | - |
| 8 | g4336.t6 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 43 | 435 | - |
| 5 | g4336.t6 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 157 | 432 | 4.61E-47 |
| 4 | g4336.t6 | 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.
