General information for g4336.t1
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.t1 | TSS | g4336.t1 | 1389059 | 1389059 |
| chr_2 | g4336 | g4336.t1 | isoform | g4336.t1 | 1389203 | 1391939 |
| chr_2 | g4336 | g4336.t1 | exon | g4336.t1.exon1 | 1389203 | 1389241 |
| chr_2 | g4336 | g4336.t1 | cds | g4336.t1.CDS1 | 1389203 | 1389241 |
| chr_2 | g4336 | g4336.t1 | exon | g4336.t1.exon2 | 1389756 | 1390216 |
| chr_2 | g4336 | g4336.t1 | cds | g4336.t1.CDS2 | 1389756 | 1390216 |
| chr_2 | g4336 | g4336.t1 | exon | g4336.t1.exon3 | 1390283 | 1390557 |
| chr_2 | g4336 | g4336.t1 | cds | g4336.t1.CDS3 | 1390283 | 1390557 |
| chr_2 | g4336 | g4336.t1 | exon | g4336.t1.exon4 | 1390627 | 1390710 |
| chr_2 | g4336 | g4336.t1 | cds | g4336.t1.CDS4 | 1390627 | 1390710 |
| chr_2 | g4336 | g4336.t1 | exon | g4336.t1.exon5 | 1390771 | 1391195 |
| chr_2 | g4336 | g4336.t1 | cds | g4336.t1.CDS5 | 1390771 | 1391195 |
| chr_2 | g4336 | g4336.t1 | exon | g4336.t1.exon6 | 1391250 | 1391450 |
| chr_2 | g4336 | g4336.t1 | cds | g4336.t1.CDS6 | 1391250 | 1391450 |
| chr_2 | g4336 | g4336.t1 | exon | g4336.t1.exon7 | 1391514 | 1391939 |
| chr_2 | g4336 | g4336.t1 | cds | g4336.t1.CDS7 | 1391514 | 1391939 |
| chr_2 | g4336 | g4336.t1 | TTS | g4336.t1 | 1392013 | 1392013 |
Sequences
>g4336.t1 Gene=g4336 Length=1911
ATGAGCTCAAATAGTGTAAAAAGATTGCTTTTGAGACACTGCAAAGGCAGAAGTTCTCTT
ATCAAACTTATCATAAATTTTACAATTGTTGGCTGTGTCTGTTTGTTTTTACTCTCACAA
CTGTATAAACATAGTTCATCATCAAAAAATGAAGATGATTTGCCAATTGCAGAAGAATTG
ATTCAAGAAAAGGCCTTTAAACCGCGACCAATCGTTTTACCGTTAATTGAGGAAGAAGAT
TTTCAATATATTGAGCCAAAAACATCATTTTTCAAACAAAAACATAATGTTCTGATGAAA
AGAAAAGACTGGCATGATTATGAGCATATACAGATGGAGAAAAATAGAAAAGGACCGGGT
GAACAGGGAAAATCATTCCGTCTTACTGATCCGAATGATATCGAAATTAATAATGAATTA
TTAAAAGTTAATGGCTATTGGGCTCGTGCTTCTGATATAATTTCTGTAAATCGATCAGTC
AATGATATCAGACATCCACTATGTCAAAAGAAGAAATATTTACTAGAACTTCCAACCGCT
TCAGTGATAATTCCATTTTTCAATGATCATTTGTCTGTTCTAATGCGAACAGTTCATAGC
TGTATAAATCGTGCTCCGGCTCATCTACTTAAAGAAGTAATTCTCGTCAATGATCATTCA
ACAAAGACAGAACTCTATGATGAATTAAAAAAATATTTAGCTGAAAATTTTGATGGCAAA
GCACATGTAGTTGATTTGCCAAAAAGATCAGGATTGATTACAGCCAGACTTGCAGGTGCA
CGAGTGGCTACAGGTGATGTACTTATATTCTTAGACTCACACACAGAAGCAAATACAAAT
TGGCTACCACCGTTATTGGATCCAATTGCTGAAGACTATCGAACATGTGTTTGTCCATTT
ATTGATGTAATTGATGCACAAGATTATCAATATAGAGCTCAAGATGAAGGAAATAGGGGT
GCTTTTGAATGGAATTTCTTATATAAAAGAATTGACATCAGACCAGGTGATCAAGAGACG
CCTGCTGACAATTTTCCTTCTCCCGTAATGGCTGGAGGTCTTTTTGCAATATCAGCAAAA
TTCTTTTGGGAACTGGGCGGTTATGACTCAGGACTAGATATCTGGGGAGGTGAACAATAC
GAATTGAGTTTTAAAATTTGGCTCTGTGGTGGCACCATGGTCGATTCACCGTGCTCAAGA
ATTGGGCATATTTACAAATCAAATCCATTTCCTGATCCAAGAGGATATGACTATGTGTCA
AAGAATTTTAAAAGAGTTGCTGAAGTATGGATGGACGAATATAAAGAATACATTTATCAA
CGTAAACCAGAAAGATTTTCAAAAGTTGATGTCGGTGACATTTCAAAACAATTAGAGATC
AAAAAGAAAAATAAATGCAAACCATTCAGTTATTTCCTTGAAGTAGTTGCTCCAGATATG
CTTGAAAAATATCCGCCAACACAAATTGAATTTGCTAGTGGCACAATTGAAAGTGTAGCT
TTTGGTGACTATTGTATTGACTCAATGGGACAATTTTATCACGACCTTGGACTTTATAGA
TGTTCATACAATAAAAAACATCCATCAGGTCATCAACATTTCTTCCTTGGCCATAATCGA
GATATTGAATTTTATTCAGATGCAGCCTATTGTATTGATTCATACGGTTCAAGTATCAGA
CTTGCAGCTTGTCATCATCGGCAAGGTACTCAATATTTCCGTTATGATCTCGATACACAA
CATATTTATAGTCAAAAAGATGAACGCAAGTGCCTCGAAGCTGATTCTGCACGAAAAAAA
ATTGTCGTCAGTCGATGCAAAGATGATGAAATTAAGCAAAAATGGAAGTGGGGAAATGTG
AATGAAGACAATCTCAGACATTGGGAAGAGCGTGGTGCTAAAATAAAATAA
>g4336.t1 Gene=g4336 Length=636
MSSNSVKRLLLRHCKGRSSLIKLIINFTIVGCVCLFLLSQLYKHSSSSKNEDDLPIAEEL
IQEKAFKPRPIVLPLIEEEDFQYIEPKTSFFKQKHNVLMKRKDWHDYEHIQMEKNRKGPG
EQGKSFRLTDPNDIEINNELLKVNGYWARASDIISVNRSVNDIRHPLCQKKKYLLELPTA
SVIIPFFNDHLSVLMRTVHSCINRAPAHLLKEVILVNDHSTKTELYDELKKYLAENFDGK
AHVVDLPKRSGLITARLAGARVATGDVLIFLDSHTEANTNWLPPLLDPIAEDYRTCVCPF
IDVIDAQDYQYRAQDEGNRGAFEWNFLYKRIDIRPGDQETPADNFPSPVMAGGLFAISAK
FFWELGGYDSGLDIWGGEQYELSFKIWLCGGTMVDSPCSRIGHIYKSNPFPDPRGYDYVS
KNFKRVAEVWMDEYKEYIYQRKPERFSKVDVGDISKQLEIKKKNKCKPFSYFLEVVAPDM
LEKYPPTQIEFASGTIESVAFGDYCIDSMGQFYHDLGLYRCSYNKKHPSGHQHFFLGHNR
DIEFYSDAAYCIDSYGSSIRLAACHHRQGTQYFRYDLDTQHIYSQKDERKCLEADSARKK
IVVSRCKDDEIKQKWKWGNVNEDNLRHWEERGAKIK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g4336.t1 | CDD | cd02510 | pp-GalNAc-T | 181 | 477 | 1.92854E-160 |
| 11 | g4336.t1 | CDD | cd00161 | RICIN | 494 | 617 | 1.7265E-10 |
| 7 | g4336.t1 | Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 98 | 487 | 2.1E-154 |
| 6 | g4336.t1 | Gene3D | G3DSA:2.80.10.50 | - | 488 | 631 | 1.0E-21 |
| 3 | g4336.t1 | PANTHER | PTHR11675 | N-ACETYLGALACTOSAMINYLTRANSFERASE | 29 | 622 | 1.8E-152 |
| 2 | g4336.t1 | Pfam | PF00535 | Glycosyl transferase family 2 | 181 | 364 | 6.8E-30 |
| 1 | g4336.t1 | Pfam | PF00652 | Ricin-type beta-trefoil lectin domain | 493 | 615 | 1.0E-18 |
| 8 | g4336.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 19 | - |
| 10 | g4336.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 20 | 42 | - |
| 9 | g4336.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 43 | 636 | - |
| 15 | g4336.t1 | ProSiteProfiles | PS50231 | Lectin domain of ricin B chain profile. | 492 | 618 | 15.976 |
| 14 | g4336.t1 | SMART | SM00458 | ricin_3 | 492 | 618 | 9.1E-11 |
| 5 | g4336.t1 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 157 | 479 | 5.63E-54 |
| 4 | g4336.t1 | SUPERFAMILY | SSF50370 | Ricin B-like lectins | 491 | 619 | 1.25E-16 |
| 13 | g4336.t1 | 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.
