General information for g16725.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as N-acetylgalactosaminyltransferase 4.
Parent gene
- The parent gene g16725 is located on chr_4: 10701403..10704864 (- 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_4 | g16725 | g16725.t1 | TTS | g16725.t1 | 10701373 | 10701373 |
| chr_4 | g16725 | g16725.t1 | isoform | g16725.t1 | 10701403 | 10704864 |
| chr_4 | g16725 | g16725.t1 | exon | g16725.t1.exon1 | 10701403 | 10702247 |
| chr_4 | g16725 | g16725.t1 | cds | g16725.t1.CDS1 | 10701403 | 10702247 |
| chr_4 | g16725 | g16725.t1 | exon | g16725.t1.exon2 | 10702722 | 10702817 |
| chr_4 | g16725 | g16725.t1 | cds | g16725.t1.CDS2 | 10702722 | 10702817 |
| chr_4 | g16725 | g16725.t1 | exon | g16725.t1.exon3 | 10703445 | 10703902 |
| chr_4 | g16725 | g16725.t1 | cds | g16725.t1.CDS3 | 10703445 | 10703902 |
| chr_4 | g16725 | g16725.t1 | exon | g16725.t1.exon4 | 10704460 | 10704601 |
| chr_4 | g16725 | g16725.t1 | cds | g16725.t1.CDS4 | 10704460 | 10704601 |
| chr_4 | g16725 | g16725.t1 | exon | g16725.t1.exon5 | 10704660 | 10704864 |
| chr_4 | g16725 | g16725.t1 | cds | g16725.t1.CDS5 | 10704660 | 10704864 |
| chr_4 | g16725 | g16725.t1 | TSS | g16725.t1 | NA | NA |
Sequences
>g16725.t1 Gene=g16725 Length=1746
ATGTTTCCGAAAATAAAAATTTGGAGACGTTTGTGTCTAGCTGTGATATTTGTGGCCTAT
TTACAATTTTTTATTTATTTATTTTTAAAATCAAAAGTTGATCAAGTTTTTACAGAAAAT
TTAATTGCACCAAAAATTAATTCAGAAAAAATAAGTTGGGAAAATTTTTCATTTATTGAA
TATGAAAGAAATCGAACAGGTCCAGGAGAAAACTGTGAACCATATTTTTTAAAAGATCCA
ACAGAAATTGCGAAAAATGAAGAATATTTTAAAATTGAAGGATTTTATGTTGTTGTTAGT
GACAAAATTTCAGTCAATCGTTCACTTGTGGATAATCGTCATCCTTCGTGCAGTAAAAGA
AAATACTCAAAAAATCTTCCAAAAGTGTCAATTATAATAACATTTCATAATGAAATATGG
TCAGTACTGCTTCGTTGTCTTCATTCAATTTACAATCGTTCACCACAAGAGCTTCTTTAT
GAAATAATTCTCATCAATGATGCAAGTACTTTTACTAAACTTTATGAACCTTTACAAAAT
TATTTGAATGAACATTTTGAGTCTAAAGTGAAAATTCATGTAAATAAAAAACGAGAAGGA
TTGATAAAAGCAAGAATGATTGGAGCAAGATTGGCAAAAGCTGAAGTTATAATTTTTCTT
GATTCACATATGGAAGTTACAAATTCATGGCTACCACCATTATTGGAACCAATCATTTAT
TATCCAACTTATGCAACAGTTCCAATTGTTGATTCTATTGATCATGCAACATTTGCTTGT
TCTTATACTGGCAATGGTTATAGAGGTACATTCGATTGGTCTATGCGATATACATGGTTA
CCATTAAGAAAACAAGATAAAGGTAACTTGGGGGAAAATTTTGAACTTTCAAGCATGACA
GGTGGTGCATATGCAATAAGACGTGAACATTTTTTCAAACTTGGAGGTTATGATGAAGAG
TTAAAAATTTGGAATGGAGAAAATTATGAGCTTTCACTGAAACTTTGGCTTTGTTCTGGT
GGAATTTTTCAAGTTCCATGTTCAAGAATTCTTCATTTGGGAAAAATGCATTCAGCATAT
CGATCAACAGGTGACGGAAGTGATTTTGTAGGAAGAAATTTAAAGCGAGTTGCTGAAGTT
TGGTTTGATGATTATAAAAAATTTCTTTATCGAACAGATCAAAAAAGATATGACAGTATT
GATGCTGGTGATTTGTCAGAAAGATTTGAGCTAAAAAAGAAATTAAATTGTAAACCATTC
AAATATTTCCTTGATGTTGTCGCACCTGAAATGCTTCAAAGATTTCCACTTGAGCCTCAA
TATTTTGCTTCAGGATCAATTCAAAATCAGAAGCTTAAGCAGTGCGTGACTTTTCAAAAA
TTGAGTTTTATTTTGCCACTTATTCTTGCTAACTGCAGTGATGACATAAAAAAACCTTTA
ATAGGTTCAGATTTTATATTGACGTTTGAAAAAAGCATCAGATTTAATGACACAAATGAT
CAATGTCTTAATGGTGATAAAATGATTTTTAGCAATTGTGAACATCAAAAAGGATATCAA
TTTTTTATTTTTAATGTCACAACAAGACAAATTTTGTATCCTAAAATGAAAAAATGTCTT
ACTGGTGTGAGTTTAAATAAAGAAATTGTTTTAGATGATTGTAATGAAAATTCATTGCTT
CAAAAATGGAATTGGGGACATGAAAATTTAACTGCTTTAATGAATTGGGAAAATGTTGGA
TTTTAG
>g16725.t1 Gene=g16725 Length=581
MFPKIKIWRRLCLAVIFVAYLQFFIYLFLKSKVDQVFTENLIAPKINSEKISWENFSFIE
YERNRTGPGENCEPYFLKDPTEIAKNEEYFKIEGFYVVVSDKISVNRSLVDNRHPSCSKR
KYSKNLPKVSIIITFHNEIWSVLLRCLHSIYNRSPQELLYEIILINDASTFTKLYEPLQN
YLNEHFESKVKIHVNKKREGLIKARMIGARLAKAEVIIFLDSHMEVTNSWLPPLLEPIIY
YPTYATVPIVDSIDHATFACSYTGNGYRGTFDWSMRYTWLPLRKQDKGNLGENFELSSMT
GGAYAIRREHFFKLGGYDEELKIWNGENYELSLKLWLCSGGIFQVPCSRILHLGKMHSAY
RSTGDGSDFVGRNLKRVAEVWFDDYKKFLYRTDQKRYDSIDAGDLSERFELKKKLNCKPF
KYFLDVVAPEMLQRFPLEPQYFASGSIQNQKLKQCVTFQKLSFILPLILANCSDDIKKPL
IGSDFILTFEKSIRFNDTNDQCLNGDKMIFSNCEHQKGYQFFIFNVTTRQILYPKMKKCL
TGVSLNKEIVLDDCNENSLLQKWNWGHENLTALMNWENVGF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g16725.t1 | CDD | cd00161 | RICIN | 493 | 565 | 0.00172653 |
| 8 | g16725.t1 | Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 47 | 438 | 1.5E-141 |
| 7 | g16725.t1 | Gene3D | G3DSA:2.80.10.50 | - | 439 | 579 | 1.3E-14 |
| 3 | g16725.t1 | PANTHER | PTHR11675 | N-ACETYLGALACTOSAMINYLTRANSFERASE | 81 | 569 | 3.0E-127 |
| 2 | g16725.t1 | Pfam | PF00535 | Glycosyl transferase family 2 | 130 | 311 | 3.7E-26 |
| 1 | g16725.t1 | Pfam | PF00652 | Ricin-type beta-trefoil lectin domain | 444 | 563 | 3.1E-11 |
| 9 | g16725.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 6 | - |
| 11 | g16725.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 29 | - |
| 10 | g16725.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 30 | 581 | - |
| 6 | g16725.t1 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 106 | 430 | 2.06E-53 |
| 5 | g16725.t1 | SUPERFAMILY | SSF50370 | Ricin B-like lectins | 436 | 566 | 9.57E-13 |
| 4 | g16725.t1 | 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. There were no conditions that were differentially expressed