General information for g15435.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 g15435 is located on chr_4: 5442157..5444494 (+ 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 | g15435 | g15435.t1 | isoform | g15435.t1 | 5442157 | 5444494 |
| chr_4 | g15435 | g15435.t1 | exon | g15435.t1.exon1 | 5442157 | 5442836 |
| chr_4 | g15435 | g15435.t1 | cds | g15435.t1.CDS1 | 5442157 | 5442836 |
| chr_4 | g15435 | g15435.t1 | exon | g15435.t1.exon2 | 5443185 | 5443333 |
| chr_4 | g15435 | g15435.t1 | cds | g15435.t1.CDS2 | 5443185 | 5443333 |
| chr_4 | g15435 | g15435.t1 | exon | g15435.t1.exon3 | 5443461 | 5444494 |
| chr_4 | g15435 | g15435.t1 | cds | g15435.t1.CDS3 | 5443461 | 5444494 |
| chr_4 | g15435 | g15435.t1 | TSS | g15435.t1 | NA | NA |
| chr_4 | g15435 | g15435.t1 | TTS | g15435.t1 | NA | NA |
Sequences
>g15435.t1 Gene=g15435 Length=1863
ATGTTCATAACAAGAAAGTTTTCAAATAAATTCTTCATATTTCTTATTCCAATCACTGGC
TCAATCGCTTTAATAATTCTAAGTCTTCTATTAGACTTCACAAATGACCTCAAACATTTT
GACAAACATTATGAATTAACATCTCAAGAGTTGAGTAATAAAAAATGTCGCGATTGGCAC
AATTATGAACAAATAAAAAGAGAGCGAGAGCGGCATGGATTAGGAGAGAACGGCACAGCT
GTTTTTCTCATTGATCCAAAAGAGATTGAAGAGAATGAGAGACTTTACAATACAACCGGT
TTCTCTGTTATTGTTTCTAATAAAATTAGTGTGAATCGTTCAATTCCTGACTTACGATCG
GTTGATTGCGGTGAACTTCTATACCCAACTCATTTACCAAAAGTTTCTGTCATAATTATT
TTTCACAATGAAATTATGAGTGTTTTACTGCGAACAATTCATTCAGTAATTAATCGAACA
CCTGCGGAATTACTACATGAAATTATTTTAGTCAATGATTGCAGCACAAATAAAGAACTT
TATGAACCATTGCAAAAATATGTTAAAAAGAATTTTGGTAAAATAGTGAAAATTAAAAAT
TTAAAAGAAAGAAAAGGTTTAATTGTGACAAGATTAGAAGGTGCAAATGAAGCAACTGGA
GAAATTTTAGTGTTTTTTGATTCTCACATAGAAGTTAATATAAATTGGCTTCCACCATTG
ATTGCTCCAATTAAGAAAAATAAAAGACTTGCAACAATGCCAGTAATTGACAATTTTGAA
GCAAATACTTTTGAAGTTGGTTCAGCTTTTCCTTATGGAAATCGTGGAGGAATTGATTGG
AATTTAATTTATCATCGCTTTCATCGCTATCTTCCACCAAATATCAATCCACTTCTTCCC
TTTCCTAATCCCATCATGCTCGGTTGTGCATTTGCAATTGATCGAAAATTTTTCCTTGAT
GAACTTGGTGGATATGATCGTGAATTTAAAATATGGAATGGTGAAAATTATGAACTAAGT
TTCAAACTATGGCTTTGTGCTGATGGACTTTATGAAGTTCCTTGTAGTCGTGTAGCACAT
TCATTTAGAATGGTTAATCCATCGAGAAAATTTGATGATGATTATGTTGGTAGAAATTTT
AAAAGATTAATTGAAGTTTGGTTTGATGAATTTAAAGACGTTGTTTACAAACATGATGAA
GAAAGATATAAAAAAATTGATGCTGGAGATTTAAGTGTTCCACTAGCAATTAAAAATCGA
CTCAACTGTAAACCGTTCAAATATTTTCTTGAAGAAATTGCGCCAGATATTGCTGAACGT
TATCCATTTGATAAAAAATCACCAGTTTTTGCTTCTGGTCAAATAAAATCTTTTGTTCGT
CAAGATATTTGCATAGATACTTTGTTAAGGTCAGAATTTGAAAGAATTGGCTTATACCAA
TGTGCAGATGTTAAAAATGAAGACGAAATTCCACAAACACAATTTTTTAGACTTAATTTT
ATGAAAAATATTGTTTTAGGCTATTTTGAATATTGTTTAGATTCTTTTATGCTTTCAATA
CCACAATGTCATTATTCTGAATTTGGAAATCAATATTGGTTTTATGATCATAAAAATCAT
ATGCTTATCAATTCATTTGATGATGGTGGAATGTGTTTAACTGCAAAATTTGAAGAACAA
TCAATTGAAATGAAAGAATGTGATGAAAAAGATTTAAATCAAAAATGGATTTTTACTTAT
GAAAATTTAACAGCTTTAAATGATTGGAAAAATATTTATGGATATAAGAAATTTGTATAT
GGTGATAAAATTATAAATTATGATAAATTGTTGCCATTAAAAGATGATGAATATAATTTT
TAA
>g15435.t1 Gene=g15435 Length=620
MFITRKFSNKFFIFLIPITGSIALIILSLLLDFTNDLKHFDKHYELTSQELSNKKCRDWH
NYEQIKRERERHGLGENGTAVFLIDPKEIEENERLYNTTGFSVIVSNKISVNRSIPDLRS
VDCGELLYPTHLPKVSVIIIFHNEIMSVLLRTIHSVINRTPAELLHEIILVNDCSTNKEL
YEPLQKYVKKNFGKIVKIKNLKERKGLIVTRLEGANEATGEILVFFDSHIEVNINWLPPL
IAPIKKNKRLATMPVIDNFEANTFEVGSAFPYGNRGGIDWNLIYHRFHRYLPPNINPLLP
FPNPIMLGCAFAIDRKFFLDELGGYDREFKIWNGENYELSFKLWLCADGLYEVPCSRVAH
SFRMVNPSRKFDDDYVGRNFKRLIEVWFDEFKDVVYKHDEERYKKIDAGDLSVPLAIKNR
LNCKPFKYFLEEIAPDIAERYPFDKKSPVFASGQIKSFVRQDICIDTLLRSEFERIGLYQ
CADVKNEDEIPQTQFFRLNFMKNIVLGYFEYCLDSFMLSIPQCHYSEFGNQYWFYDHKNH
MLINSFDDGGMCLTAKFEEQSIEMKECDEKDLNQKWIFTYENLTALNDWKNIYGYKKFVY
GDKIINYDKLLPLKDDEYNF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g15435.t1 | CDD | cd02510 | pp-GalNAc-T | 136 | 434 | 1.69975E-131 |
| 11 | g15435.t1 | CDD | cd00161 | RICIN | 453 | 578 | 5.512E-13 |
| 7 | g15435.t1 | Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 53 | 443 | 7.3E-138 |
| 6 | g15435.t1 | Gene3D | G3DSA:2.80.10.50 | - | 448 | 586 | 8.2E-19 |
| 3 | g15435.t1 | PANTHER | PTHR11675 | N-ACETYLGALACTOSAMINYLTRANSFERASE | 72 | 581 | 7.9E-130 |
| 2 | g15435.t1 | Pfam | PF00535 | Glycosyl transferase family 2 | 136 | 269 | 1.1E-25 |
| 1 | g15435.t1 | Pfam | PF00652 | Ricin-type beta-trefoil lectin domain | 452 | 576 | 4.4E-13 |
| 8 | g15435.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 10 | g15435.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 31 | - |
| 9 | g15435.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 32 | 620 | - |
| 15 | g15435.t1 | ProSiteProfiles | PS50231 | Lectin domain of ricin B chain profile. | 451 | 579 | 14.319 |
| 14 | g15435.t1 | SMART | SM00458 | ricin_3 | 452 | 579 | 6.9E-9 |
| 5 | g15435.t1 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 112 | 436 | 6.75E-49 |
| 4 | g15435.t1 | SUPERFAMILY | SSF50370 | Ricin B-like lectins | 448 | 579 | 1.76E-17 |
| 13 | g15435.t1 | 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