General information for g352.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Beta-1,4-galactosyltransferase 7.
Parent gene
- The parent gene g352 is located on chr_3: 2822934..2823957 (- 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 | g352 | g352.t1 | TTS | g352.t1 | 2822586 | 2822586 |
| chr_3 | g352 | g352.t1 | isoform | g352.t1 | 2822934 | 2823957 |
| chr_3 | g352 | g352.t1 | exon | g352.t1.exon1 | 2822934 | 2823799 |
| chr_3 | g352 | g352.t1 | cds | g352.t1.CDS1 | 2822934 | 2823799 |
| chr_3 | g352 | g352.t1 | exon | g352.t1.exon2 | 2823858 | 2823957 |
| chr_3 | g352 | g352.t1 | cds | g352.t1.CDS2 | 2823858 | 2823957 |
| chr_3 | g352 | g352.t1 | TSS | g352.t1 | 2824055 | 2824055 |
Sequences
>g352.t1 Gene=g352 Length=966
ATGTCTATTTTAAAGACAAATGCTATGAAGTTACTAAGCATTTGCATCATCTTTTCATTG
ATTTTGACTTGCATTATCAGTGTTTTGCCATTATCTTTAGACTCATGTAATTGTGAAAAC
TACATAGAAACTCATAATTCAATTTATAATGATATACAGAATAGGAAATATTATAATTCT
TTAGTTGGCAAATTTAACAATAAGAAGAAATTGGCCATAATTGTTCCATTTCGTGATCGA
TTCGATGAATTGCTTGAGTTTGCACCGTATATGACTAAATTTTTAAATGACCAAGAAATT
CCTCATCATATCTTTGTGATCAATCAAGTTGATAGATTTCGATTCAATCGTGCTTCGTTG
ATAAATGTTGGATTTTTGTATACGAAAGATAATTTTGATTATTTTGCAATGCATGATGTT
GATCTTTTGCCACTAAATAATGATCTGAAATATGAGTATCCTGAAAATGATGGAGTGATG
CACATTGCAGCACCAGGACTTCATCCAAAATATAATTACCCATCATTTATTGGTGGTATT
TTGATAATTAAAAATGAACATTTTGCTAAAGTTAATGGAATGAGTAATAGATATTGGGGA
TGGGGCTTAGAAGACGATGAATTTTATGTAAGACTCAAAGATGCATCTATAAAAGTTTAT
CGACCACAAAACATCAAAACAGACATGAGCAATACATTTGTACATAATCATGATAGAATA
CATAGACGTCGTGATACTGCCAAATGTTACAATCAAAAAGAGGAAACTCGAAAACGTGAT
AAAAAGACTGGACTTGATACATTGAAATATAACATAAATTCACGCAAAGAACTCGCTATT
GATGGTATTAAATTGACAATTCTTAATGTCAAATTCGAGTGTGATAAGAGCTTGACACCA
TGGTGTGAATGTAGTGGTGATATGCCAACAAAAGATACAAAATCAAAAGCTAAAAAAGGA
CTTTGA
>g352.t1 Gene=g352 Length=321
MSILKTNAMKLLSICIIFSLILTCIISVLPLSLDSCNCENYIETHNSIYNDIQNRKYYNS
LVGKFNNKKKLAIIVPFRDRFDELLEFAPYMTKFLNDQEIPHHIFVINQVDRFRFNRASL
INVGFLYTKDNFDYFAMHDVDLLPLNNDLKYEYPENDGVMHIAAPGLHPKYNYPSFIGGI
LIIKNEHFAKVNGMSNRYWGWGLEDDEFYVRLKDASIKVYRPQNIKTDMSNTFVHNHDRI
HRRRDTAKCYNQKEETRKRDKKTGLDTLKYNINSRKELAIDGIKLTILNVKFECDKSLTP
WCECSGDMPTKDTKSKAKKGL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g352.t1 | Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 66 | 305 | 2.8E-87 |
| 3 | g352.t1 | PANTHER | PTHR19300:SF30 | BETA-1,4-GALACTOSYLTRANSFERASE 7 | 10 | 305 | 6.5E-112 |
| 4 | g352.t1 | PANTHER | PTHR19300 | BETA-1,4-GALACTOSYLTRANSFERASE | 10 | 305 | 6.5E-112 |
| 8 | g352.t1 | PRINTS | PR02050 | Beta-1,4-galactosyltransferase family signature | 105 | 124 | 5.5E-31 |
| 5 | g352.t1 | PRINTS | PR02050 | Beta-1,4-galactosyltransferase family signature | 134 | 153 | 5.5E-31 |
| 6 | g352.t1 | PRINTS | PR02050 | Beta-1,4-galactosyltransferase family signature | 171 | 192 | 5.5E-31 |
| 7 | g352.t1 | PRINTS | PR02050 | Beta-1,4-galactosyltransferase family signature | 193 | 211 | 5.5E-31 |
| 2 | g352.t1 | Pfam | PF13733 | N-terminal region of glycosyl transferase group 7 | 49 | 151 | 4.2E-22 |
| 1 | g352.t1 | Pfam | PF02709 | N-terminal domain of galactosyltransferase | 160 | 225 | 8.0E-24 |
| 12 | g352.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 11 | - |
| 14 | g352.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 33 | - |
| 13 | g352.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 34 | 321 | - |
| 10 | g352.t1 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 67 | 295 | 9.84E-39 |
| 9 | g352.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 11 | 33 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0016757 | glycosyltransferase activity | MF |
| GO:0005975 | carbohydrate metabolic process | BP |
KEGG
Orthology
- This transcript has been annotated with K00733 (xylosylprotein 4-beta-galactosyltransferase)
Pathway
- This transcript belongs to the following pathways
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.
