General information for g10258.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Beta-1,3-galactosyltransferase brn.
Parent gene
- The parent gene g10258 is located on chr_1: 8557170..8558668 (- 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_1 | g10258 | g10258.t1 | TTS | g10258.t1 | 8556923 | 8556923 |
| chr_1 | g10258 | g10258.t1 | isoform | g10258.t1 | 8557170 | 8558323 |
| chr_1 | g10258 | g10258.t1 | exon | g10258.t1.exon1 | 8557170 | 8557874 |
| chr_1 | g10258 | g10258.t1 | cds | g10258.t1.CDS1 | 8557170 | 8557874 |
| chr_1 | g10258 | g10258.t1 | exon | g10258.t1.exon2 | 8557934 | 8558323 |
| chr_1 | g10258 | g10258.t1 | cds | g10258.t1.CDS2 | 8557934 | 8558323 |
| chr_1 | g10258 | g10258.t1 | TSS | g10258.t1 | 8558528 | 8558528 |
Sequences
>g10258.t1 Gene=g10258 Length=1095
ATGTACGAATCAAATTTTGATGATTTTAAATATGAATATGATGGCGATATATTAGCACAG
TGTTATTTAATTCGCAAAGGACAAAAGCCTGATGTACAACCAATCAATAATCAGAGCTTC
TCATATCGTCACAATAATGAAAACAAATGCAAAGATGAATTGCAAAAAAGTCTCATGCCG
CACCTTCTTATTATTATAAAATCAAAAAATGATCATTTTGAGCGACGAAATGCTATTCGA
AATAGTTGGGGCTTTGAGAAACGTTTCTCTGATGTTATTATTAGAACAGTATTTTCTTTA
GGAATTGATAAAGAAACTCATGATGGACGTTTATCAGAAGTGCAAAAACTCGTTGATATT
GAAGCTGAAAAATTTCAAGATATTATTCAATTTAACTTTATTGATGCATACTTTAACAAC
ACTTTAAAAACTATCAATGGGTTTCGTTGGGCAAAAGAAAATTGTATAAGAAGCAAATTT
TTCCTTTTTGTGGATGACGACTTTTACGTTTCGATCAAAAACATTCTCGCATTTTTACGA
AATCCAGTAAATTATCCCGAATACCTAGAAGAATATAAAGAACAATTACGAAAATTGAAT
CAAAGAAAACTTCAGGAAGCAAAAATCAACTCCAGTGATGGAGCAGCTACAATAGAAATG
GTAACAAGAAATCTTCTCAATTTAAATCTCAATATAGAACTAGCATCTGATGTTAAATTA
TTCGCTGGTTTCGTCTTTAATTCGTCTCCTCATCGACACAAGTCAAGCAAATGGTATGTA
TCCTTAGAAGAATACAAATATGATAGATGGCCAACTTATGTAACAGCGGGTGCTTTTATT
TTATCGCGTGAGGCACTACAAGAAATGTATTGTGTTAGTCTTTATACCAAACATTTTCGA
TTCGATGATATATTCTTGGGGATAGTGGCTCTAAAAGCTCATATAGAACCATTACATTCT
GAAGAATTTTATTATTACAAGGCCTCATATTCTGGTCCCGCATCATATCGATACGTTTTA
GCTACACATGGATACGACAATCCAGAAGAAATGCTAAAAGTTTGGAGTGAAGTCAGAGCA
AATGGATACGCATAA
>g10258.t1 Gene=g10258 Length=364
MYESNFDDFKYEYDGDILAQCYLIRKGQKPDVQPINNQSFSYRHNNENKCKDELQKSLMP
HLLIIIKSKNDHFERRNAIRNSWGFEKRFSDVIIRTVFSLGIDKETHDGRLSEVQKLVDI
EAEKFQDIIQFNFIDAYFNNTLKTINGFRWAKENCIRSKFFLFVDDDFYVSIKNILAFLR
NPVNYPEYLEEYKEQLRKLNQRKLQEAKINSSDGAATIEMVTRNLLNLNLNIELASDVKL
FAGFVFNSSPHRHKSSKWYVSLEEYKYDRWPTYVTAGAFILSREALQEMYCVSLYTKHFR
FDDIFLGIVALKAHIEPLHSEEFYYYKASYSGPASYRYVLATHGYDNPEEMLKVWSEVRA
NGYA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g10258.t1 | Coils | Coil | Coil | 189 | 209 | - |
| 3 | g10258.t1 | PANTHER | PTHR11214:SF247 | BETA-1,3-GALACTOSYLTRANSFERASE BRN | 35 | 333 | 4.6E-63 |
| 4 | g10258.t1 | PANTHER | PTHR11214 | BETA-1,3-N-ACETYLGLUCOSAMINYLTRANSFERASE | 35 | 333 | 4.6E-63 |
| 2 | g10258.t1 | Pfam | PF01762 | Galactosyltransferase | 74 | 184 | 4.9E-23 |
| 1 | g10258.t1 | Pfam | PF01762 | Galactosyltransferase | 227 | 319 | 1.7E-15 |
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:0016020 | membrane | CC |
| GO:0006486 | protein glycosylation | BP |
| GO:0016758 | hexosyltransferase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K02175 (beta-1,3-galactosyltransferase / beta-1,3-N-acetylglucosaminyltransferase [EC:2.4.1.62 2.4.1.-])
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.
