Gene loci information

Transcript annotation

  • This transcript has been annotated as 2-hydroxyacylsphingosine 1-beta-galactosyltransferase.

Parent gene

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 g3643 g3643.t1 TTS g3643.t1 27152250 27152250
chr_3 g3643 g3643.t1 isoform g3643.t1 27152297 27155113
chr_3 g3643 g3643.t1 exon g3643.t1.exon1 27152297 27152759
chr_3 g3643 g3643.t1 cds g3643.t1.CDS1 27152297 27152759
chr_3 g3643 g3643.t1 exon g3643.t1.exon2 27152819 27153406
chr_3 g3643 g3643.t1 cds g3643.t1.CDS2 27152819 27153406
chr_3 g3643 g3643.t1 exon g3643.t1.exon3 27153888 27154158
chr_3 g3643 g3643.t1 cds g3643.t1.CDS3 27153888 27154158
chr_3 g3643 g3643.t1 exon g3643.t1.exon4 27154220 27154390
chr_3 g3643 g3643.t1 cds g3643.t1.CDS4 27154220 27154390
chr_3 g3643 g3643.t1 exon g3643.t1.exon5 27154837 27155113
chr_3 g3643 g3643.t1 cds g3643.t1.CDS5 27154837 27155113
chr_3 g3643 g3643.t1 TSS g3643.t1 NA NA

Sequences

>g3643.t1 Gene=g3643 Length=1770
ATGGCTAAAGCAGCAGCACGTGGTTATGGAATTAAATTAAATTACGATGAACTTAATGAA
GAAAGTATTTCTAAATCACTTAATGAATTGTTGAATAACCAAAAGTATAAAGAAACAGCT
GTGAAAGTTTCAAAAATGTTTAACGATCGAGAGCTATCACCACAAGAGACAGTGGTTTAT
TGGACGGAATATGCTGTAAGACATCAAGGTGCACCACATTTGAAAGCTCACGCTGTGAAC
TTAAGTTTCATCGAATTTTATTCGATCGATGTTTATTGTTTGATTCCATTTGGTAGCAAA
TCTCATTTTGCTATAGGAAACAGTATTTTAAGAACACTTCAAAATGCTGGTCATGATGTT
ACAGTTATGACTGCATTTCCTTCTAAGAAGCAAGAACAAAACTATCGTGAAATTAAATTA
ACTAAAATTATGGAAGTTTTCGACCGAGGTGACGAAGTTAATCCATTTATTTTTGGTCAG
TTACCAGCTATTATGACATTTTTTTTGATATCAAAAATGAACACTGATGTTGTTGACTTG
TTTATGCAAGAGCTAGAAGTTCAAAAGTTTCTTGAAGAAGATAAAAGCAAATATGATATT
TGTTTGTTTGAAATTTTTATGGTAGATGCATTATTAGGAATTCCAGAGAGATATGGTTGT
CATTTGATTTCATACACAACATTTGCAGCAGTTAGATGGACTGATGATATGACAGGATTA
GAATCCCCAGCATCTTATGTACCAAATCCTTTCTTAAAATATACTGATAAAATGTCATTT
GGAGAAAGACTTTGGAATTCAGCATTTTCTCTTGTTGAGCGATTTATTTATCATTTCTAT
CATTTACCAAATCATCGTAAACGTTACAAAAAATATTTCCCAGATGCTAAACGCAGTTTT
GAAGAAATGTATAAGGGATCATCTATAATATTTTCTAATACTCATGTCAGTTCTTCAACG
GTCCGTCCATTTATGCCTAATGTAATAGAAATAGCTGGTATCCATATGAAACCTGCTCAA
CTTTTACCAAAGGACATACAAGAATTCCTTGATTCAGCTACAGATGGTGCAATTCTATTC
TCCATGGGATCATTCATTCAAAGTAAAATGTGGCCGGTAGAGAAGCGTGATGCATTGATA
AAAGCTTTCGGAAAATTAAATCTTAAAGTAATATGGAAGTATGAGAATGAAACATTACCT
AATAATCCTGGTAATATCAAAATAAGTTCGTGGTTGCCACAAAGAGATATTTTGGCTCAC
AAAAATATAAAACTGTTTATCACACATGGTGGACTATTAGGAACAACTGAAGCATTAGTT
GAAGGTGTACCTGTTTTAGGATTACCAATTTTTGGAGATCAAAAAATGAACATGGCAAAG
ACAGTGCTTCGTGGCTATGGTTTACAAATCTCTTTTCAAGATATAGAAGAACAAAGAGTA
TCGGATGCTATTAATGAGCTTTTAACAAATCCAAAATACAAAGAGAATGCAATGACTGTT
TCAAAGAGATTTATTGACAGACCAATGACACCGCAAGAATCTGTTGTTTATTGGACGGAA
TATGTAGCAAGGCATGATGGTGCACATCATTTAAGAGCATATTCCACTCAATTAAATTTT
ATAGAATTTCATATGTTTGATGTTTATGGGGCTCTTATTTTAATTGCACTTGTTATAATG
TACATTCAATTTTTAGTATTGAGGGCAATTTTAAGGAAAATTTTTAAAAGAAAAAATTCT
AAAAGTGAAAATAAAATTAAAAAAAATTGA

>g3643.t1 Gene=g3643 Length=589
MAKAAARGYGIKLNYDELNEESISKSLNELLNNQKYKETAVKVSKMFNDRELSPQETVVY
WTEYAVRHQGAPHLKAHAVNLSFIEFYSIDVYCLIPFGSKSHFAIGNSILRTLQNAGHDV
TVMTAFPSKKQEQNYREIKLTKIMEVFDRGDEVNPFIFGQLPAIMTFFLISKMNTDVVDL
FMQELEVQKFLEEDKSKYDICLFEIFMVDALLGIPERYGCHLISYTTFAAVRWTDDMTGL
ESPASYVPNPFLKYTDKMSFGERLWNSAFSLVERFIYHFYHLPNHRKRYKKYFPDAKRSF
EEMYKGSSIIFSNTHVSSSTVRPFMPNVIEIAGIHMKPAQLLPKDIQEFLDSATDGAILF
SMGSFIQSKMWPVEKRDALIKAFGKLNLKVIWKYENETLPNNPGNIKISSWLPQRDILAH
KNIKLFITHGGLLGTTEALVEGVPVLGLPIFGDQKMNMAKTVLRGYGLQISFQDIEEQRV
SDAINELLTNPKYKENAMTVSKRFIDRPMTPQESVVYWTEYVARHDGAHHLRAYSTQLNF
IEFHMFDVYGALILIALVIMYIQFLVLRAILRKIFKRKNSKSENKIKKN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g3643.t1 CDD cd03784 GT1_Gtf-like 94 518 4.24174E-59
9 g3643.t1 Gene3D G3DSA:3.40.50.2000 Glycogen Phosphorylase B; 337 505 7.6E-43
3 g3643.t1 PANTHER PTHR48043:SF60 UDP-GLUCURONOSYLTRANSFERASE 1 95 5.0E-149
5 g3643.t1 PANTHER PTHR48043 EG:EG0003.4 PROTEIN-RELATED 1 95 5.0E-149
4 g3643.t1 PANTHER PTHR48043:SF60 UDP-GLUCURONOSYLTRANSFERASE 97 572 5.0E-149
6 g3643.t1 PANTHER PTHR48043 EG:EG0003.4 PROTEIN-RELATED 97 572 5.0E-149
1 g3643.t1 Pfam PF00201 UDP-glucoronosyl and UDP-glucosyl transferase 3 92 1.1E-19
2 g3643.t1 Pfam PF00201 UDP-glucoronosyl and UDP-glucosyl transferase 100 578 6.5E-80
11 g3643.t1 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 1 547 -
12 g3643.t1 Phobius TRANSMEMBRANE Region of a membrane-bound protein predicted to be embedded in the membrane. 548 571 -
10 g3643.t1 Phobius CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. 572 589 -
15 g3643.t1 ProSitePatterns PS00375 UDP-glycosyltransferases signature. 411 454 -
8 g3643.t1 SUPERFAMILY SSF53756 UDP-Glycosyltransferase/glycogen phosphorylase 5 74 5.58E-13
7 g3643.t1 SUPERFAMILY SSF53756 UDP-Glycosyltransferase/glycogen phosphorylase 93 531 1.88E-99
14 g3643.t1 TMHMM TMhelix Region of a membrane-bound protein predicted to be embedded in the membrane. 549 571 -

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:0008194 UDP-glycosyltransferase activity MF

KEGG

Orthology

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. There were no conditions that were differentially expressed