Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative 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 g803 g803.t3 TSS g803.t3 6097493 6097493
chr_3 g803 g803.t3 isoform g803.t3 6097572 6098857
chr_3 g803 g803.t3 exon g803.t3.exon1 6097572 6098185
chr_3 g803 g803.t3 cds g803.t3.CDS1 6097572 6098185
chr_3 g803 g803.t3 exon g803.t3.exon2 6098246 6098857
chr_3 g803 g803.t3 cds g803.t3.CDS2 6098246 6098855
chr_3 g803 g803.t3 TTS g803.t3 6099403 6099403

Sequences

>g803.t3 Gene=g803 Length=1226
ATGCCAGTATTTATTGAAAGTGCTAAAATATTGATAGTGTTCTCAACAATTAGTAAATCC
CATGTGATGCCTTTAGAAGTAGTGGCAAAATTATTAGCCGAAAGAAATCATGAAGTAACT
TTTTTCACTCCATTTCCAAGTGGCAAGGCAATTAAGAACTTAAGAGAGGTTCAAATTCCA
TTCGACGAAAAAGATAAAGAGTTTTTGAATCAAATAGCAAAAAATCCAGAGGATTCAAGT
ATGTTTACAATGATGAAAGAAATGCCGAAGCTTATTACTAAAACTGGAAATACAACTTTA
CAATTGCCTGAAATGAGAAGAATAATGAAGGAAGAAAAGTTTGACCTTTTAATTAATGGT
TACTTCATGACAGAATTTATTCTTGGCCTTGGCGATCATTTTAAAGTGCCAACTATTGTA
TTTTCACCTGCTGGAGCGTTAGGAAATATTCATAGAATGTTAGGTAATCCGCTTTCACCT
TCTGGTGCACCACATGTTTTAGCGCAATCTGTGGAATTTAATTTCGTTGGAAGAATCAAA
AACTTCTTTATGAACATTATCGATGTATTGGTAATGAGACAAATTGCCAATTACATTGGC
AAAGAAGTTTACAACTATAATTTTCCTCCTGATCAGTATCGTTCATATGAAGAGTCATTA
AGAAACGTTTCTCTCGTACTTCTCAACACGCATTTTAGTTCTGCAAGACCTCGTCCTTAT
TTACCAAATATGATTGAAGTTGGTGGCCTTCAAGTGAAACCAAATCCAAGTCCTTTGCCT
AATGATCTCAAAACATTCCTTGATGAAGCTGAAGATGGTGCAATTTTATTTAGTTTAGGT
TCAAATGCAAAAAGCACTTTTCTGCCAGAGAATACGATCAAAACTTTACTCAAAGCTTTT
TCACAGATAAAACAGAGAGTTGTAATGAAATGGGAATCAGATACACTTAAAGGAAAACCT
GAAAATGTTTTCATTAGCAAATGGTTACCACAAGATGATGTTTTAGCACATAAAAATATA
AAATTGTTCATTTCACATTGTGGCTTTGGTGGACTTATTGAAGCTAAATATCATGGCGTT
CCTATTCTTGGTATTCCATTATTTGCTGACCAACCAGCTAATGCTGACATGATTGAAAAA
GAAGGATGGGGTAAACAAATTTCAATAAATACAATCACAGCTGATGAGCTTAGGGATACA
ATAAATGAAATGATCACAAATCCAAA

>g803.t3 Gene=g803 Length=408
MPVFIESAKILIVFSTISKSHVMPLEVVAKLLAERNHEVTFFTPFPSGKAIKNLREVQIP
FDEKDKEFLNQIAKNPEDSSMFTMMKEMPKLITKTGNTTLQLPEMRRIMKEEKFDLLING
YFMTEFILGLGDHFKVPTIVFSPAGALGNIHRMLGNPLSPSGAPHVLAQSVEFNFVGRIK
NFFMNIIDVLVMRQIANYIGKEVYNYNFPPDQYRSYEESLRNVSLVLLNTHFSSARPRPY
LPNMIEVGGLQVKPNPSPLPNDLKTFLDEAEDGAILFSLGSNAKSTFLPENTIKTLLKAF
SQIKQRVVMKWESDTLKGKPENVFISKWLPQDDVLAHKNIKLFISHCGFGGLIEAKYHGV
PILGIPLFADQPANADMIEKEGWGKQISINTITADELRDTINEMITNP

Protein features from InterProScan

Transcript Database ID Name Start End E.value
7 g803.t3 CDD cd03784 GT1_Gtf-like 8 408 0
5 g803.t3 Gene3D G3DSA:3.40.50.2000 Glycogen Phosphorylase B; 8 247 0
6 g803.t3 Gene3D G3DSA:3.40.50.2000 Glycogen Phosphorylase B; 254 408 0
2 g803.t3 PANTHER PTHR48043:SF10 EG:EG0003.4 PROTEIN-RELATED 16 407 0
3 g803.t3 PANTHER PTHR48043 EG:EG0003.4 PROTEIN-RELATED 16 407 0
1 g803.t3 Pfam PF00201 UDP-glucoronosyl and UDP-glucosyl transferase 16 408 0
4 g803.t3 SUPERFAMILY SSF53756 UDP-Glycosyltransferase/glycogen phosphorylase 8 408 0

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

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.

Raw TPM values