General information for g13413.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 2-hydroxyacylsphingosine 1-beta-galactosyltransferase.
Parent gene
- The parent gene g13413 is located on chr_1: 29912956..29914710 (+ 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 | g13413 | g13413.t2 | TSS | g13413.t2 | 29911199 | 29911199 |
| chr_1 | g13413 | g13413.t2 | isoform | g13413.t2 | 29911245 | 29912607 |
| chr_1 | g13413 | g13413.t2 | exon | g13413.t2.exon1 | 29911245 | 29911882 |
| chr_1 | g13413 | g13413.t2 | cds | g13413.t2.CDS1 | 29911245 | 29911882 |
| chr_1 | g13413 | g13413.t2 | exon | g13413.t2.exon2 | 29911948 | 29912116 |
| chr_1 | g13413 | g13413.t2 | cds | g13413.t2.CDS2 | 29911948 | 29912116 |
| chr_1 | g13413 | g13413.t2 | exon | g13413.t2.exon3 | 29912168 | 29912607 |
| chr_1 | g13413 | g13413.t2 | cds | g13413.t2.CDS3 | 29912168 | 29912605 |
| chr_1 | g13413 | g13413.t2 | TTS | g13413.t2 | 29912973 | 29912973 |
Sequences
>g13413.t2 Gene=g13413 Length=1247
ATGAAAATTTCAATTGTTTTATTGACTTTAATTATTGTCAATTTATCTACAGCATCGAGA
ATATTATTTCTCTTTCCAACACCATCAAAATCTCATATGATAATTGTTCATGCATTATCA
ACTGCACTAGCTGAAAAAGGTCACCATGTCACAGTTTTTTCACCATTTCCGCTCAACAAG
AAAATAAATAATCATCGAGAATTCGAATCACCTATCAGACCAGAGCTTAAAGAATTATTT
CGAAAATTTACAACAGGAGAAGTTTCAAAATTCAAAATGCTTTTTATGTTTCCAAAACTT
GGAGTTCAATTAGCAGAAGATATGATTTATACAGACGATTTTCAAAGAATTTTGAATGAA
AGGTTTGATATGATCATTATTGGTCTAACTGCGAACCATTTCTTGCTTGGTTTTGGAGAA
CATTTTAATTGTCCTACTGCAATGCTTAGTGTTCAACGACATTCATCGTATACAAATATC
CCTGTTGGTAATCCAATAGAAATTAATGCAGTCAACCATGCATTTTTCCCATCAGGATCA
TTGAAAAATTTTATTCATCGAGTTCAAAATTTCCTAGCAGGTGTTTTCGACATTTTAATG
TTCGCTGGTATTGATTATTACGAAAAACTTGCCTATGAAAAAATATTCCCAAGTTCACGT
CATCGTTCATATGAGGAATCAAAAAGTAATATTTCATTAGTGTTAGTTAATGATCACTTT
AGTGAAGGCAATGTGCGACCTAATTTACCAGCTGTTGTGGAAATCAGAGGAATTCAAGTT
AAAGAAATACCAGATGAATTGCCTCAAGATATTCAAAAATTTCTTGATGATGCAAATGAA
GGTGCAATTTTATTTAGCCTTGGAACAAACTTTCAAACTGCTTTCTTATCCGATAACTTT
GTTGAAATGCTTATGAAAGTTTTAAGTAAATTAAAGCAAAAAGTTATAATGAAATGGGAT
TCAGAAATCAATGAAAAACCTGAAAATGTAATGATAAAAAAATGGCTGCCACAAGATGAT
ATTTTAGCTCATAAAAATATGAAATTGTTCATTTCTCACTGTGGATTAGGGGGCATTGTA
GAATCAAAATATCATGGAGTAACAATACTCGGTTTACCAATTTTTGGTGATCAAGAAGTC
AATTGTAATGAAATTGTAAGTGAAGGCTGGTCTCTACAGTTGAATTTAAAAACAATAACT
GAGAATGAATTGCAAAATACTATAAATGAACTTCTTCATAATGAAAC
>g13413.t2 Gene=g13413 Length=415
MKISIVLLTLIIVNLSTASRILFLFPTPSKSHMIIVHALSTALAEKGHHVTVFSPFPLNK
KINNHREFESPIRPELKELFRKFTTGEVSKFKMLFMFPKLGVQLAEDMIYTDDFQRILNE
RFDMIIIGLTANHFLLGFGEHFNCPTAMLSVQRHSSYTNIPVGNPIEINAVNHAFFPSGS
LKNFIHRVQNFLAGVFDILMFAGIDYYEKLAYEKIFPSSRHRSYEESKSNISLVLVNDHF
SEGNVRPNLPAVVEIRGIQVKEIPDELPQDIQKFLDDANEGAILFSLGTNFQTAFLSDNF
VEMLMKVLSKLKQKVIMKWDSEINEKPENVMIKKWLPQDDILAHKNMKLFISHCGLGGIV
ESKYHGVTILGLPIFGDQEVNCNEIVSEGWSLQLNLKTITENELQNTINELLHNE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 13 | g13413.t2 | CDD | cd03784 | GT1_Gtf-like | 20 | 415 | 4.54805E-54 |
| 7 | g13413.t2 | Gene3D | G3DSA:3.40.50.2000 | Glycogen Phosphorylase B; | 19 | 193 | 2.0E-7 |
| 6 | g13413.t2 | Gene3D | G3DSA:3.40.50.2000 | Glycogen Phosphorylase B; | 262 | 415 | 6.1E-37 |
| 2 | g13413.t2 | PANTHER | PTHR48043:SF10 | EG:EG0003.4 PROTEIN-RELATED | 26 | 414 | 3.0E-77 |
| 3 | g13413.t2 | PANTHER | PTHR48043 | EG:EG0003.4 PROTEIN-RELATED | 26 | 414 | 3.0E-77 |
| 1 | g13413.t2 | Pfam | PF00201 | UDP-glucoronosyl and UDP-glucosyl transferase | 184 | 415 | 2.4E-33 |
| 9 | g13413.t2 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 18 | - |
| 10 | g13413.t2 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 2 | - |
| 11 | g13413.t2 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 3 | 13 | - |
| 12 | g13413.t2 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 18 | - |
| 8 | g13413.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 19 | 415 | - |
| 4 | g13413.t2 | SUPERFAMILY | SSF53756 | UDP-Glycosyltransferase/glycogen phosphorylase | 20 | 415 | 7.54E-75 |
| 5 | g13413.t2 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
| 14 | g13413.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 5 | 24 | - |
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. There were no conditions that were differentially expressed