General information for g1508.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Lactosylceramide 4-alpha-galactosyltransferase.
Parent gene
- The parent gene g1508 is located on chr_3: 11459716..11461063 (- 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 | g1508 | g1508.t1 | TTS | g1508.t1 | 11459231 | 11459231 |
| chr_3 | g1508 | g1508.t1 | isoform | g1508.t1 | 11459716 | 11461063 |
| chr_3 | g1508 | g1508.t1 | exon | g1508.t1.exon1 | 11459716 | 11460494 |
| chr_3 | g1508 | g1508.t1 | cds | g1508.t1.CDS1 | 11459716 | 11460494 |
| chr_3 | g1508 | g1508.t1 | exon | g1508.t1.exon2 | 11460787 | 11461063 |
| chr_3 | g1508 | g1508.t1 | cds | g1508.t1.CDS2 | 11460787 | 11461063 |
| chr_3 | g1508 | g1508.t1 | TSS | g1508.t1 | NA | NA |
Sequences
>g1508.t1 Gene=g1508 Length=1056
ATGCAAAATTTATTTCAACCAAATTATAATTCATTTAAAATTATTTTATTAATTGGTTTC
TGCACATTTTTACTTTGGCTTTTTATCTTGCAAAATGTTCAATCTCAAAATTTTGAAATT
AAAAAAATTCAATTAAAAAATCTGAAAGACCCAAAAATTGAACCAAAAAATGATAAAAAT
TTATTTTACATTGATACTTATCGAATGTTGTCGAACTATAGTATGAAGAAATCTCTAAAA
ATTGGAAAAAGACAAGCTTGTGCTATTGAAAGTGGAGCACGTTTAAATCCAAATCTAAAT
GTATTTGTCATGTACATGGCAAACCAATCACATCAGCAGCAATATCTCACCGTCACACCA
ATACTTGAAGCAGTCATGACATATAGTAATGTCAAATTTGTCACAGTTGAGCACGCTTCT
TTCATAAAAGACACTCCGCTCGAAGAGTTCTTCATCAATCAACTGCCACAGTCGCAATAT
CCAATCGAGCATGCATCTGATGCATATCGACTGCTTGTGCTTTGGCTTTATGGTGGCATT
TACCTCGATACTGACGTCATTTCACTAAAGTCATCAGAAAACTCACCCGAGAATTTCGCA
TGTGATGATGGTGAAGGTGATTTGGTGTCGAATGCAATTATGAAGATGAAAAGAAATGAA
AAAATTACAAAAATGTTTATGACATATATAACAGAAAATTGGAATCCAACTGAGTGGGGT
GCAAATGGTCCCATTGCTATAACATCGGTAATAAGTCGCGTCTGTAACACAAATTCAACA
AGCGAAATGATTAAAATGGGAAATTGTGATGGTTTTTATATTTTACCACAAGAAGTCTGT
TATCCTATACCATGGCCACAATGGCGATCACTATTCAATTTCAATAAGCATCTTGCCGAT
AAAGTGATGAAAATGATTAATAGCTCAATGACAATTCATTTGTGGAATAATTTGTCAAAG
CGTCATAAAATTGATGTCAATAGAGATACGGCATTTAATCGCATTGCACAGATTTATTGT
CCCCGAGTGTTTCAATCGATGAAAATGAGGAAATGA
>g1508.t1 Gene=g1508 Length=351
MQNLFQPNYNSFKIILLIGFCTFLLWLFILQNVQSQNFEIKKIQLKNLKDPKIEPKNDKN
LFYIDTYRMLSNYSMKKSLKIGKRQACAIESGARLNPNLNVFVMYMANQSHQQQYLTVTP
ILEAVMTYSNVKFVTVEHASFIKDTPLEEFFINQLPQSQYPIEHASDAYRLLVLWLYGGI
YLDTDVISLKSSENSPENFACDDGEGDLVSNAIMKMKRNEKITKMFMTYITENWNPTEWG
ANGPIAITSVISRVCNTNSTSEMIKMGNCDGFYILPQEVCYPIPWPQWRSLFNFNKHLAD
KVMKMINSSMTIHLWNNLSKRHKIDVNRDTAFNRIAQIYCPRVFQSMKMRK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g1508.t1 | Gene3D | G3DSA:3.90.550.20 | - | 78 | 264 | 6.3E-11 |
| 3 | g1508.t1 | PANTHER | PTHR12042 | LACTOSYLCERAMIDE 4-ALPHA-GALACTOSYLTRANSFERASE ALPHA- 1,4-GALACTOSYLTRANSFERASE | 49 | 349 | 1.8E-66 |
| 1 | g1508.t1 | Pfam | PF04488 | Glycosyltransferase sugar-binding region containing DXD motif | 83 | 192 | 2.1E-15 |
| 2 | g1508.t1 | Pfam | PF04572 | Alpha 1,4-glycosyltransferase conserved region | 216 | 346 | 3.1E-34 |
| 8 | g1508.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 35 | - |
| 9 | g1508.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 14 | - |
| 10 | g1508.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 15 | 30 | - |
| 11 | g1508.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 31 | 35 | - |
| 7 | g1508.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 36 | 351 | - |
| 5 | g1508.t1 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 26 | 349 | 2.81E-33 |
| 4 | g1508.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 12 | 30 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K01988 (lactosylceramide 4-alpha-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. There were no conditions that were differentially expressed