General information for g4212.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 g4212 is located on chr_2: 243964..245028 (- 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_2 | g4212 | g4212.t1 | isoform | g4212.t1 | 243964 | 245028 |
| chr_2 | g4212 | g4212.t1 | exon | g4212.t1.exon1 | 243964 | 245028 |
| chr_2 | g4212 | g4212.t1 | cds | g4212.t1.CDS1 | 243964 | 245028 |
| chr_2 | g4212 | g4212.t1 | TSS | g4212.t1 | 245068 | 245068 |
| chr_2 | g4212 | g4212.t1 | TTS | g4212.t1 | NA | NA |
Sequences
>g4212.t1 Gene=g4212 Length=1065
ATGAAAATTCGTAGTAGAAAACAAGCACTCAAGAGATTTCTCTTTTCTCTTTCTTTATTC
ACAATTGTGATTTTTGGACTTTTAAAACTTGTCGACAAAGCAAAGGTGAAAAAGTTAAGA
GTTATTCAAACTAATGGAACTTCACTATTTTTAGAAAATCTCTTTGGAACAGAGGATGAC
ATTGAAATTGACAATAGCATTTTTTTTCTTGACACAACTCGAATGAAAAACCCACATAAA
CAGAGAGAACTGACTTTGCGACAAATTTGTTCAATCGAATCTGCTGCAATGTCAAATCCA
CACATGCGAATTTTTGTAATCATTGTTTCACCATTTGTAATAACAAAAGCAATTAAATTT
ACTCCACAAATGAATGCAATTCTAAATTATCCAAATGTATATTTGAAAGCAATGCATTTA
GTTCAATATACAATTGACTCTCCATTAGAAAATTTCATAGCCAATGGCAGTATATTTAAA
TCTCGCTTCATTAGAGCACATACAGCCGATGCACTACGATTGTTGCTTTTGTGGAAATTT
GGGGGAACTTATTTAGATACAGATATGATTGTGAGAAAAAATTTAAGTTCAGTGTCAAAT
TTTATTTGTAGAGAACATGGATTTCTGAATCAAGCAATTATTAATATTAATATAAAAGGT
AAACGAGGCAGAAATTTCGCAGAAATGTTCATGCAAGACATGATTGAAAATTTTGATGGG
AATGAATGGTCCACTAATGGGCCTTTTATGCTTCAAAGAGTGTTGTCAAAACTGTGTAAA
ACTAGTGATGTAAATGAAATGCATAATTGTAATGGATTTCACGTGCTTGAAGATAGTTTA
TGCTATCCGGTTAAAGGAACAAAATGGGAGCTTTTGTTTGATGAAAAAATTGGAAATGAG
ATTGTAGAGCTGACTAAAAATTCATTAGTTGTTCATTTTTGGAATAAATTATCACATATG
CAGAAATTAAAATGTGAATCAAATGCTGCATATACTCAATTAGCAAGAAAATTTTGTCCA
AAAACAATGAGCTATTGTGAGGATTTTTTTTGGGGATGGAAATAG
>g4212.t1 Gene=g4212 Length=354
MKIRSRKQALKRFLFSLSLFTIVIFGLLKLVDKAKVKKLRVIQTNGTSLFLENLFGTEDD
IEIDNSIFFLDTTRMKNPHKQRELTLRQICSIESAAMSNPHMRIFVIIVSPFVITKAIKF
TPQMNAILNYPNVYLKAMHLVQYTIDSPLENFIANGSIFKSRFIRAHTADALRLLLLWKF
GGTYLDTDMIVRKNLSSVSNFICREHGFLNQAIININIKGKRGRNFAEMFMQDMIENFDG
NEWSTNGPFMLQRVLSKLCKTSDVNEMHNCNGFHVLEDSLCYPVKGTKWELLFDEKIGNE
IVELTKNSLVVHFWNKLSHMQKLKCESNAAYTQLARKFCPKTMSYCEDFFWGWK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g4212.t1 | Gene3D | G3DSA:3.90.550.20 | - | 80 | 283 | 9.0E-9 |
| 3 | g4212.t1 | PANTHER | PTHR12042 | LACTOSYLCERAMIDE 4-ALPHA-GALACTOSYLTRANSFERASE ALPHA- 1,4-GALACTOSYLTRANSFERASE | 59 | 348 | 6.1E-63 |
| 1 | g4212.t1 | Pfam | PF04488 | Glycosyltransferase sugar-binding region containing DXD motif | 87 | 196 | 5.0E-13 |
| 2 | g4212.t1 | Pfam | PF04572 | Alpha 1,4-glycosyltransferase conserved region | 221 | 344 | 4.4E-37 |
| 8 | g4212.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 33 | - |
| 9 | g4212.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 12 | - |
| 10 | g4212.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 13 | 28 | - |
| 11 | g4212.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 29 | 33 | - |
| 7 | g4212.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 34 | 354 | - |
| 5 | g4212.t1 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 79 | 344 | 9.56E-33 |
| 4 | g4212.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 13 | 31 | - |
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 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