General information for g11859.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as GPI mannosyltransferase 3.
Parent gene
- The parent gene g11859 is located on chr_1: 18796715..18797861 (- 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 | g11859 | g11859.t2 | isoform | g11859.t2 | 18795464 | 18797216 |
| chr_1 | g11859 | g11859.t2 | exon | g11859.t2.exon1 | 18795464 | 18795625 |
| chr_1 | g11859 | g11859.t2 | cds | g11859.t2.CDS1 | 18795618 | 18795625 |
| chr_1 | g11859 | g11859.t2 | exon | g11859.t2.exon2 | 18796251 | 18797216 |
| chr_1 | g11859 | g11859.t2 | cds | g11859.t2.CDS2 | 18796251 | 18796824 |
| chr_1 | g11859 | g11859.t2 | TSS | g11859.t2 | 18797889 | 18797889 |
| chr_1 | g11859 | g11859.t2 | TTS | g11859.t2 | NA | NA |
Sequences
>g11859.t2 Gene=g11859 Length=1128
AAAATACTGGATTTTTGTGGATCACTGCTTTATTGTCATTTATTCGACCAACATCGATTG
TCACATGGTTACCTTTATGTATTTATCACGTAAAAAAATCAAAATATCCAGTTTGGGAAT
TGTTGATTAAACGCTATTTGTTTATTGGACTTGTAACTGGAGGAGCATTAATTGCACTAG
ATTCTTTCTTCCATGGATCATTCATAGTTACACCATATGAGTTCATTAAAATCAACGTTT
TTGAAGGAATAGCTAGTTTTTATGGTACTCATCCATTTTACTGGTATTTTAGCACAGGAC
TGCCTGCTATTCTTGGTATTGGAATAGTTCCATTCTATTTATCAATTTTTACAACAATCA
AACGATCATGGGATCAATCGACAATTGCAATTATGACTTCAATTATATTGACCATTTTCA
TGTACTCTCTACTGCCACACAAAGAATTTAGATTTTTGCTTCAAATACTGCCACTTTGTC
TTTACTGTATTACACAATTCCTGTCAGAATGGAGTAGAACAAAGTCATCACTCGTCATTT
GGTTTGTAGCTATAGTCATTTTTATAAGCAATGCAGTGCCAGCTGGATATCTCGGTTTCG
TTCATCAACAAGGAACAATAAAAGTTATGGATCAAGTTTCTTCAATTGCAAACAACTATA
AAACACAAGACGGACATCCAGCAAAAATATTTTTCATGATGCCATGTCATTCAACGCCTT
TTTATTCACACGTCCATAAAAACATTACAATGAGATTCCTCACTTGTGAGCCTAATCTTA
ACAATCAGTTGAATTATGTAGATGAAGCTGATAAATTTTATGAAGCTCCAATGAAATGGA
TTCGAAGTCATTTACCGGTACATCCAGTGAATGCATTGCCAACTCACGTTGTGGTATTCG
ACACTCTAGTACCAATGATCAGTGATTTTCTTTCACTCTATAAACCAATCGAAATTTTCT
TCCATGTACCTTAACATATGCTAATAATCTTGTTTAACTTTATGTAACAAACATAAATTA
AACTAACTCAAATCGTTTTTAGTGTTTGATTCATTCATTGAGATTCCTTACAACACTCTT
TCTCTGTGATGTTTTTAAAAACCGGTAGATTTAGAGAAAAATGAATAC
>g11859.t2 Gene=g11859 Length=193
MTSIILTIFMYSLLPHKEFRFLLQILPLCLYCITQFLSEWSRTKSSLVIWFVAIVIFISN
AVPAGYLGFVHQQGTIKVMDQVSSIANNYKTQDGHPAKIFFMMPCHSTPFYSHVHKNITM
RFLTCEPNLNNQLNYVDEADKFYEAPMKWIRSHLPVHPVNALPTHVVVFDTLVPMISDFL
SLYKPIEIFFHVP
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g11859.t2 | PANTHER | PTHR22760 | GLYCOSYLTRANSFERASE | 3 | 189 | 2.0E-40 |
| 3 | g11859.t2 | PANTHER | PTHR22760:SF4 | GPI MANNOSYLTRANSFERASE 3 | 3 | 189 | 2.0E-40 |
| 1 | g11859.t2 | Pfam | PF03901 | Alg9-like mannosyltransferase family | 3 | 115 | 1.3E-26 |
| 6 | g11859.t2 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 20 | - |
| 9 | g11859.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 21 | 41 | - |
| 8 | g11859.t2 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 42 | 46 | - |
| 10 | g11859.t2 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 47 | 69 | - |
| 7 | g11859.t2 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 70 | 193 | - |
| 5 | g11859.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 21 | 38 | - |
| 4 | g11859.t2 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 48 | 70 | - |
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:0006506 | GPI anchor biosynthetic process | BP |
| GO:0000026 | alpha-1,2-mannosyltransferase activity | MF |
| GO:0004376 | glycolipid mannosyltransferase activity | MF |
| GO:0016757 | 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.
