General information for g17112.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as GPI ethanolamine phosphate transferase 1.
Parent gene
- The parent gene g17112 is located on chr_4: 12515527..12516557 (- 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_4 | g17112 | g17112.t3 | isoform | g17112.t3 | 12512985 | 12515527 |
| chr_4 | g17112 | g17112.t3 | exon | g17112.t3.exon1 | 12512985 | 12513125 |
| chr_4 | g17112 | g17112.t3 | cds | g17112.t3.CDS1 | 12512987 | 12513125 |
| chr_4 | g17112 | g17112.t3 | exon | g17112.t3.exon2 | 12513198 | 12513523 |
| chr_4 | g17112 | g17112.t3 | cds | g17112.t3.CDS2 | 12513198 | 12513523 |
| chr_4 | g17112 | g17112.t3 | exon | g17112.t3.exon3 | 12514172 | 12515011 |
| chr_4 | g17112 | g17112.t3 | cds | g17112.t3.CDS3 | 12514172 | 12515011 |
| chr_4 | g17112 | g17112.t3 | exon | g17112.t3.exon4 | 12515144 | 12515527 |
| chr_4 | g17112 | g17112.t3 | cds | g17112.t3.CDS4 | 12515144 | 12515527 |
| chr_4 | g17112 | g17112.t3 | TSS | g17112.t3 | NA | NA |
| chr_4 | g17112 | g17112.t3 | TTS | g17112.t3 | NA | NA |
Sequences
>g17112.t3 Gene=g17112 Length=1691
ATGAAATTTCTAGTCACTTTTGCAATTTTTCTTCACTTTCTATTTCTACTCAGTATTTTC
TACATTTACTTCCGCACAATAATCGTTCAAGACTTAAAACCATTAAAATCACTTGATAAT
CCACCAGCAAAAAGACTCGTCCTAATTGTCTCTGATGGACTTCGTGCTGAATCATTTTTT
GATCAAAATTACAATCGAACTCCATTTTTGAAAAATATTTTACTCACAAGAGGCTTAATT
GGTGTGTCACATACTCATGTTCCTACTGAATCAAGACCTGGTCATGTTGCATTGATTGCT
GGCGTTTATGAAGATCCATCATCAATTTTTAAAGGCTGGCAGGAAAATTTTGTTGAATTT
GATTCAGTTTTTAATAGAAGTCAAATAACTTACGCATGGGGAAGTCCAGACATTGTTCCA
ATGTTTTCAAAAGGTGCAACACCCAATCGAGTTATCACAGAAACTTACGACTCAAATTCA
GAAATTTTTGGAGCAAATGCACCAACATTTTTACTTGACAAATGGGTTTTTGATCGCGTA
AAAATTTTCCTAAATACAAAAGCTGAAAATTTAAAAGAAAAATCTGGAGTGATATTTTTT
CTTCATCTTCTTGGCATGGACACAAGTGGGCACGTTCATAAGCCACATTCAGAAAAATTT
ACTGAAAATTTGAAATTTGTTGATCGTGGAATTGGTGAAATTGTGGAAATGATTGACAAA
ATTTTTGATGACAATTTGACAGCTTTTATTTTTACATCAGACCATGGAATGACAAATAGA
GGTTCACATGGTGCTGGTCATCAACATGAGACTGAAACTCCATTTTTAGCATGGGGTGCT
GGCATAAATTATTGGAAAATTGCAAAAGATGATTTTTTAACAAGAACTCATATAACAATT
GATGGACAAAATATTCCAAGATATGACATACAGCAAGCTGATGCTGCTCCATTAATGGCA
ACACTTATTGGTTCAGCTGTTCCTACAAATAGTCATGGAAAACTGCCATACATGTATCCA
AATGTTTCAAAAATTTATCTTGCAAATGCTTTTTCTAATAATGCTTATCAACTTCATGCA
ATGTATCAAAAATTACATGAGCAAGCACTTTTAAAGACTTTTAAATTTTCATTCAATACA
AAAGAAAGCAAACTTGAAGATGAAATTAATTTTTTGGATGAACAAATTAAACTTTCTTTT
ACACTAAAAGATTATGATGACATTATTGTCAAATCTCATGATCTCATAAAAGCAGTCCAT
GAGGCAATAGATTATTTCCAAATGTATTACAAAAATGAACTCCTCGTATCGTTAACACTA
GCAATGGCAGGATGGATTGCATTACTTTATCAATTTATCATAAAATCTTCAATAACTCTC
AAAATGAATAGAAAAATTTTCATCACTGGATCAGCAATAATTGGAGTAATTATTTTTTAT
AATTTTTTACAACATGCACCTTTGGTTGTTATTGGTTATTTTATTTTACCTGTCATTATT
TGGATGATTGTGGTGTCAAATTTTGATGGAAATTCACTACAGAATTTGAGAAATCAAAAT
CATCTAATGATCGCAATAATTTGCATAATTTTTGCTGAACTTTTGGTTTATTCATTTTTT
GAAAGAAGAATTTTGAGCCTCATTTTGATCCTTTATACTGGAAGCATCACAGCTTATGCA
ATAAGAAAAAA
>g17112.t3 Gene=g17112 Length=563
MKFLVTFAIFLHFLFLLSIFYIYFRTIIVQDLKPLKSLDNPPAKRLVLIVSDGLRAESFF
DQNYNRTPFLKNILLTRGLIGVSHTHVPTESRPGHVALIAGVYEDPSSIFKGWQENFVEF
DSVFNRSQITYAWGSPDIVPMFSKGATPNRVITETYDSNSEIFGANAPTFLLDKWVFDRV
KIFLNTKAENLKEKSGVIFFLHLLGMDTSGHVHKPHSEKFTENLKFVDRGIGEIVEMIDK
IFDDNLTAFIFTSDHGMTNRGSHGAGHQHETETPFLAWGAGINYWKIAKDDFLTRTHITI
DGQNIPRYDIQQADAAPLMATLIGSAVPTNSHGKLPYMYPNVSKIYLANAFSNNAYQLHA
MYQKLHEQALLKTFKFSFNTKESKLEDEINFLDEQIKLSFTLKDYDDIIVKSHDLIKAVH
EAIDYFQMYYKNELLVSLTLAMAGWIALLYQFIIKSSITLKMNRKIFITGSAIIGVIIFY
NFLQHAPLVVIGYFILPVIIWMIVVSNFDGNSLQNLRNQNHLMIAIICIIFAELLVYSFF
ERRILSLILILYTGSITAYAIRK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 26 | g17112.t3 | CDD | cd16020 | GPI_EPT_1 | 41 | 336 | 1.73727E-155 |
| 12 | g17112.t3 | Gene3D | G3DSA:3.40.720.10 | Alkaline Phosphatase | 43 | 354 | 1.9E-44 |
| 4 | g17112.t3 | PANTHER | PTHR12250 | PHOSPHATIDYLINOSITOL GLYCAN, CLASS N | 2 | 558 | 2.7E-183 |
| 3 | g17112.t3 | Pfam | PF01663 | Type I phosphodiesterase / nucleotide pyrophosphatase | 46 | 103 | 2.7E-5 |
| 2 | g17112.t3 | Pfam | PF01663 | Type I phosphodiesterase / nucleotide pyrophosphatase | 189 | 259 | 7.3E-10 |
| 1 | g17112.t3 | Pfam | PF04987 | Phosphatidylinositolglycan class N (PIG-N) | 421 | 553 | 9.0E-20 |
| 13 | g17112.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 1 | 6 | - |
| 24 | g17112.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 24 | - |
| 17 | g17112.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 25 | 433 | - |
| 21 | g17112.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 434 | 454 | - |
| 16 | g17112.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 455 | 465 | - |
| 25 | g17112.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 466 | 483 | - |
| 18 | g17112.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 484 | 488 | - |
| 23 | g17112.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 489 | 508 | - |
| 15 | g17112.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 509 | 519 | - |
| 22 | g17112.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 520 | 538 | - |
| 19 | g17112.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 539 | 543 | - |
| 20 | g17112.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 544 | 561 | - |
| 14 | g17112.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 562 | 563 | - |
| 11 | g17112.t3 | SUPERFAMILY | SSF53649 | Alkaline phosphatase-like | 40 | 324 | 3.78E-33 |
| 7 | g17112.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 7 | 29 | - |
| 9 | g17112.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 435 | 454 | - |
| 10 | g17112.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 466 | 483 | - |
| 6 | g17112.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 488 | 508 | - |
| 8 | g17112.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 521 | 540 | - |
| 5 | g17112.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 544 | 561 | - |
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:0051377 | mannose-ethanolamine phosphotransferase activity | MF |
| GO:0016021 | integral component of membrane | CC |
| GO:0016740 | transferase activity | MF |
| GO:0005789 | endoplasmic reticulum membrane | CC |
| GO:0003824 | catalytic 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.
