General information for g10561.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as GPI transamidase component PIG-T.
Parent gene
- The parent gene g10561 is located on chr_1: 10467177..10468797 (+ 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 | g10561 | g10561.t1 | TSS | g10561.t1 | 10465390 | 10465390 |
| chr_1 | g10561 | g10561.t1 | isoform | g10561.t1 | 10465420 | 10467177 |
| chr_1 | g10561 | g10561.t1 | exon | g10561.t1.exon1 | 10465420 | 10465591 |
| chr_1 | g10561 | g10561.t1 | cds | g10561.t1.CDS1 | 10465420 | 10465591 |
| chr_1 | g10561 | g10561.t1 | exon | g10561.t1.exon2 | 10465652 | 10467177 |
| chr_1 | g10561 | g10561.t1 | cds | g10561.t1.CDS2 | 10465652 | 10467177 |
| chr_1 | g10561 | g10561.t1 | TTS | g10561.t1 | 10467223 | 10467223 |
Sequences
>g10561.t1 Gene=g10561 Length=1698
ATGAAATTTTTAAAAATTTTGATTTTTCTATTTTATTTTTCGATAGTACATGCTAAATAT
CACAATAATGTGTTTAATGAAGAGTTAGTGATTAAAGAGCTTAATAATAATTTTGTAAAT
ACTTTTTTTCAATTCACAACACAATGGAATTATCAAACATATAATAATGATCTCTTGCAT
ACAGACTTTTTATCACGATCAATATCTGAATTATTTCTTCATTATGATATTGTGGAATTA
CACATAACTCTCTCAAATGGTTTATGGAAAACTGAAAGTTGGGGCTTTCCTATTGAATCA
GCTGGCTCAGGAGGAGAATTATATGCTTGGTTTAAAAATCATCTTTCAGAAGATGATATA
AAAAAGCAATGGATTGAATTGTCTGAGGCTTTATCGGGACTTTTGTGTGCATCATTTAGT
TTTGTCGAAGAAACTAATACAATTAATCCAGAATTTTCATTCAGACCAACTTCTTCGTGG
AATGTTCCTCTTAATTCTTCGTTTTTACGATATACAGCATTGCCAAGAGAAGTTGTTTGT
ACTGAGAATTTAACACCTTGGAAAAAATTATTGCCATGTGACTCACAAGAGGGATTTGTC
TCTCTTCTCAATGCTCAACACATTTACAGCACAAACTATCACTCTTTAGGGATTCATGTT
CGTCATATATGTATCGATCAGACTTGTTCAAATGCAATTTTAGAATCCAAACAAACTGTA
AATTTGGTTCATGATCTCAAATTATTTGGTGGAAGTGAATGGTCTATTCGAAAACTTTTC
GGACAAGGATTAAATGGTGTATGCGCTATGTCAAGTTCGAGTAAAATTTTCTTAGATATT
ACTGATAAAGATTTTGAAATATCACCTCAACCTGAAAATGTAATTTTATCGAAGCGTGGT
GGTAGTGAATCACGTTATGCAGAGTTTGATGTGAGAAAATTAGTTCAAGAAAGCAAAATG
ATTAATATTGCCATTATCAATAAGAAGCATAAAACTATTCCAATTACAAGACCACCACCA
CTTTTTGCAAAACGATTTCTTTTAGGCACAGGCAAAGAGAGTGGTAAAATTGTAAATCAA
ATTACTAATTCTCACTACGCAAGCTTAAATATTATAATTTTGGAAAATATTCCTTGGTTT
GTGCCAATTTATTTGCATACATTAAAAGTTAAAACGAGAAACGGAGAAATTAAACCATCA
TCAATCAAATACATTCCAGGAGAACAGCGAAAGAGACCATATTATTTAGAAATTGCTTTA
ACAATTCCATCAAAAACTATTATAGAAATTTCAATAGATTTCGATTACATTTTCTTAAGA
TGGCAAGAGTATCCACCTGATGCCAATCACGGACAGTACATACCGGCAGCAATTATATCT
GCAATGCTGCCTATGGCATTAAATTATACTAGTGCACCTATTGAGGCTAGTCTATATGCA
GAAAGTTTCAATGCTACACGACCATCATATTTCCTTAGAATTCACACTGAAGCACTTTTA
ATAAATTTACCTACACCAGATTTCTCAATGCCATACAATGTTATATGTTTAGCATGCACT
GTCGTAGCATTAGCTTTCGGTCCATTACATAATATGACATGCCGAATTTTAGTGTTACAG
AAAAAAGATGAAACCAAAAAGTCGTTTTTACAACGTTTGAAAGAAAAATTGTTCAAGAAA
AAAGAAAAATCAGAATAA
>g10561.t1 Gene=g10561 Length=565
MKFLKILIFLFYFSIVHAKYHNNVFNEELVIKELNNNFVNTFFQFTTQWNYQTYNNDLLH
TDFLSRSISELFLHYDIVELHITLSNGLWKTESWGFPIESAGSGGELYAWFKNHLSEDDI
KKQWIELSEALSGLLCASFSFVEETNTINPEFSFRPTSSWNVPLNSSFLRYTALPREVVC
TENLTPWKKLLPCDSQEGFVSLLNAQHIYSTNYHSLGIHVRHICIDQTCSNAILESKQTV
NLVHDLKLFGGSEWSIRKLFGQGLNGVCAMSSSSKIFLDITDKDFEISPQPENVILSKRG
GSESRYAEFDVRKLVQESKMINIAIINKKHKTIPITRPPPLFAKRFLLGTGKESGKIVNQ
ITNSHYASLNIIILENIPWFVPIYLHTLKVKTRNGEIKPSSIKYIPGEQRKRPYYLEIAL
TIPSKTIIEISIDFDYIFLRWQEYPPDANHGQYIPAAIISAMLPMALNYTSAPIEASLYA
ESFNATRPSYFLRIHTEALLINLPTPDFSMPYNVICLACTVVALAFGPLHNMTCRILVLQ
KKDETKKSFLQRLKEKLFKKKEKSE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g10561.t1 | PANTHER | PTHR12959:SF11 | GPI TRANSAMIDASE COMPONENT PIG-T | 1 | 560 | 7.4E-161 |
| 3 | g10561.t1 | PANTHER | PTHR12959 | GPI TRANSAMIDASE COMPONENT PIG-T-RELATED | 1 | 560 | 7.4E-161 |
| 1 | g10561.t1 | Pfam | PF04113 | Gpi16 subunit, GPI transamidase component | 11 | 557 | 2.3E-141 |
| 7 | g10561.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 18 | - |
| 8 | g10561.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 5 | - |
| 9 | g10561.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 6 | 13 | - |
| 11 | g10561.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 18 | - |
| 6 | g10561.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 19 | 509 | - |
| 10 | g10561.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 510 | 529 | - |
| 5 | g10561.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 530 | 565 | - |
| 4 | g10561.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
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:0042765 | GPI-anchor transamidase complex | CC |
| GO:0016255 | attachment of GPI anchor to protein | BP |
KEGG
Orthology
- This transcript has been annotated with K05292 (GPI-anchor transamidase subunit T)
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.
