General information for g17274.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Protein LST8-like protein.
Parent gene
- The parent gene g17274 is located on chr_4: 13006689..13007949 (+ 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 | g17274 | g17274.t1 | TSS | g17274.t1 | 13005226 | 13005226 |
| chr_4 | g17274 | g17274.t1 | isoform | g17274.t1 | 13005321 | 13006689 |
| chr_4 | g17274 | g17274.t1 | exon | g17274.t1.exon1 | 13005321 | 13005437 |
| chr_4 | g17274 | g17274.t1 | cds | g17274.t1.CDS1 | 13005321 | 13005437 |
| chr_4 | g17274 | g17274.t1 | exon | g17274.t1.exon2 | 13005568 | 13005752 |
| chr_4 | g17274 | g17274.t1 | cds | g17274.t1.CDS2 | 13005568 | 13005752 |
| chr_4 | g17274 | g17274.t1 | exon | g17274.t1.exon3 | 13006053 | 13006689 |
| chr_4 | g17274 | g17274.t1 | cds | g17274.t1.CDS3 | 13006053 | 13006689 |
| chr_4 | g17274 | g17274.t1 | TTS | g17274.t1 | 13006711 | 13006711 |
Sequences
>g17274.t1 Gene=g17274 Length=939
ATGGTTCAAACAGAAGGTGATCCAATTTTAGCAACTGGTGGTTATGACCATACTATAAAA
ATTTGGGCACCTTACTCAGGAACATCAATTAAAACTCTTCAACATTCTGATTCACAAGTA
AATGCACTAGTAATAAAAAATTATTTAGCTGCCGGTGGATTTCAATCAATTCGTCTCTAT
GATTTGAATGCAAGTACAAATCCATTAATTAATTTTGAAGGTGTCAGTAAAAATGTCACA
TCAGTTGGATTTCAAGAAGATGGAAGATTTATGTACACTGGATCAGAAGATTGCAGAGTT
CGTATCTGGGACCTAAATTGTCCACAACCAGTTTGTAAGCGAATGTTTGACTGCCTTACT
CCAGTTGCATCAGTTTGTCTTCATCCAAATCAAGTTGAAATTGCAATCAGTACAAGTGGT
GGAAGTATTTATTTATGGGACATAAAGACAGACAATAATGAGCAACTTTTGCCTGAAATG
AATGTTTCACTAAATAGCGTTGATATAAGTTCAAATGGAAAATATATGGCAGCAATAAAT
AATAAAGGAAGTTGCTACATTTGGGATTTAAAATCAGAAGGAAAACAATTGACAAAAACA
AGTGCAAAAATTAAATTTGTCGCTCATCAACGTTATGGTTTGAAATGTAAATTTTCACCT
GATTCACAACTTTTAGTCACAACAGGCGGGGATGGTACTGCACGTATTTATAAATGTGAA
GATGATTTTAAATTTTATAAAGAGCTGAAAATTGAGAAATTTTGGATGTGGGATGTTGCA
TTTAGCAATGACAGTAAATATATTTTCATTTCAAGCAGTGATGGATCAGCGAGATTGTGG
AAAATTGAAACAAAAAGCATCGAAAGAGAATATTTGGGACATTCAAAGGCTTTGACTGCA
ATTGCTTTTAGAGATGAATTTGTTAAAATTTCTAATTAA
>g17274.t1 Gene=g17274 Length=312
MVQTEGDPILATGGYDHTIKIWAPYSGTSIKTLQHSDSQVNALVIKNYLAAGGFQSIRLY
DLNASTNPLINFEGVSKNVTSVGFQEDGRFMYTGSEDCRVRIWDLNCPQPVCKRMFDCLT
PVASVCLHPNQVEIAISTSGGSIYLWDIKTDNNEQLLPEMNVSLNSVDISSNGKYMAAIN
NKGSCYIWDLKSEGKQLTKTSAKIKFVAHQRYGLKCKFSPDSQLLVTTGGDGTARIYKCE
DDFKFYKELKIEKFWMWDVAFSNDSKYIFISSSDGSARLWKIETKSIEREYLGHSKALTA
IAFRDEFVKISN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g17274.t1 | CDD | cd00200 | WD40 | 8 | 281 | 9.23747E-43 |
| 8 | g17274.t1 | Gene3D | G3DSA:2.130.10.10 | - | 7 | 306 | 7.9E-94 |
| 5 | g17274.t1 | PANTHER | PTHR19842:SF0 | TARGET OF RAPAMYCIN COMPLEX SUBUNIT LST8 | 6 | 306 | 5.4E-96 |
| 6 | g17274.t1 | PANTHER | PTHR19842 | G BETA-LIKE PROTEIN GBL | 6 | 306 | 5.4E-96 |
| 2 | g17274.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 9 | 22 | 0.18 |
| 3 | g17274.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 72 | 104 | 4.6E-5 |
| 4 | g17274.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 215 | 237 | 0.0094 |
| 1 | g17274.t1 | Pfam | PF00400 | WD domain, G-beta repeat | 257 | 281 | 0.0075 |
| 10 | g17274.t1 | ProSitePatterns | PS00678 | Trp-Asp (WD) repeats signature. | 91 | 105 | - |
| 17 | g17274.t1 | ProSiteProfiles | PS50294 | Trp-Asp (WD) repeats circular profile. | 1 | 312 | 35.752 |
| 19 | g17274.t1 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 1 | 32 | 8.904 |
| 20 | g17274.t1 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 72 | 106 | 13.148 |
| 18 | g17274.t1 | ProSiteProfiles | PS50082 | Trp-Asp (WD) repeats profile. | 259 | 290 | 9.807 |
| 16 | g17274.t1 | SMART | SM00320 | WD40_4 | 26 | 61 | 30.0 |
| 15 | g17274.t1 | SMART | SM00320 | WD40_4 | 65 | 104 | 9.8E-7 |
| 14 | g17274.t1 | SMART | SM00320 | WD40_4 | 109 | 147 | 1.8 |
| 12 | g17274.t1 | SMART | SM00320 | WD40_4 | 150 | 189 | 1.3 |
| 11 | g17274.t1 | SMART | SM00320 | WD40_4 | 199 | 238 | 7.5E-4 |
| 13 | g17274.t1 | SMART | SM00320 | WD40_4 | 242 | 281 | 0.0056 |
| 7 | g17274.t1 | SUPERFAMILY | SSF50978 | WD40 repeat-like | 5 | 303 | 5.8E-56 |
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:0031931 | TORC1 complex | CC |
| GO:0031929 | TOR signaling | BP |
| GO:0031932 | TORC2 complex | CC |
| GO:0005515 | protein binding | MF |
KEGG
Orthology
- This transcript has been annotated with K08266 (target of rapamycin complex subunit LST8)
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.
