General information for g7517.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative S-phase kinase-associated protein 2.
Parent gene
- The parent gene g7517 is located on chr_2: 24201389..24203184 (+ 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 | g7517 | g7517.t1 | TSS | g7517.t1 | 24201217 | 24201217 |
| chr_2 | g7517 | g7517.t1 | isoform | g7517.t1 | 24201274 | 24202914 |
| chr_2 | g7517 | g7517.t1 | exon | g7517.t1.exon1 | 24201274 | 24201326 |
| chr_2 | g7517 | g7517.t1 | cds | g7517.t1.CDS1 | 24201274 | 24201326 |
| chr_2 | g7517 | g7517.t1 | exon | g7517.t1.exon2 | 24201391 | 24202340 |
| chr_2 | g7517 | g7517.t1 | cds | g7517.t1.CDS2 | 24201391 | 24202340 |
| chr_2 | g7517 | g7517.t1 | exon | g7517.t1.exon3 | 24202429 | 24202588 |
| chr_2 | g7517 | g7517.t1 | cds | g7517.t1.CDS3 | 24202429 | 24202588 |
| chr_2 | g7517 | g7517.t1 | exon | g7517.t1.exon4 | 24202725 | 24202914 |
| chr_2 | g7517 | g7517.t1 | cds | g7517.t1.CDS4 | 24202725 | 24202914 |
| chr_2 | g7517 | g7517.t1 | TTS | g7517.t1 | 24203031 | 24203031 |
Sequences
>g7517.t1 Gene=g7517 Length=1353
ATGAGTAAATCTAGTTTTAAGGAAAACAACTGTAACAAAGCATCAATAGAAGGATACAAA
CGGCTTAAAGTTGACGAAAATATGTCCGAAAATTTTTCAAAATGCATCGATAGTGACGAT
AAGGATAGTAATTTATCTGTTACCATTTATGAAGACGAAAGTGATATAAGTTATGTGCAT
AAATCGGCAAAGACTCGGTTAACAGTGGCTTCAAAGAGATCACCTTTAGTTGCAATTAAC
AAACCATTAAATCAACATAACGTTCTGCAAGAATTCGCCAATAATCAAATTCCATCTTCC
TCAAAAACTCCTCTTAAACATAATGAAACTTTTCATCGCAAAATTTTACAAAAAGAACCA
TCAATTGTCAGTTCATTTGATCTACTCTCTGATGAACTACTTCTTCACATCTTCCAATAT
CTTCCGAAAAAAGCACTCAAACGACTTGCACAAGTGAATTCTAGATTTGCTCGTGTTGTA
GAAGACGAAACGCTATGGATTCGAATTGATCTCGCAAACAGATATATTACAAAATATGCT
TTTAGTCGTCTTCTTCCAAGAGGATTTATAATAATGAGACTGGCTCAAACCAATATTGAA
AGTCCTATTTTTAGCCCTCTTTTCAATGAAGATGGAAATTTTAAGTCAAAACTGCAATAT
TTAGATCTATCTCTGGCAAATGTTGATCTTAATTCATTAGCACAGCTATTAGGAGTCTGC
CGATCATTAAAAAAGTTAAGTCTGGAACAAGTGCCTCTCAATTTGGACGTATGTAAAGAA
ATATCTGAAAATCGAAATCTAGAAGTATTGAATCTTGCAATGTGCGAAGGAATAACGGAC
GATTGTGTATTAGTAATGATGAGCAACCTTCAATCACTCATAGCACTGAATATTTCATGG
ACATCATTAACATCAGAGAGCATTGAAGCCATTGTTTCTCTCATTTCACCATCATTAATG
CGTTTCAACATTTCTGGATGTCGACGAGGTTTTACTGATATAACACTCGAGACGCTTGTC
AAACGTTGTCCCAATATCGTTGAGCTTGACGTTTCTGATTGTACGATGTTGACATCTGTT
GCTATCGAAAATCTCTCGAAGCTTAATAAGCTTGAGTATCTGTCGCTGTCAAGATGTTAT
AACATACCGATGACGTCTTACTTATCTCTCAATTCAATAAAATCCCTAATGTTTTTGGAT
GTGTTCGGGCATATCTCCCCATCTGGAATTCAAATGCTTGAAAAGACTTTTAAAAATATT
GGGATCAATAAATTTATTCATAGCAGTGTTGCGCGTCCAACTGTAGCACCGAGACGTACA
TCAATTTGGGGATTGAGAACTCGAGATATTTAG
>g7517.t1 Gene=g7517 Length=450
MSKSSFKENNCNKASIEGYKRLKVDENMSENFSKCIDSDDKDSNLSVTIYEDESDISYVH
KSAKTRLTVASKRSPLVAINKPLNQHNVLQEFANNQIPSSSKTPLKHNETFHRKILQKEP
SIVSSFDLLSDELLLHIFQYLPKKALKRLAQVNSRFARVVEDETLWIRIDLANRYITKYA
FSRLLPRGFIIMRLAQTNIESPIFSPLFNEDGNFKSKLQYLDLSLANVDLNSLAQLLGVC
RSLKKLSLEQVPLNLDVCKEISENRNLEVLNLAMCEGITDDCVLVMMSNLQSLIALNISW
TSLTSESIEAIVSLISPSLMRFNISGCRRGFTDITLETLVKRCPNIVELDVSDCTMLTSV
AIENLSKLNKLEYLSLSRCYNIPMTSYLSLNSIKSLMFLDVFGHISPSGIQMLEKTFKNI
GINKFIHSSVARPTVAPRRTSIWGLRTRDI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g7517.t1 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 123 | 449 | 0.000000 |
| 2 | g7517.t1 | PANTHER | PTHR16134:SF116 | AT02038P-RELATED | 119 | 439 | 0.000000 |
| 3 | g7517.t1 | PANTHER | PTHR16134 | F-BOX/TPR REPEAT PROTEIN POF3 | 119 | 439 | 0.000000 |
| 1 | g7517.t1 | Pfam | PF12937 | F-box-like | 131 | 171 | 0.000000 |
| 13 | g7517.t1 | ProSiteProfiles | PS50181 | F-box domain profile. | 123 | 169 | 11.697000 |
| 11 | g7517.t1 | SMART | SM00256 | fbox_2 | 129 | 169 | 0.000018 |
| 10 | g7517.t1 | SMART | SM00367 | LRR_CC_2 | 264 | 289 | 270.000000 |
| 9 | g7517.t1 | SMART | SM00367 | LRR_CC_2 | 290 | 314 | 330.000000 |
| 8 | g7517.t1 | SMART | SM00367 | LRR_CC_2 | 316 | 342 | 1.300000 |
| 7 | g7517.t1 | SMART | SM00367 | LRR_CC_2 | 343 | 368 | 0.001400 |
| 6 | g7517.t1 | SMART | SM00367 | LRR_CC_2 | 369 | 393 | 160.000000 |
| 5 | g7517.t1 | SUPERFAMILY | SSF81383 | F-box domain | 123 | 207 | 0.000000 |
| 4 | g7517.t1 | SUPERFAMILY | SSF52047 | RNI-like | 200 | 415 | 0.000000 |
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:0005515 | protein binding | MF |
KEGG
Orthology
- This transcript has been annotated with K03875 (F-box and leucine-rich repeat protein 1 (S-phase kinase-associated protein 2))
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.
