General information for g2207.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative F-box only protein 25.
Parent gene
- The parent gene g2207 is located on chr_3: 16011372..16013247 (+ 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_3 | g2207 | g2207.t1 | TSS | g2207.t1 | 16010832 | 16010832 |
| chr_3 | g2207 | g2207.t1 | isoform | g2207.t1 | 16011372 | 16012614 |
| chr_3 | g2207 | g2207.t1 | exon | g2207.t1.exon1 | 16011372 | 16011475 |
| chr_3 | g2207 | g2207.t1 | cds | g2207.t1.CDS1 | 16011372 | 16011475 |
| chr_3 | g2207 | g2207.t1 | exon | g2207.t1.exon2 | 16011663 | 16012614 |
| chr_3 | g2207 | g2207.t1 | cds | g2207.t1.CDS2 | 16011663 | 16012614 |
| chr_3 | g2207 | g2207.t1 | TTS | g2207.t1 | 16013535 | 16013535 |
Sequences
>g2207.t1 Gene=g2207 Length=1056
ATGCCTTTTATTTCGCGCGATTGGAGAAACTCTGGTGATAAATGGGAAAAAGATGAATTT
GGAAACTGGGAAAGAACTAAAGTAATAGAATGCGAATCTAAAAGCAACGAGGATCATGAA
CAGTCATCGTCATCATCGCCACCATCTTCATCTTCTAGTCCACCGCCGCATTGCCAAATT
GTATTGCGATGCACACGCGAAATTGCTGGCTTTAATGGCCTTGATGTTGCAGTAAAAAGA
TTGGATTTCAAATCGTCAGTCAGAAATCAGCGTAGATTCCAATACATCTGTGCACTCTTG
AAATTGTTAGTGTCTGGTGAAGTTGTAATGACTTCACTATCAGGTAATGCACAGAGAATT
TTACTTCAAATGATTGAAGAAGTGGCAATGCATGTTAGTACTAGTAAGCAACATATTAAC
ACATTGCGTGGATTGGTCGATCAATTGAGGCAGCTTGTAGAACAGGAAAGTCAAAAATGT
TGGGGTAAACCATTAGGAAGTGTCAATTTATGGAACACACACTTGCAGACTATTGAAAGA
ATTCAAAACATTGCAAGTCAAATTGAAATTGAGCCTGATACTTCAGTGCCTCAGTTAACT
GAATTACCAGAAGAATGTATTAGAAAAATAATTTTGCAAATGAGTGATCATAAAGATTTA
GAGTCAGCAGCAAATGCATGGAGCTTGATGAATTATATAATTCAAGAACAGAGAATTTGG
AGAGAATTGAGCAAATTTCATTTCACTCAACAACAAATTGATTCGATTTTAGAAAAGATG
AGCTTGTTAGATACTCCTGAGCGTCATAGAAATTGGCAGACTATTTATCATACATTGAGA
AAGAAATATGGACTTCGTGATGATTTCCAATACACAGAAGTTCTTGCTTTATGTCGCTTT
TGTCATTGTCTTTTTTGGCCAATGACTGGCCATCCATGTATTGCTGAAACAAAAGAGTAC
CAAGAAAAATTGGAAAAAGCTGGTACATCTTACGAATCAATTGAAAAAACCCAGTTAGTT
CCTCCACATCAATTTTTAAAGTATTTTTCATTGTAA
>g2207.t1 Gene=g2207 Length=351
MPFISRDWRNSGDKWEKDEFGNWERTKVIECESKSNEDHEQSSSSSPPSSSSSPPPHCQI
VLRCTREIAGFNGLDVAVKRLDFKSSVRNQRRFQYICALLKLLVSGEVVMTSLSGNAQRI
LLQMIEEVAMHVSTSKQHINTLRGLVDQLRQLVEQESQKCWGKPLGSVNLWNTHLQTIER
IQNIASQIEIEPDTSVPQLTELPEECIRKIILQMSDHKDLESAANAWSLMNYIIQEQRIW
RELSKFHFTQQQIDSILEKMSLLDTPERHRNWQTIYHTLRKKYGLRDDFQYTEVLALCRF
CHCLFWPMTGHPCIAETKEYQEKLEKAGTSYESIEKTQLVPPHQFLKYFSL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g2207.t1 | Coils | Coil | Coil | 139 | 159 | - |
| 4 | g2207.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 31 | 56 | - |
| 1 | g2207.t1 | PANTHER | PTHR13123:SF7 | LD30288P | 1 | 351 | 1.1E-102 |
| 2 | g2207.t1 | PANTHER | PTHR13123 | LD30288P | 1 | 351 | 1.1E-102 |
| 3 | g2207.t1 | SUPERFAMILY | SSF81383 | F-box domain | 191 | 279 | 2.81E-6 |
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 K10305 (F-box protein 25/32)
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.
