General information for g11473.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as F-box/WD repeat-containing protein 11.
Parent gene
- The parent gene g11473 is located on chr_1: 16436603..16437311 (- 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 | g11473 | g11473.t10 | isoform | g11473.t10 | 16435786 | 16436918 |
| chr_1 | g11473 | g11473.t10 | exon | g11473.t10.exon1 | 16435786 | 16435876 |
| chr_1 | g11473 | g11473.t10 | cds | g11473.t10.CDS1 | 16435787 | 16435876 |
| chr_1 | g11473 | g11473.t10 | exon | g11473.t10.exon2 | 16435931 | 16436291 |
| chr_1 | g11473 | g11473.t10 | cds | g11473.t10.CDS2 | 16435931 | 16436291 |
| chr_1 | g11473 | g11473.t10 | exon | g11473.t10.exon3 | 16436351 | 16436481 |
| chr_1 | g11473 | g11473.t10 | cds | g11473.t10.CDS3 | 16436351 | 16436481 |
| chr_1 | g11473 | g11473.t10 | exon | g11473.t10.exon4 | 16436883 | 16436918 |
| chr_1 | g11473 | g11473.t10 | cds | g11473.t10.CDS4 | 16436883 | 16436918 |
| chr_1 | g11473 | g11473.t10 | TSS | g11473.t10 | NA | NA |
| chr_1 | g11473 | g11473.t10 | TTS | g11473.t10 | NA | NA |
Sequences
>g11473.t10 Gene=g11473 Length=619
ATGGAGACTGACAAAATAGAAGATCCAAAATCACAGTTTCCAACGACTATACTCTATGAT
CCTGCACGTAAAAAGGAACCTTCTTCACAATATATAAAAGAAAGAGACAAATGTCTTTCG
ATGTTTTGCAACTGGAACGATGACGAACAAGTTGATTTTGTCGAACAATTACTTTCACGA
ATGTGTCATTATCAACACGGAAATATAAATGCATTCTTAAAGCCAATGCTTCAAAGAGAT
TTCATCTCTCTACTGCCGAAAAAAGGTCTCGATCATGTTGCTGATAATATACTTTCATTT
TTGGATGCTGAGTCACTTTGTGCTGCAGAGCTAGTGTCAAAAGAATGGAATCGTGTAATT
TCTGAGGGAATGTTATGGAAGAAACTAATTGAAAGAAAAGTTCGAAGTGATTCATTATGG
CGTGGGTTAGCGGAACGTAAAAAATGGATCAAGTATTTATTTGTACCAAGACAAGGAGAA
TATCGTAACCACTCATTTTATAGACAACTTTATCCTGTCATCATGAAGGACATTGAAACG
ATCGAAAATAATTGGCGTTCTGGAAATCACAATTTGCAACGAATAAATTGTAGATCTGAA
AATTCAAAAGGAGTCTATT
>g11473.t10 Gene=g11473 Length=206
METDKIEDPKSQFPTTILYDPARKKEPSSQYIKERDKCLSMFCNWNDDEQVDFVEQLLSR
MCHYQHGNINAFLKPMLQRDFISLLPKKGLDHVADNILSFLDAESLCAAELVSKEWNRVI
SEGMLWKKLIERKVRSDSLWRGLAERKKWIKYLFVPRQGEYRNHSFYRQLYPVIMKDIET
IENNWRSGNHNLQRINCRSENSKGVY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g11473.t10 | Gene3D | G3DSA:1.20.1280.50 | - | 79 | 184 | 0.0000000 |
| 3 | g11473.t10 | PANTHER | PTHR44156:SF9 | F-BOX AND WD REPEAT DOMAIN CONTAINING 11 | 23 | 206 | 0.0000000 |
| 4 | g11473.t10 | PANTHER | PTHR44156 | - | 23 | 206 | 0.0000000 |
| 2 | g11473.t10 | Pfam | PF12125 | D domain of beta-TrCP | 40 | 78 | 0.0000000 |
| 1 | g11473.t10 | Pfam | PF12937 | F-box-like | 96 | 129 | 0.0000002 |
| 9 | g11473.t10 | ProSiteProfiles | PS50181 | F-box domain profile. | 91 | 129 | 8.8350000 |
| 6 | g11473.t10 | SMART | SM01028 | Beta-TrCP_D_2 | 39 | 78 | 0.0000000 |
| 7 | g11473.t10 | SMART | SM00256 | fbox_2 | 90 | 129 | 0.0001100 |
| 5 | g11473.t10 | SUPERFAMILY | SSF81383 | F-box domain | 74 | 186 | 0.0000000 |
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 |
| GO:0046983 | protein dimerization 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.
