General information for g4652.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative STIP1 homology and U box-containing protein 1.
Parent gene
- The parent gene g4652 is located on chr_2: 3955994..3956553 (- 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 | g4652 | g4652.t4 | TTS | g4652.t4 | 3954904 | 3954904 |
| chr_2 | g4652 | g4652.t4 | isoform | g4652.t4 | 3955073 | 3956553 |
| chr_2 | g4652 | g4652.t4 | exon | g4652.t4.exon1 | 3955073 | 3955241 |
| chr_2 | g4652 | g4652.t4 | exon | g4652.t4.exon2 | 3955297 | 3955427 |
| chr_2 | g4652 | g4652.t4 | cds | g4652.t4.CDS1 | 3955426 | 3955427 |
| chr_2 | g4652 | g4652.t4 | exon | g4652.t4.exon3 | 3955488 | 3955733 |
| chr_2 | g4652 | g4652.t4 | cds | g4652.t4.CDS2 | 3955488 | 3955733 |
| chr_2 | g4652 | g4652.t4 | exon | g4652.t4.exon4 | 3955796 | 3956553 |
| chr_2 | g4652 | g4652.t4 | cds | g4652.t4.CDS3 | 3955796 | 3955889 |
| chr_2 | g4652 | g4652.t4 | TSS | g4652.t4 | 3956712 | 3956712 |
Sequences
>g4652.t4 Gene=g4652 Length=1304
ATGAGTAAACCAACTCAAGCACTCACAGATATTGAACTAAAGGATCATGGCAATAAACTC
TTTGCAGCTAGAAAATATGAGGACGCTATAAGTTGCTATTCAAAAGCAATCGTAAGTAAT
TTTTGAAAATTTCAATGAAATTTCATTTTTCTCAAGTAGGAAGTGCGATTCAATTTATAG
AGAAAAGTGAAAAACGTAAGGCTGTATGTGATGGAATTTATCACTACGCGTGAGAAGTGT
AAAGTTTAATATAATCAAGTGAATCATCTCAAAATAATAGCATTTTCTCTGTTTCATAAT
TTTTGTGACAAAGGAGAATTTTCTACTTTCTATTTAATATGATACATATGTCTTCTTATG
CTCTATTTTCGTTCATACACCTACTTATTAATATTCTTTACAATACAAATTTGCACATAA
TTGGATTTATTTTGTCCGTCACAAAGCATGTGTGAAATTAAAATAGAGTAAAAATCACAT
GCTAATTTAATGTCATGATTCTATCACTTAACACCTATTTCTAACATTTTTTTTCTTTCC
ATCTTTCATTATCAATCAGATCAAGAATCCCAATAATCCAACGTACTTTACAAATCGAGC
ATTATGCTATATCAAATTAAAACGATATGAATCGAGTTCACAGGATTGTCGTCGTGCTTT
GGATATGGATCAAAATTTGATTAAAGGACATTTCTTTTTGGGTATAAGCCTCTTGGAATT
AGAATACTTTGATGAAGCAATTAAACATTTACAGCGAGCGCAAGATCTTGGTAAAGAGCA
AAAATTAAATTTTGGAGATGATATTGCTTCACAATTGCGTTTAGCAAGAAAGAAACGATG
GAATTTATTGGAAGAAAAAAGAATTCAACAAGAAATTGAATTGCAATCTTATCTTACTCG
CTTAATTCGTGAAGATATGGAAAATCGAATAGCAAAATTGAAACTTGAAGATAATATGAC
TGAAGAAGAAAAGAAAGATGCAGCATCTGATGTTGAACAACAATGAAAATTATACAAACG
AACTGAATGGACTTTTTGCAAAGGTTGATGATAGACGACAAAAGCGTGAAGTTCCTGATT
ATCTCTGTGGCAAAATTTCCTTTGAAATTTTGCAAGAACCTGTTATTACTCCAAGTGGCA
TCACATATGAACGGAAGGACATCGAAGAACATCTACAGCGCGTTGGTCACTTTGATCCAG
TGACTCGTGTTCCATTGACTGTCGATCAACTAATTCCTAACTTTTCAATGAAAGAAGTTG
TCGATTCGTTTATTCAGGAAAATGAATGGGCTCTTGAGTACTAA
>g4652.t4 Gene=g4652 Length=113
MDQNLIKGHFFLGISLLELEYFDEAIKHLQRAQDLGKEQKLNFGDDIASQLRLARKKRWN
LLEEKRIQQEIELQSYLTRLIREDMENRIAKLKLEDNMTEEEKKDAASDVEQQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g4652.t4 | Coils | Coil | Coil | 82 | 113 | - |
| 5 | g4652.t4 | Gene3D | G3DSA:1.25.40.10 | - | 1 | 66 | 6.1E-15 |
| 2 | g4652.t4 | PANTHER | PTHR46803 | E3 UBIQUITIN-PROTEIN LIGASE CHIP | 1 | 107 | 4.3E-20 |
| 3 | g4652.t4 | PANTHER | PTHR46803:SF2 | E3 UBIQUITIN-PROTEIN LIGASE CHIP | 1 | 107 | 4.3E-20 |
| 1 | g4652.t4 | Pfam | PF18391 | CHIP N-terminal tetratricopeptide repeat domain | 54 | 109 | 6.0E-16 |
| 7 | g4652.t4 | ProSiteProfiles | PS50293 | TPR repeat region circular profile. | 1 | 39 | 8.823 |
| 4 | g4652.t4 | SUPERFAMILY | SSF48452 | TPR-like | 2 | 39 | 7.59E-5 |
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 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.
