General information for g10070.t12
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Protein SGT1 homolog B.
Parent gene
- The parent gene g10070 is located on chr_1: 7246699..7247303 (- 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 | g10070 | g10070.t12 | TTS | g10070.t12 | 7246573 | 7246573 |
| chr_1 | g10070 | g10070.t12 | isoform | g10070.t12 | 7246699 | 7247303 |
| chr_1 | g10070 | g10070.t12 | exon | g10070.t12.exon1 | 7246699 | 7246874 |
| chr_1 | g10070 | g10070.t12 | cds | g10070.t12.CDS1 | 7246699 | 7246874 |
| chr_1 | g10070 | g10070.t12 | exon | g10070.t12.exon2 | 7246946 | 7247303 |
| chr_1 | g10070 | g10070.t12 | cds | g10070.t12.CDS2 | 7246946 | 7247303 |
| chr_1 | g10070 | g10070.t12 | TSS | g10070.t12 | 7247394 | 7247394 |
Sequences
>g10070.t12 Gene=g10070 Length=534
ATGTCAGTTCGCCACGATTGGTATCAAAACGACGAGAAAGTCGTAATTACAGTACTTCTT
AAAAACGCTGTTGAGAAAAATTATAAATGTGAAATAAATGAAAATTCACTTCAAATTACT
GCCGAAAACTATGAACTCAATTTGGATCTTCACGCAAGTATAATTCCTGAAAAGTCATCA
CACAAAGCAACACCTCATAAAATTGAAATAAATTTGATAAAAAAAAATTTTGGAAAATGG
GCTGCATTAGAGAAAAAAGTACAAGAAGTTGCCGTTAAAGTTTATAGTGGAAAAAAACCA
GACGAATGGGATAAACTAGCCAAAGATATTGAAAAGAGTGATGATAAAGAAGAAGTAATG
AATGCATTATTCAAGAAAATTTACGAGAGTGGAACAGAAGAACAACGTCGAGCAATGAAC
AAATCATTTCAAGAATCGGGTGGCACTGTTTTAAGCACTAACTGGGATGAAGTTAAAAAA
GATAAAGTTGATGTTAAACCTCCTGACGGATGTGAATTTCGGAAATGGGAATAA
>g10070.t12 Gene=g10070 Length=177
MSVRHDWYQNDEKVVITVLLKNAVEKNYKCEINENSLQITAENYELNLDLHASIIPEKSS
HKATPHKIEINLIKKNFGKWAALEKKVQEVAVKVYSGKKPDEWDKLAKDIEKSDDKEEVM
NALFKKIYESGTEEQRRAMNKSFQESGGTVLSTNWDEVKKDKVDVKPPDGCEFRKWE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g10070.t12 | CDD | cd06466 | p23_CS_SGT1_like | 6 | 84 | 0.000 |
| 6 | g10070.t12 | Gene3D | G3DSA:2.60.40.790 | - | 1 | 97 | 0.000 |
| 3 | g10070.t12 | PANTHER | PTHR45862:SF1 | PROTEIN SGT1 HOMOLOG | 2 | 176 | 0.000 |
| 4 | g10070.t12 | PANTHER | PTHR45862 | PROTEIN SGT1 HOMOLOG | 2 | 176 | 0.000 |
| 1 | g10070.t12 | Pfam | PF04969 | CS domain | 3 | 74 | 0.000 |
| 2 | g10070.t12 | Pfam | PF05002 | SGS domain | 102 | 176 | 0.000 |
| 8 | g10070.t12 | ProSiteProfiles | PS51203 | CS domain profile. | 1 | 84 | 16.477 |
| 7 | g10070.t12 | ProSiteProfiles | PS51048 | SGS domain profile. | 92 | 177 | 28.562 |
| 5 | g10070.t12 | SUPERFAMILY | SSF49764 | HSP20-like chaperones | 3 | 156 | 0.000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K12795 (suppressor of G2 allele of SKP1)
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. There were no conditions that were differentially expressed