General information for g9936.t13
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Ras-related protein Rac1.
Parent gene
- The parent gene g9936 is located on chr_1: 6093213..6094323 (+ 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 | g9936 | g9936.t13 | isoform | g9936.t13 | 6092881 | 6093767 |
| chr_1 | g9936 | g9936.t13 | exon | g9936.t13.exon1 | 6092881 | 6093115 |
| chr_1 | g9936 | g9936.t13 | exon | g9936.t13.exon2 | 6093199 | 6093767 |
| chr_1 | g9936 | g9936.t13 | cds | g9936.t13.CDS1 | 6093208 | 6093354 |
| chr_1 | g9936 | g9936.t13 | TTS | g9936.t13 | 6094759 | 6094759 |
| chr_1 | g9936 | g9936.t13 | TSS | g9936.t13 | NA | NA |
Sequences
>g9936.t13 Gene=g9936 Length=804
TTACGACAGATTGCGTCCATTGTCTTATCCACAAACTGATGTCTTCTTAATATGCTTTTC
ACTCGTAAACCCAGCATCTTTTGAAAATGTAAGAGCAAAGTGGTATCCTGAAGTTCGTCA
TCATTGTCCATCAACGCCGATAATTTTGGTTGGAACAAAATTAGATTTACGAGACGACAA
AAACACAATTGATAAATTGCGCGATAAAAAATTACAGCCAATTACATATCCACAGGGTCT
TGCAATGGCAAAAGAAATTGGCTCAGTAAAGTATTTAGAATGTTCAGCGTTGACACAGAA
AGGTTTAAAAACTGTATTTGACGAAGCAATTCGAGCAGTTTTGTGTCCTATAGTGCAGCC
AAAGAAGAAAAATAAATGTACATTACTTTAAGCTGCTTTCAATTCTACATACACACCACC
AATTTATACACACACATACATTTCTTCTGCCTCTTGTTTTACCAAAATCTTGTTAAGAAA
GAATAAAAAAACTTCAGCAACAATTTAATTTCTACATGGACACACATGCATGATCGTACA
AAAATAAGTGAAAAAAATTATGTGAAAGATTACATATGTAATGAAACTGAAAAATCAACT
TGTTAGTGTCGCCAATTTACATAAACTGAAAGTGAATTTGTACCGTCATTTTTTTGCATA
CTGTAAGATTCCTTCTTAATATAATAACGAAACAAAAAGAAACAGAAAATCTTTTACTCG
ATGACGCGTCTAAAAATCAAAAAGAAGAAAAGTAGTGTATTGATAAAGCAAAAATGCAAC
AAAGGACGCATCAATTATTTAAAG
>g9936.t13 Gene=g9936 Length=48
MAKEIGSVKYLECSALTQKGLKTVFDEAIRAVLCPIVQPKKKNKCTLL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g9936.t13 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 37 | 0.0e+00 |
| 2 | g9936.t13 | PANTHER | PTHR24072 | RHO FAMILY GTPASE | 1 | 48 | 0.0e+00 |
| 3 | g9936.t13 | PANTHER | PTHR24072:SF350 | RAC FAMILY SMALL GTPASE 1 | 1 | 48 | 0.0e+00 |
| 1 | g9936.t13 | Pfam | PF00071 | Ras family | 1 | 33 | 1.2e-04 |
| 4 | g9936.t13 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 1 | 38 | 4.3e-06 |
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:0005525 | GTP binding | MF |
| GO:0003924 | GTPase 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.
