General information for g359.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Ras-related protein Rac1.
Parent gene
- The parent gene g359 is located on chr_3: 2907165..2909583 (- 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 | g359 | g359.t2 | isoform | g359.t2 | 2905670 | 2909583 |
| chr_3 | g359 | g359.t2 | exon | g359.t2.exon1 | 2905670 | 2906591 |
| chr_3 | g359 | g359.t2 | TTS | g359.t2 | 2905692 | 2905692 |
| chr_3 | g359 | g359.t2 | exon | g359.t2.exon2 | 2907011 | 2907257 |
| chr_3 | g359 | g359.t2 | exon | g359.t2.exon3 | 2907317 | 2907384 |
| chr_3 | g359 | g359.t2 | cds | g359.t2.CDS1 | 2907360 | 2907384 |
| chr_3 | g359 | g359.t2 | exon | g359.t2.exon4 | 2908781 | 2908945 |
| chr_3 | g359 | g359.t2 | cds | g359.t2.CDS2 | 2908781 | 2908945 |
| chr_3 | g359 | g359.t2 | exon | g359.t2.exon5 | 2909009 | 2909082 |
| chr_3 | g359 | g359.t2 | cds | g359.t2.CDS3 | 2909009 | 2909082 |
| chr_3 | g359 | g359.t2 | exon | g359.t2.exon6 | 2909268 | 2909342 |
| chr_3 | g359 | g359.t2 | cds | g359.t2.CDS4 | 2909268 | 2909342 |
| chr_3 | g359 | g359.t2 | exon | g359.t2.exon7 | 2909400 | 2909464 |
| chr_3 | g359 | g359.t2 | cds | g359.t2.CDS5 | 2909400 | 2909464 |
| chr_3 | g359 | g359.t2 | exon | g359.t2.exon8 | 2909538 | 2909583 |
| chr_3 | g359 | g359.t2 | cds | g359.t2.CDS6 | 2909538 | 2909583 |
| chr_3 | g359 | g359.t2 | TSS | g359.t2 | 2909682 | 2909682 |
Sequences
>g359.t2 Gene=g359 Length=1662
ATGTCTGGTAGGCCCATAAAATGTGTAGTTGTTGGTGATGGAACAGTTGGAAAAACATGC
ATGCTAATATCACTGACAACTGATAGTTTTCCATCAGAATATGTGCCGACAGTATTTGAC
AATTATTCTTTCCCAGTAGTTGTAGACGGAATTCAAGTGAGCATAGGTTTATGGGGTAAA
AATGACAAAGATTATGACAGATTGCGTCCATTATCGTATCCACAAACAGACGTTTTCCTC
ATTTGTTTCTCAGTTGCAAGCCCTTCCTCATTTGAGAATGTAACATCAAAATGGTATCCG
GAATTAAAACACCATTGTCCAGAGGCACCAATTATTCTTGTTGGCACTAAAATAGATTTA
AGAGATGATAGAGAGACGCTAAGTGCATTAGCTGAGCAGGGATTGTCACCTTGTAAAAGA
GGTAAAACAAGGACAAAAGTTAGCAAATAAAATACGAGCTGTTAAATATATGGAATGCTC
TGCATTGACTCAAAGAGGATTAAAGCAAGTATTTGACGAAGCAGTTCGTGCTGTTTTAAG
ACCAGAACCAATTAAAAGAAGACAAAGAAAATGCATTGTTATGTAAACAGAAGACAGCAA
AAAAAAATTTTTTTATACTCATAAAGTCAAGAAAAAAAAATCATCACAAATTGAATACTC
AAAAATCATACATAAAAAAGCATTTAACAACCAAAAAATTATGAATCTCCATTTATCTTC
TACTGACAGTTTCGAATATTCATCATTTTTCTATCTCTTTCGACAAACCCAGAACAATAA
TTAACTATACACATAGGTAGCTTTTTATAAATAACAAAACAATCCTCCTGAAAGAAAAGT
AGAGTGATAAAAAAGATGGAATTTTTTGAAGACATTTTTTATTATTTTTTATATAGTCAG
CAATAAGTCATAAGTGAGTTAATTATTAACAATCTTTTTTCATTTTTATATTACCATCAA
CTGATGCCATAAGCCATTGAATTTAAAAATCAAAATGCATTTTTATATTGAATCTTGTTT
TTATCTATGAAGCTCAATTGGAAGGAAATTTTTACAATTTTTTTCCTTCATTCATGCTTT
CTCGCTATATGCAATTTATTACTCATAATTAAATCTAATCAACTATCATTAATTTAGCTT
AATAATTTAAAATTTTCTTTCAATTTTTTTTTTTGTTTGATTTTTTCTTTATAAAATTTG
TTTTTTTTTTGTCGCTTAGAAGAAGGAAAAACTTCGCATATCGTCATAAAAGGCCATAAC
TAGGAATTTTATTCATTAGATAAGCAAAAAATTGTATAAAAAAATATTCTGACTCATAAG
TTTTTAAAAGAAAGAAGATTTAGAAAAATATTTAAATGAACATGAATGTAAAGAAATTTT
TAAAAAATTCAAAAAACTTTGATTTTTGAAAATGATTTCTTTTTTGATCTCTGTAAAATA
AAAATTTGACTTAAAATTCAAGAAATGACATTTGAAAACTGAGATTTGAAAATAAGTTTG
AAGAATTTTTAAAATTGTCTTTTTATAGAATTTAAAAATTTTGGAAGTTTTCCAAAAAAA
ATTTCATCTTTAAGCTATAAACAAATTTTCAAAATTTTTGAATTTTTTGAAATTTTTTGA
AAAATTTAGTTCCAAATTCCAAAAAAAAATTAAAATTTTACA
>g359.t2 Gene=g359 Length=149
MSGRPIKCVVVGDGTVGKTCMLISLTTDSFPSEYVPTVFDNYSFPVVVDGIQVSIGLWGK
NDKDYDRLRPLSYPQTDVFLICFSVASPSSFENVTSKWYPELKHHCPEAPIILVGTKIDL
RDDRETLSALAEQGLSPCKRGKTRTKVSK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g359.t2 | CDD | cd00157 | Rho | 6 | 133 | 0.0000000 |
| 9 | g359.t2 | Gene3D | G3DSA:3.40.50.300 | - | 3 | 149 | 0.0000000 |
| 2 | g359.t2 | PANTHER | PTHR24072:SF291 | - | 5 | 139 | 0.0000000 |
| 3 | g359.t2 | PANTHER | PTHR24072 | RHO FAMILY GTPASE | 5 | 139 | 0.0000000 |
| 5 | g359.t2 | PRINTS | PR00449 | Transforming protein P21 ras signature | 6 | 27 | 0.0000000 |
| 4 | g359.t2 | PRINTS | PR00449 | Transforming protein P21 ras signature | 29 | 45 | 0.0000000 |
| 6 | g359.t2 | PRINTS | PR00449 | Transforming protein P21 ras signature | 46 | 68 | 0.0000000 |
| 7 | g359.t2 | PRINTS | PR00449 | Transforming protein P21 ras signature | 107 | 120 | 0.0000000 |
| 1 | g359.t2 | Pfam | PF00071 | Ras family | 7 | 127 | 0.0000000 |
| 15 | g359.t2 | ProSiteProfiles | PS51420 | small GTPase Rho family profile. | 1 | 149 | 19.5370000 |
| 11 | g359.t2 | SMART | SM00173 | ras_sub_4 | 3 | 149 | 0.0000012 |
| 12 | g359.t2 | SMART | SM00175 | rab_sub_5 | 6 | 144 | 0.0000001 |
| 13 | g359.t2 | SMART | SM00174 | rho_sub_3 | 8 | 149 | 0.0000000 |
| 8 | g359.t2 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 5 | 127 | 0.0000000 |
| 14 | g359.t2 | TIGRFAM | TIGR00231 | small_GTP: small GTP-binding protein domain | 5 | 126 | 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:0007264 | small GTPase mediated signal transduction | BP |
| 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.
