General information for g14235.t21
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Ras-related protein Rab-10.
Parent gene
- The parent gene g14235 is located on chr_1: 35699630..35701706 (+ 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 | g14235 | g14235.t21 | TSS | g14235.t21 | 35698312 | 35698312 |
| chr_1 | g14235 | g14235.t21 | isoform | g14235.t21 | 35698574 | 35699830 |
| chr_1 | g14235 | g14235.t21 | exon | g14235.t21.exon1 | 35698574 | 35698644 |
| chr_1 | g14235 | g14235.t21 | exon | g14235.t21.exon2 | 35699139 | 35699191 |
| chr_1 | g14235 | g14235.t21 | exon | g14235.t21.exon3 | 35699340 | 35699564 |
| chr_1 | g14235 | g14235.t21 | cds | g14235.t21.CDS1 | 35699394 | 35699564 |
| chr_1 | g14235 | g14235.t21 | exon | g14235.t21.exon4 | 35699630 | 35699830 |
| chr_1 | g14235 | g14235.t21 | cds | g14235.t21.CDS2 | 35699630 | 35699830 |
| chr_1 | g14235 | g14235.t21 | TTS | g14235.t21 | 35699972 | 35699972 |
Sequences
>g14235.t21 Gene=g14235 Length=550
TGTCGGAAAAACTTGCATTCTGTTTAGATTCAGTGATGATGCATTTACATCAACGTTTAT
ATCTACCATAGGAATTGATTTCAAAATCAAAACAGTCGAGTTAAGAGGAAAGAAAATCAA
GTATACCGCTGGTCAAGAAAGATTTCACACAATCACAACCTCTTATTATCGTGGAGCTAT
GGGTATTATGTTGGTGTATGACATAACAAATGAAAAGAGTTTTGAGAATATAATAAAGTG
GCTTCGGAATATTGATGAACATGCTAATGAAGATGTTGAACGAATGATTCTTGGCAATAA
ATGTGATATGACTGATAAACGAGTTGTCAGTAAAGAACGTGGTGAAAATATTGCTCGCGA
ATATGGAATTCGCTTCATGGAAACATCAGCCAAAGCAAACATTAATATTGAAAAAGCATT
TAGCGAACTTGCAGAAGCAATTCTAGATCAAACAGCTGGAAAAGAAAATAATGATAATCA
AGAGCGCGTTGTTGTAGATCGAAAAAATCAAGAAAAATCACCGGCTTACAGTAGATGTTG
TACATCTTAA
>g14235.t21 Gene=g14235 Length=123
MGIMLVYDITNEKSFENIIKWLRNIDEHANEDVERMILGNKCDMTDKRVVSKERGENIAR
EYGIRFMETSAKANINIEKAFSELAEAILDQTAGKENNDNQERVVVDRKNQEKSPAYSRC
CTS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g14235.t21 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 121 | 0.0000000 |
| 2 | g14235.t21 | PANTHER | PTHR47980 | LD44762P | 1 | 112 | 0.0000000 |
| 3 | g14235.t21 | PANTHER | PTHR47980:SF36 | RAS-RELATED PROTEIN RAB-10 | 1 | 112 | 0.0000000 |
| 5 | g14235.t21 | PRINTS | PR00449 | Transforming protein P21 ras signature | 31 | 44 | 0.0000000 |
| 4 | g14235.t21 | PRINTS | PR00449 | Transforming protein P21 ras signature | 66 | 88 | 0.0000000 |
| 1 | g14235.t21 | Pfam | PF00071 | Ras family | 2 | 89 | 0.0000000 |
| 11 | g14235.t21 | ProSiteProfiles | PS51419 | small GTPase Rab1 family profile. | 1 | 121 | 18.7160000 |
| 7 | g14235.t21 | SMART | SM00173 | ras_sub_4 | 1 | 91 | 0.0000081 |
| 8 | g14235.t21 | SMART | SM00175 | rab_sub_5 | 1 | 91 | 0.0000000 |
| 9 | g14235.t21 | SMART | SM00174 | rho_sub_3 | 1 | 91 | 0.0041000 |
| 6 | g14235.t21 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 2 | 102 | 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: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. There were no conditions that were differentially expressed