General information for g11196.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Ras-related GTP-binding protein A.
Parent gene
- The parent gene g11196 is located on chr_1: 14514433..14515563 (+ 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 | g11196 | g11196.t1 | TSS | g11196.t1 | 14514040 | 14514040 |
| chr_1 | g11196 | g11196.t1 | isoform | g11196.t1 | 14514169 | 14515259 |
| chr_1 | g11196 | g11196.t1 | exon | g11196.t1.exon1 | 14514169 | 14514180 |
| chr_1 | g11196 | g11196.t1 | cds | g11196.t1.CDS1 | 14514169 | 14514180 |
| chr_1 | g11196 | g11196.t1 | exon | g11196.t1.exon2 | 14514262 | 14514364 |
| chr_1 | g11196 | g11196.t1 | cds | g11196.t1.CDS2 | 14514262 | 14514364 |
| chr_1 | g11196 | g11196.t1 | exon | g11196.t1.exon3 | 14514433 | 14515259 |
| chr_1 | g11196 | g11196.t1 | cds | g11196.t1.CDS3 | 14514433 | 14515259 |
| chr_1 | g11196 | g11196.t1 | TTS | g11196.t1 | 14515556 | 14515556 |
Sequences
>g11196.t1 Gene=g11196 Length=942
ATGAAGAAGAAGGTACTTTTGATGGGTAAAAGTGGCAGTGGGAAGACCAGTATGCGATCT
ATAATATTTGCAAATTATATTGCACGTGATACAAGGAGATTAGGAGCAACTATAGATGTT
GAACATAGTCATGTCAGATTTCTAGGTAATCTGGTGCTTAATCTCTGGGATTGTGGTGGT
CAAGAATCTTATTTCGATCAATATTTTCAATCACAAAAAGAAAACATCTTTAGAAATGTC
GAAGTACTAATTTATGTGTTTGACGTTGAGAGCAGAGAGTTTGACAAAGATATGCACTAT
TATCAAAGTTGTCTAGAAGCCATTCTTAATTATTCACCAGAAGCCAAAATCTTTTGTCTA
ATTCACAAAATGGATTTAATTGTGGAAGATCAGCGAGATTCCATTTTCAAAACACGTCAA
GAAGATTTAAAAAAGCTGAGCTTACCATTAGAATGCAAAGCTTTTCGGACATCAATTTGG
GATGAAACATTATACAGAGCATGGAGTAGCATCGTTTATCAACTTATTCCTAATGTAAAA
GCCCTTGAAAGTTCACTGCACCAGTTTGCTACAATCTTAGATGCTGACGAGGTTTTATTG
TTCGAGAGAGCAACGTTCTTAGTAATATCACATTGTCAACTAAGACAGCACTCTGATTCA
CATCGTTTTGAAAAAGTATCAAATATAATTAAACAATTTAAACTAAGTTGTGCCAAACTA
GGTGCAAAATTTCAATCAATGGAAGTTCGAAATAGCAAATTTGCGGCCTTTATAGACACC
TTTACAAGCAACACATACATTATGGTGGTTTCATCTGCTGACCCAGAAACACCATCTGAA
TCAACTCTAATCAATATAAGAAATGCAAGAAAATACTTTGAAGAATTAGAAAACCCATTA
AATAACTCAATTTCTTCATACCATTCGATGAACTACAACTGA
>g11196.t1 Gene=g11196 Length=313
MKKKVLLMGKSGSGKTSMRSIIFANYIARDTRRLGATIDVEHSHVRFLGNLVLNLWDCGG
QESYFDQYFQSQKENIFRNVEVLIYVFDVESREFDKDMHYYQSCLEAILNYSPEAKIFCL
IHKMDLIVEDQRDSIFKTRQEDLKKLSLPLECKAFRTSIWDETLYRAWSSIVYQLIPNVK
ALESSLHQFATILDADEVLLFERATFLVISHCQLRQHSDSHRFEKVSNIIKQFKLSCAKL
GAKFQSMEVRNSKFAAFIDTFTSNTYIMVVSSADPETPSESTLINIRNARKYFEELENPL
NNSISSYHSMNYN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g11196.t1 | CDD | cd11384 | RagA_like | 4 | 288 | 0 |
| 5 | g11196.t1 | Gene3D | G3DSA:3.40.50.300 | - | 1 | 179 | 0 |
| 6 | g11196.t1 | Gene3D | G3DSA:3.30.450.190 | - | 180 | 294 | 0 |
| 2 | g11196.t1 | PANTHER | PTHR11259 | RAS-RELATED GTP BINDING RAG/GTR YEAST | 1 | 298 | 0 |
| 3 | g11196.t1 | PANTHER | PTHR11259:SF7 | RAS-RELATED GTP-BINDING PROTEIN A | 1 | 298 | 0 |
| 1 | g11196.t1 | Pfam | PF04670 | Gtr1/RagA G protein conserved region | 4 | 230 | 0 |
| 4 | g11196.t1 | SUPERFAMILY | SSF52540 | P-loop containing nucleoside triphosphate hydrolases | 3 | 180 | 0 |
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 |
KEGG
Orthology
- This transcript has been annotated with K16185 (Ras-related GTP-binding protein A/B)
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.
