General information for g1930.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Ras-related GTP-binding protein D.
Parent gene
- The parent gene g1930 is located on chr_3: 13954488..13955691 (- 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 | g1930 | g1930.t3 | TTS | g1930.t3 | 13954367 | 13954367 |
| chr_3 | g1930 | g1930.t3 | isoform | g1930.t3 | 13954488 | 13955691 |
| chr_3 | g1930 | g1930.t3 | exon | g1930.t3.exon1 | 13954488 | 13955234 |
| chr_3 | g1930 | g1930.t3 | cds | g1930.t3.CDS1 | 13954488 | 13954832 |
| chr_3 | g1930 | g1930.t3 | exon | g1930.t3.exon2 | 13955294 | 13955691 |
| chr_3 | g1930 | g1930.t3 | TSS | g1930.t3 | 13955886 | 13955886 |
Sequences
>g1930.t3 Gene=g1930 Length=1145
ATGTCTAGTTTTAATGAAAATGAAGAGGAAGATGATAACTTTTTTAATAATGATGAATAT
GTTAAACCAAAAATATTACTCTTTGGTTTGCGAAGAAGTGGAAAGAGCTCAATTCAAAAA
GTAGTTTTTCACAAGATGAGTCCAAATGAAACCCTTTTTCTTGAATCTACAAATAAGGTT
TGTTAATAATTTTTGTAAAAATCAAGATCAGATAATTAAAAATTTACATTAAATAGATTG
TTAAAGAAGATATCAACAACTCAAGCTTTGTGCAATTTGAGATTTGGGATTTTCCTGGTC
AAATAGATTTCTTTGATCCTACATTCGATAGTGAACTCATTTTTGGAGACTGTGGAGCAT
TAGTATTTGTGATCGATGCACAAGACGATTATCTAGAGGCTCTTTCAAAACTTAATCAAA
CAGTCACAAAGGCATATAAAGTGAATCCTAGAATTAAATTTGAAGTTTTTATTCATAAAG
TTGATGGTGTGTCTGATGATTTCAAAATTGAATCACAACGTGACATTCATCAAAGAGCTA
CAGATGACTTACAAGATGCTGGTTTAGATATTCATTTAAGCTTTCACCTCACATCTATAT
ATGATCATTCTATATTTGAAGCATTTAGTAAAGTTGTTCAGAAGTTGATTTCGCAATTAC
CAACACTTGAAAATCTCCTTAACATTTTGATTACTAATTCTGGAATTGAAAAGGCCTTTT
TGTTTGATGTTGTATCTAAAATTTATATTGCTACTGATTCTGCACCTGTTGATATGCAAA
CCTATGAACTCTGTTGCGATATGATCGATGTGGTTATTGATCTAAGTGACATTTATGGTG
TATCAGCTGAAGAGAGAGCAAACCAAGAGCAAACAGCGTTTGATAATCTAAGTTCATCAC
TTATCAAGCTTAATAATTCAACAATTCTTTATCTCAAGGAAGTTAACAAATTTTTGGCTC
TTGTATGCATACTTCGCGAAGAAAATTTTACTCGACAAGGTGTAATTGATTATAATTTTC
TTATTTTTCGTGAATCGATTGGTCGTGTTTTTGAGTTGAGATCGAAGAAATTAAAAAGTA
ACAATGATGATTTAAGTGAAGATTATAATTATCAACAACCATCATCTGTTACTGATTCTG
TTTAA
>g1930.t3 Gene=g1930 Length=114
MIDVVIDLSDIYGVSAEERANQEQTAFDNLSSSLIKLNNSTILYLKEVNKFLALVCILRE
ENFTRQGVIDYNFLIFRESIGRVFELRSKKLKSNNDDLSEDYNYQQPSSVTDSV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g1930.t3 | Gene3D | G3DSA:3.30.450.190 | - | 1 | 83 | 0 |
| 1 | g1930.t3 | PANTHER | PTHR11259:SF5 | RAS-RELATED GTP-BINDING PROTEIN D | 1 | 96 | 0 |
| 2 | g1930.t3 | PANTHER | PTHR11259 | RAS-RELATED GTP BINDING RAG/GTR YEAST | 1 | 96 | 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 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.
