General information for g3523.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g3523 is located on chr_3: 26191919..26194159 (+ 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 | g3523 | g3523.t6 | isoform | g3523.t6 | 26191109 | 26191919 |
| chr_3 | g3523 | g3523.t6 | exon | g3523.t6.exon1 | 26191109 | 26191919 |
| chr_3 | g3523 | g3523.t6 | cds | g3523.t6.CDS1 | 26191131 | 26191919 |
| chr_3 | g3523 | g3523.t6 | TTS | g3523.t6 | 26192027 | 26192027 |
| chr_3 | g3523 | g3523.t6 | TSS | g3523.t6 | NA | NA |
Sequences
>g3523.t6 Gene=g3523 Length=811
AAAACGTGTACGAAAAGAATATATGGGAAAGACTTATGGCATTACAGAATATGAAGATCA
CATCGATTTCCTAGAACAGCTTGCAAAAAAAACCGGAAAATTGCTTAAAGGTGGTGAACC
TGATGTCACTGCCGCTGCAAAAATGATTCTTAATGACTGGCAAAGAGGTAAATTACCGTT
TTATGTTGCACCAGAAGGATTTGAAGTGCCAAAATCAAAAGAACCAGCAACTATTGAGAA
GACGACAGAAGAGAACAAAAATGTAACAATTCCTGAAGATGATGAAACAAAGAGTATTGC
AACTGCAGTTTCTGAATCCGTTTTAAAAGGTCGTGCACTTAAGCAGTTACAAGATTATCG
CAAAATTCGTGTTAATCTCGAATTTGAAGCAGAAGATGAAAAAGAGTTGGATTTGGATGA
AATTCGAGAATATGAAGAATACAAAAGACTTCAATCTGAAAAGAAGAAAAAACGTAAATT
TGACAATGATGATGGAGAAGATTCATCAGACATCAGTGATTTTTACTCAGAGGATGAATA
TGATGAAGAAAAAGGACGTGTTGTTCATAGAAGTGCAGGCACTAAAATTAAAACAAAACC
TGATACTAAGAAACAGAAAACAACAAGTGGATTTTTCGATGTAGAAGATGTCAATGTAAC
TACTAAGAAGATTACTACACCGAAAAAATTAACAGCTAAACAGAGAAGAGCTATTGAGAG
AAAAGAGAAGCCAAAAAAAGTTGGAAGCAATTTCTACGATGTTGTCAATGTAAAAAACAA
AACGAAAAGCAAGAAATTTCAAGGAAAATAG
>g3523.t6 Gene=g3523 Length=262
MGKTYGITEYEDHIDFLEQLAKKTGKLLKGGEPDVTAAAKMILNDWQRGKLPFYVAPEGF
EVPKSKEPATIEKTTEENKNVTIPEDDETKSIATAVSESVLKGRALKQLQDYRKIRVNLE
FEAEDEKELDLDEIREYEEYKRLQSEKKKKRKFDNDDGEDSSDISDFYSEDEYDEEKGRV
VHRSAGTKIKTKPDTKKQKTTSGFFDVEDVNVTTKKITTPKKLTAKQRRAIERKEKPKKV
GSNFYDVVNVKNKTKSKKFQGK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g3523.t6 | Gene3D | G3DSA:1.10.1580.10 | - | 1 | 55 | 1.5E-12 |
| 3 | g3523.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 144 | 158 | - |
| 4 | g3523.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 144 | 179 | - |
| 1 | g3523.t6 | PANTHER | PTHR11089 | GTP-BINDING PROTEIN-RELATED | 2 | 260 | 1.1E-37 |
| 2 | g3523.t6 | PANTHER | PTHR11089:SF9 | NUCLEOLAR GTP-BINDING PROTEIN 2 | 2 | 260 | 1.1E-37 |
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:0005730 | nucleolus | CC |
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.
