General information for g4021.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g4021 is located on chr_3: 29555501..29555961 (- 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 | g4021 | g4021.t1 | isoform | g4021.t1 | 29555501 | 29555961 |
| chr_3 | g4021 | g4021.t1 | exon | g4021.t1.exon1 | 29555501 | 29555661 |
| chr_3 | g4021 | g4021.t1 | cds | g4021.t1.CDS1 | 29555501 | 29555661 |
| chr_3 | g4021 | g4021.t1 | exon | g4021.t1.exon2 | 29555711 | 29555805 |
| chr_3 | g4021 | g4021.t1 | cds | g4021.t1.CDS2 | 29555711 | 29555805 |
| chr_3 | g4021 | g4021.t1 | exon | g4021.t1.exon3 | 29555867 | 29555961 |
| chr_3 | g4021 | g4021.t1 | cds | g4021.t1.CDS3 | 29555867 | 29555961 |
| chr_3 | g4021 | g4021.t1 | TSS | g4021.t1 | NA | NA |
| chr_3 | g4021 | g4021.t1 | TTS | g4021.t1 | NA | NA |
Sequences
>g4021.t1 Gene=g4021 Length=351
ATGACACAAATGATGAAGCTTGAAGACGATGTATTAGAAGAATATGTTATTAATCAATTA
GAAGAGATGAAAATTCCTGATCCAAAAAAGATACAAATTTATTTGACCGGCTTCTTAGGC
AGTAAAAATGCGAAAATATTTGTTGAACAATTATGGGAATTGCTGCTTTCAGCACAAGAA
TCTGATATAGAGAACGGAAACGTTTCAAAAAGTCCATATTATCTTCAAAGAAGTTCATCC
AGAGAACGTGATAGAGCTGAACGAGAAGAGAAAGAAAAGATTCCAGAGAAAAAAACAGTT
CCAGAAGAAGCAATTAAGAAAGCTAATGAAATAAAAAGCGAACTCAATTGA
>g4021.t1 Gene=g4021 Length=116
MTQMMKLEDDVLEEYVINQLEEMKIPDPKKIQIYLTGFLGSKNAKIFVEQLWELLLSAQE
SDIENGNVSKSPYYLQRSSSRERDRAEREEKEKIPEKKTVPEEAIKKANEIKSELN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g4021.t1 | Gene3D | G3DSA:1.20.1390.10 | PWI domain | 1 | 72 | 6.5E-20 |
| 7 | g4021.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 67 | 116 | - |
| 6 | g4021.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 77 | 116 | - |
| 2 | g4021.t1 | PANTHER | PTHR23148 | SERINE/ARGININE REGULATED NUCLEAR MATRIX PROTEIN | 1 | 94 | 1.2E-18 |
| 3 | g4021.t1 | PANTHER | PTHR23148:SF0 | SERINE/ARGININE REPETITIVE MATRIX PROTEIN 1 | 1 | 94 | 1.2E-18 |
| 1 | g4021.t1 | Pfam | PF01480 | PWI domain | 2 | 61 | 6.7E-21 |
| 9 | g4021.t1 | ProSiteProfiles | PS51025 | PWI domain profile. | 1 | 69 | 21.961 |
| 5 | g4021.t1 | SMART | SM00311 | pwi_2 | 1 | 61 | 1.9E-7 |
| 4 | g4021.t1 | SUPERFAMILY | SSF101233 | PWI domain | 2 | 62 | 1.7E-19 |
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:0006397 | mRNA processing | BP |
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