General information for g3898.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Ubiquitin-like modifier-activating enzyme 1.
Parent gene
- The parent gene g3898 is located on chr_3: 28704954..28706269 (+ 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 | g3898 | g3898.t6 | isoform | g3898.t6 | 28704954 | 28705915 |
| chr_3 | g3898 | g3898.t6 | exon | g3898.t6.exon1 | 28704954 | 28704956 |
| chr_3 | g3898 | g3898.t6 | exon | g3898.t6.exon2 | 28705014 | 28705277 |
| chr_3 | g3898 | g3898.t6 | cds | g3898.t6.CDS1 | 28705206 | 28705277 |
| chr_3 | g3898 | g3898.t6 | exon | g3898.t6.exon3 | 28705342 | 28705439 |
| chr_3 | g3898 | g3898.t6 | cds | g3898.t6.CDS2 | 28705342 | 28705439 |
| chr_3 | g3898 | g3898.t6 | exon | g3898.t6.exon4 | 28705498 | 28705915 |
| chr_3 | g3898 | g3898.t6 | cds | g3898.t6.CDS3 | 28705498 | 28705915 |
| chr_3 | g3898 | g3898.t6 | TTS | g3898.t6 | 28706435 | 28706435 |
| chr_3 | g3898 | g3898.t6 | TSS | g3898.t6 | NA | NA |
Sequences
>g3898.t6 Gene=g3898 Length=783
GACGTTCCTGTTTTTACTCCTAAATCAGGTGTAAAAATTGCAGAAAATGATGCTGCATTA
CAAGCGCAGCAAGATAACAACTCATTCGATCAATATCGTGTTGATAACATTGTCGAAGAA
TTAAAATCACTGGGAAAACCGAACTTTTCTATTACGCCACTTGAGTTCGAAAAAGACGAT
GATTCTAATTTTCATATGGATTTTATTGTTGCTGCATCAAATCTTCGTGCCGCTAATTAT
AGTATTCCACCGGCTGACAAGCATAAGTCGAAGCTTATTGCAGGAAAAATTATTCCAGCT
ATTGCAACAACAACGTCTCTTGTCTCAGGATGTGTTTCTTTAGAGTTGATTAAATTGACT
CAAGATTTTAAGAAGCTTGATCGTTACAAGAACGGATTTATTAATATCGCATTACCATTA
GTTGCATTTACTGATCCCATTCATGCAAAAGAGCAAGAATATAATGGCAACAAATGGACT
TTATGGGATCGTTTTGAAGTTAAAGGTGAAATGACACTGCAAGAATTCCTCGATTATTTC
TTAAACGTACATAAGCTGGAAATAACAATGTTATCTCAAGGTGTGGGAATGCTTTATTCA
TTTTTTCAACCAAAGGCAAAACGTGACGAAAGAATGCCTTTAAAAATGACTGAAATTGTC
CGTCAAGTAACAAAACGTAAGATTGCTCCACACGAACGAGCTTTGGTATTTGAAATTTGC
TGTAATGATGAAACTGGTGAAGACTGTGAGGTCCCTTATGTACGTTACACGTTGCCGCGT
TAA
>g3898.t6 Gene=g3898 Length=195
MDFIVAASNLRAANYSIPPADKHKSKLIAGKIIPAIATTTSLVSGCVSLELIKLTQDFKK
LDRYKNGFINIALPLVAFTDPIHAKEQEYNGNKWTLWDRFEVKGEMTLQEFLDYFLNVHK
LEITMLSQGVGMLYSFFQPKAKRDERMPLKMTEIVRQVTKRKIAPHERALVFEICCNDET
GEDCEVPYVRYTLPR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g3898.t6 | Gene3D | G3DSA:3.40.50.720 | - | 12 | 98 | 0 |
| 8 | g3898.t6 | Gene3D | G3DSA:3.10.290.60 | - | 99 | 193 | 0 |
| 3 | g3898.t6 | PANTHER | PTHR10953:SF195 | UBIQUITIN-LIKE MODIFIER-ACTIVATING ENZYME 1 | 1 | 187 | 0 |
| 4 | g3898.t6 | PANTHER | PTHR10953 | UBIQUITIN-ACTIVATING ENZYME E1 | 1 | 187 | 0 |
| 2 | g3898.t6 | Pfam | PF10585 | Ubiquitin-activating enzyme active site | 1 | 26 | 0 |
| 1 | g3898.t6 | Pfam | PF09358 | Ubiquitin fold domain | 97 | 189 | 0 |
| 6 | g3898.t6 | SMART | SM00985 | UBA_e1_C_a_2 | 64 | 189 | 0 |
| 5 | g3898.t6 | SUPERFAMILY | SSF69572 | Activating enzymes of the ubiquitin-like proteins | 1 | 187 | 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:0008641 | ubiquitin-like modifier activating enzyme 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.
