General information for g3898.t5
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.t5 | isoform | g3898.t5 | 28704217 | 28706269 |
| chr_3 | g3898 | g3898.t5 | exon | g3898.t5.exon1 | 28704217 | 28704581 |
| chr_3 | g3898 | g3898.t5 | cds | g3898.t5.CDS1 | 28704255 | 28704581 |
| chr_3 | g3898 | g3898.t5 | exon | g3898.t5.exon2 | 28704648 | 28704956 |
| chr_3 | g3898 | g3898.t5 | cds | g3898.t5.CDS2 | 28704648 | 28704956 |
| chr_3 | g3898 | g3898.t5 | exon | g3898.t5.exon3 | 28705014 | 28705277 |
| chr_3 | g3898 | g3898.t5 | cds | g3898.t5.CDS3 | 28705014 | 28705277 |
| chr_3 | g3898 | g3898.t5 | exon | g3898.t5.exon4 | 28705342 | 28705439 |
| chr_3 | g3898 | g3898.t5 | cds | g3898.t5.CDS4 | 28705342 | 28705439 |
| chr_3 | g3898 | g3898.t5 | exon | g3898.t5.exon5 | 28705498 | 28706269 |
| chr_3 | g3898 | g3898.t5 | cds | g3898.t5.CDS5 | 28705498 | 28705915 |
| chr_3 | g3898 | g3898.t5 | TTS | g3898.t5 | 28706435 | 28706435 |
| chr_3 | g3898 | g3898.t5 | TSS | g3898.t5 | NA | NA |
Sequences
>g3898.t5 Gene=g3898 Length=1808
TCGCTAATGCTTTAGATAATATTGAAGCTCGCAATTATATGGATCGTCGTTGCGTATATT
ATCGTTTGCCTCTTCTTGAATCTGGGACTTTAGGAACAATGGGAAATGTTCAAGTTGTAG
TGCCGTTCTTAACTGAATCATACAGCTCAAGCCAAGATCCACCGGAAAAAAGTATTCCAA
TCTGTACTCTCAAGAATTTCCCAAATGCCATTGAACATACATTGCAGTGGGCTCGCGATA
TGTTCGAAGGTGTCTTCACTCAATCACCTTTTAATGCATCAGAGTACATTCGTGATATTA
CATTCATTGAACGTACTTTAAAATTGCCTGGAGTTCAGCCTCTTGAAACAATGGAATCGG
TCAAGCGTGCTTTGATCGATGAACGTCCTCAGAATTTTGCTGATTGCGTAAAATGGGCAC
GTTTTCACTTTGAGGAAAACTTTGTAAATCAAATTAAGCAATTGCTATTTAATTTTCCAC
CTGATCAGCAAACATCTACCGGGCAACCTTTTTGGTCAGGTCCAAAACGTTGCCCTGTTC
CTATGGTGTTTAATGCTGACGATGAACTTCATCTTGACTATATTGTAGCTGCAGCTAATT
TGAAAGCTGAGGTATATGGTGTTAGTCAAAATCGTAATCGAAACGAAATTCGTGAATTGG
TTCTTCAAGTTGACGTTCCTGTTTTTACTCCTAAATCAGGTGTAAAAATTGCAGAAAATG
ATGCTGCATTACAAGCGCAGCAAGATAACAACTCATTCGATCAATATCGTGTTGATAACA
TTGTCGAAGAATTAAAATCACTGGGAAAACCGAACTTTTCTATTACGCCACTTGAGTTCG
AAAAAGACGATGATTCTAATTTTCATATGGATTTTATTGTTGCTGCATCAAATCTTCGTG
CCGCTAATTATAGTATTCCACCGGCTGACAAGCATAAGTCGAAGCTTATTGCAGGAAAAA
TTATTCCAGCTATTGCAACAACAACGTCTCTTGTCTCAGGATGTGTTTCTTTAGAGTTGA
TTAAATTGACTCAAGATTTTAAGAAGCTTGATCGTTACAAGAACGGATTTATTAATATCG
CATTACCATTAGTTGCATTTACTGATCCCATTCATGCAAAAGAGCAAGAATATAATGGCA
ACAAATGGACTTTATGGGATCGTTTTGAAGTTAAAGGTGAAATGACACTGCAAGAATTCC
TCGATTATTTCTTAAACGTACATAAGCTGGAAATAACAATGTTATCTCAAGGTGTGGGAA
TGCTTTATTCATTTTTTCAACCAAAGGCAAAACGTGACGAAAGAATGCCTTTAAAAATGA
CTGAAATTGTCCGTCAAGTAACAAAACGTAAGATTGCTCCACACGAACGAGCTTTGGTAT
TTGAAATTTGCTGTAATGATGAAACTGGTGAAGACTGTGAGGTCCCTTATGTACGTTACA
CGTTGCCGCGTTAAAAAGTTTTTACATTTAATTTCAATTTGTCTTGACAACCATTGCTTT
CCTTAAAATATATAAACAATATCAAGCATTCGCATTTACGTAATGTGTTTTACTAACGAA
TATTCAACTCTTAAATCTGTTAAAATGGCTGAGAAGTTTGCGAATGATTGATGACATTAA
TTGATAAAATCAGTTGATACAATTTCTGTTTTAAACTTAACAAATAGCATAACATACACA
TATAAAACGGTAGTAATAATTTTATAAATTACACATTGTAATAGCTGATTTAAAAAAAAC
CTATTACTCAATTGTGAACGATTTTTGTGTATCCATATTTATATATTCAAATATTTTTGT
CAATCTTT
>g3898.t5 Gene=g3898 Length=471
MDRRCVYYRLPLLESGTLGTMGNVQVVVPFLTESYSSSQDPPEKSIPICTLKNFPNAIEH
TLQWARDMFEGVFTQSPFNASEYIRDITFIERTLKLPGVQPLETMESVKRALIDERPQNF
ADCVKWARFHFEENFVNQIKQLLFNFPPDQQTSTGQPFWSGPKRCPVPMVFNADDELHLD
YIVAAANLKAEVYGVSQNRNRNEIRELVLQVDVPVFTPKSGVKIAENDAALQAQQDNNSF
DQYRVDNIVEELKSLGKPNFSITPLEFEKDDDSNFHMDFIVAASNLRAANYSIPPADKHK
SKLIAGKIIPAIATTTSLVSGCVSLELIKLTQDFKKLDRYKNGFINIALPLVAFTDPIHA
KEQEYNGNKWTLWDRFEVKGEMTLQEFLDYFLNVHKLEITMLSQGVGMLYSFFQPKAKRD
ERMPLKMTEIVRQVTKRKIAPHERALVFEICCNDETGEDCEVPYVRYTLPR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g3898.t5 | Gene3D | G3DSA:1.10.10.2660 | - | 34 | 309 | 2.0E-109 |
| 10 | g3898.t5 | Gene3D | G3DSA:3.10.290.60 | - | 375 | 469 | 5.2E-40 |
| 4 | g3898.t5 | PANTHER | PTHR10953:SF195 | UBIQUITIN-LIKE MODIFIER-ACTIVATING ENZYME 1 | 1 | 462 | 1.1E-204 |
| 5 | g3898.t5 | PANTHER | PTHR10953 | UBIQUITIN-ACTIVATING ENZYME E1 | 1 | 462 | 1.1E-204 |
| 2 | g3898.t5 | Pfam | PF00899 | ThiF family | 2 | 363 | 2.0E-16 |
| 3 | g3898.t5 | Pfam | PF10585 | Ubiquitin-activating enzyme active site | 55 | 302 | 3.2E-92 |
| 1 | g3898.t5 | Pfam | PF09358 | Ubiquitin fold domain | 373 | 465 | 8.5E-36 |
| 8 | g3898.t5 | ProSitePatterns | PS00865 | Ubiquitin-activating enzyme active site. | 47 | 55 | - |
| 7 | g3898.t5 | SMART | SM00985 | UBA_e1_C_a_2 | 340 | 465 | 3.5E-70 |
| 6 | g3898.t5 | SUPERFAMILY | SSF69572 | Activating enzymes of the ubiquitin-like proteins | 2 | 358 | 8.54E-79 |
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.
