General information for g2211.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Nedd8-activating enzyme E1 catalytic subunit.
Parent gene
- The parent gene g2211 is located on chr_3: 16025800..16026718 (- 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 | g2211 | g2211.t4 | TTS | g2211.t4 | 16025230 | 16025230 |
| chr_3 | g2211 | g2211.t4 | isoform | g2211.t4 | 16025279 | 16026718 |
| chr_3 | g2211 | g2211.t4 | exon | g2211.t4.exon1 | 16025279 | 16025739 |
| chr_3 | g2211 | g2211.t4 | cds | g2211.t4.CDS1 | 16025279 | 16025739 |
| chr_3 | g2211 | g2211.t4 | exon | g2211.t4.exon2 | 16025800 | 16026525 |
| chr_3 | g2211 | g2211.t4 | cds | g2211.t4.CDS2 | 16025800 | 16026484 |
| chr_3 | g2211 | g2211.t4 | exon | g2211.t4.exon3 | 16026573 | 16026718 |
| chr_3 | g2211 | g2211.t4 | TSS | g2211.t4 | 16026776 | 16026776 |
Sequences
>g2211.t4 Gene=g2211 Length=1333
ATGGTTGAAACAGATTTAAGCAAGAAATGGAATTATTTAAGGAAAATATTAGAGCGTTCC
GGTCCATTTGACACTGAAGCTTTTACGCCATCGTCAGATACTCTAGATTTTCTTCATAAT
ACTTGCAAAATTTTAGTCATTGGTAAGTGCCGGTGGATTGGGTTGTGAATTGCTTAAAGA
TCTAGCAATGATGGGATTCAAAAATATTGATGTCATTGATATGGATACAATTGAACTCTC
AAATTTGAATCGACAATTTTTGTTTAGAAGAAAAGACATTGGAAAATCAAAAGCAGAAAC
TGCTGCAGAATTTATTAACAAAAGAATTCCAGGAACAAAAGTTACACCGCACTTTTGTAA
AATTCAAGACTATGATGAGTCATTTTATAGACAATTCCATATAGTTGTGAGCGGTTTAGA
TTCTATCGTAGCACGTCGATGGATCAATGGAATGCTAATTTCTCTTGTAAGGCTTGAAGA
AGATGGCACAGTTGATCAGTCATCTGTTATTCCTATGATTGATGGAGGAACTGAAGGATT
CAAAGGAAATGCTCGAGTAATTTTTCCTACTCTCAATGCTTGTATTGATTGCAATCTTGA
TCTCTTTCCACCTCAAATTTCATATCCTCTTTGTACTATTGCTAATACTCCTCGCTTACC
AGAGCATTGCATTGAATATGTTAAAATAATTCAATGGGACAAAGAAAATCCATTTAAATG
TGCTCTTGATGGAGATGACCCTGAACATGTGAGTTGGGTATATGAAAAAGCTCAAGAGCG
TGCAAATATTTATAATATCACTGGCCTCTCCTATCGTTTGGTTCAAGGAGTACTCAAGAA
TATTATTCCTGCTGTATCATCAACTAATGCCGTAATTGCTGCCGTTTGTGCAACTGAAGT
TTTTAAAATCGCAACCAGTTGTTATGAGGCATTAAACAATTACTTTGTCTTTAATGATAT
TGATGGAATTTACACTTATAAGTTCGAAGCAGAAAAGAATCCTAAATGCTTAGCATGCAG
TACTGTTCCACGAATGATTTCAATTAATAATCCAAGTTCCATGACATTACAAGATCTTAT
TGATTATTTGTGTACAAATGTTGAGTTTCAAATGAAAAGTCCTGGTATTACAACTATGAT
TAATGGGAAAAACAAAACTTTGTACATGTCAACTGTTAAGAGCATTGAAGAGCAGACTCG
ATCAAATCTTACTCTTTCTCTTCATGAGCTCAATTTGAGTGATGGACAAGAGCTTATTAT
TGCTGATGCTACTAACCCTAATTCAATCGTTGTTAAACTTAAGTTTACTGACAATGAAGT
CGAAATGTACTGA
>g2211.t4 Gene=g2211 Length=381
MMGFKNIDVIDMDTIELSNLNRQFLFRRKDIGKSKAETAAEFINKRIPGTKVTPHFCKIQ
DYDESFYRQFHIVVSGLDSIVARRWINGMLISLVRLEEDGTVDQSSVIPMIDGGTEGFKG
NARVIFPTLNACIDCNLDLFPPQISYPLCTIANTPRLPEHCIEYVKIIQWDKENPFKCAL
DGDDPEHVSWVYEKAQERANIYNITGLSYRLVQGVLKNIIPAVSSTNAVIAAVCATEVFK
IATSCYEALNNYFVFNDIDGIYTYKFEAEKNPKCLACSTVPRMISINNPSSMTLQDLIDY
LCTNVEFQMKSPGITTMINGKNKTLYMSTVKSIEEQTRSNLTLSLHELNLSDGQELIIAD
ATNPNSIVVKLKFTDNEVEMY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g2211.t4 | CDD | cd01488 | Uba3_RUB | 1 | 278 | 0.0 |
| 8 | g2211.t4 | Gene3D | G3DSA:3.40.50.720 | - | 1 | 267 | 1.2E-127 |
| 9 | g2211.t4 | Gene3D | G3DSA:1.10.10.520 | Ubiquitin activating enzymes (Uba3). Chain: B | 145 | 219 | 1.2E-127 |
| 10 | g2211.t4 | Gene3D | G3DSA:3.10.290.20 | - | 276 | 375 | 5.7E-37 |
| 3 | g2211.t4 | PANTHER | PTHR10953 | UBIQUITIN-ACTIVATING ENZYME E1 | 1 | 360 | 3.7E-130 |
| 4 | g2211.t4 | PANTHER | PTHR10953:SF6 | NEDD8-ACTIVATING ENZYME E1 CATALYTIC SUBUNIT | 1 | 360 | 3.7E-130 |
| 2 | g2211.t4 | Pfam | PF00899 | ThiF family | 1 | 276 | 3.4E-51 |
| 1 | g2211.t4 | Pfam | PF08825 | E2 binding domain | 290 | 373 | 1.5E-24 |
| 7 | g2211.t4 | ProSitePatterns | PS00865 | Ubiquitin-activating enzyme active site. | 147 | 155 | - |
| 6 | g2211.t4 | SMART | SM01181 | E2_bind_2 | 286 | 374 | 8.5E-42 |
| 5 | g2211.t4 | SUPERFAMILY | SSF69572 | Activating enzymes of the ubiquitin-like proteins | 1 | 367 | 4.81E-102 |
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 |
| GO:0045116 | protein neddylation | BP |
| GO:0019781 | NEDD8 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.
