General information for g2011.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Ubiquitin-protein ligase E3A.
Parent gene
- The parent gene g2011 is located on chr_3: 14386975..14389722 (+ 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 | g2011 | g2011.t4 | TSS | g2011.t4 | 14386707 | 14386707 |
| chr_3 | g2011 | g2011.t4 | isoform | g2011.t4 | 14386775 | 14388003 |
| chr_3 | g2011 | g2011.t4 | exon | g2011.t4.exon1 | 14386775 | 14386882 |
| chr_3 | g2011 | g2011.t4 | exon | g2011.t4.exon2 | 14386975 | 14388003 |
| chr_3 | g2011 | g2011.t4 | cds | g2011.t4.CDS1 | 14386975 | 14388003 |
| chr_3 | g2011 | g2011.t4 | TTS | g2011.t4 | NA | NA |
Sequences
>g2011.t4 Gene=g2011 Length=1137
TAAATGCATTTATTCAAAATCGTTTAGAAATAGAGATAAAAGTTCATAAAACAAACATCA
TCAAGGCCATTTAAAATTACAAACGTGATATTTTCATCAGAAAACAAGATGGATTCGAAT
ATTCAAAGAAATAAACAAAATCAAGCAAAGAAATTGATAGAAAAGTATTTTTATCAGCTT
ACAGTTGGATGCAATGACGAAAAATGTCAAAACAAAAATTGTCTCAGTTCAGGTTTAGTT
GATAAATCGTTAACACCAAATCAAGCAGCAGTAAAAGCAATTCAATTATATGTTGAAGAA
GTAGAGCTTTGTCCTAATATTCAGAGAAATAATGAGTTAATTCAAACAACTCAAGCATCG
TCTCCTTCAATTACAGCAAATAATGAAGATATCGAAATGAATGAAACTATTGATAATTCA
TCATCCGAGCCACAAAATAGTTTACGATCTAATAAAAAATCAAGTGACAATCTATCAACA
TCAAATGCTATCACACAGAGTGAAAATACAATGACAACTATGGCGGCAGTAACTAGTAAA
GAAATAAATTTTTTAGATGAAAACAAGCTCAATGAAATGATTGACCTTTGTGAAGAATCA
AAAAATTATGCACCAATTATTCGGTCACTTGGTCATGTATTTTCAAATAAAGAATCTGTA
CTCCAAAGTTTTCAGCGTAAAGCAAAAAGCTCCATTGATGTTATTTTAGATAGAGTACAG
CAACCTAGTGATATAAAAACTATGAAGAAAGAAGATATTCGCAGATTAGAAGATGATGAA
AAGGATGAAGATTCGAAAATGGATTGTGAAGAAAATGATGAGAAAGAGCCCTCTTACACT
TTAGTTGACTTGGAAAGTCTACGAAGAAGTTTTAAACGTTTGTATGAAAAAAATTCACAA
GCCTTTGAGGCATTGGACAATGCAATACAGAGCTTAGCTACGTTAATTCATTTAGATTTG
AGATTAATGCGAGATAAAGAACAATTTGAAGAAATTCTGTATTGCATTGTGATATTATTT
GAAATTTTTCAAATTGGCTCTAATATGCTCGAGCAATCAATTATACGAACACTTTCATCA
ACAGTTGCACTTCCTGTGTGGGCTCAAGCACGACTTGCACATATATGGAGTGTACAT
>g2011.t4 Gene=g2011 Length=343
MDSNIQRNKQNQAKKLIEKYFYQLTVGCNDEKCQNKNCLSSGLVDKSLTPNQAAVKAIQL
YVEEVELCPNIQRNNELIQTTQASSPSITANNEDIEMNETIDNSSSEPQNSLRSNKKSSD
NLSTSNAITQSENTMTTMAAVTSKEINFLDENKLNEMIDLCEESKNYAPIIRSLGHVFSN
KESVLQSFQRKAKSSIDVILDRVQQPSDIKTMKKEDIRRLEDDEKDEDSKMDCEENDEKE
PSYTLVDLESLRRSFKRLYEKNSQAFEALDNAIQSLATLIHLDLRLMRDKEQFEEILYCI
VILFEIFQIGSNMLEQSIIRTLSSTVALPVWAQARLAHIWSVH
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g2011.t4 | Coils | Coil | Coil | 217 | 237 | - |
| 4 | g2011.t4 | Gene3D | G3DSA:1.10.286.60 | - | 8 | 71 | 4.2E-22 |
| 2 | g2011.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 100 | 135 | - |
| 3 | g2011.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 216 | 238 | - |
| 1 | g2011.t4 | Pfam | PF16558 | Amino-terminal Zinc-binding domain of ubiquitin ligase E3A | 14 | 68 | 5.0E-16 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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.
