General information for g2060.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Proteasomal ubiquitin receptor ADRM1-like protein.
Parent gene
- The parent gene g2060 is located on chr_3: 14872397..14873222 (- 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 | g2060 | g2060.t4 | TTS | g2060.t4 | 14870915 | 14870915 |
| chr_3 | g2060 | g2060.t4 | isoform | g2060.t4 | 14871114 | 14872519 |
| chr_3 | g2060 | g2060.t4 | exon | g2060.t4.exon1 | 14871114 | 14872188 |
| chr_3 | g2060 | g2060.t4 | cds | g2060.t4.CDS1 | 14871114 | 14871884 |
| chr_3 | g2060 | g2060.t4 | exon | g2060.t4.exon2 | 14872384 | 14872519 |
| chr_3 | g2060 | g2060.t4 | TSS | g2060.t4 | 14872687 | 14872687 |
Sequences
>g2060.t4 Gene=g2060 Length=1211
ATGTTTGGAAGCACGGCAGTATCGAATTCAAATAATAAATTGGAATTTAAAGCCGGTCGA
ATGAGCTTGATTGATAGTGTTGGACAAGATGGAGTTAAAAAGAAGATGGTACATCCTGAT
AAAAGGTAAGATTATTTTTAACCCACTTTTGCTGGAAAGATCGAACATCAGGAAACGTAG
AAGATGATTTAATTATTTTCCCTGATGATTGTGAATTTAAGAAAGTTGATCAATGTAAAG
ATGGTCGTGTATTTCTATTGAAATTCAAGTCGTCAAATCGAAAATTATTCTTTTGGTTAC
AAGAGCCAAATACTGATAAAGACGATGAATATTGTCGCAAAGTAAATGAATTGTTGAATA
ATCCACCGCAAGCAAACAGCAGTAGTGGTGGAGGAAGAGGGCAACAAGAAGGAAGTGATT
TGCAATATATGCTCAATAACATGTCACAACAACAGTTGATGCAGTTATTTGGAGGTGTTG
GACAAATGGGCGGTTTGAGTAGTTTATTAGGAAGTCTCAATAGACCATCATCAGGAAGTC
GCAATACTAGTAGTAGCACAACGACTACAACTTCAACTACAACACCTTCAGCAGCTGCAA
GAACAACAACAGCCACTGGAAGTACTGCAATTATACCAACTCCCACTAACACAAATCAAC
CAACAACTCCACGAGCTCCTCGCAAAGGCCCGAATTCAACTGCTTCTAGTGCTGCTGAAG
GAAGCACACCATCATCGGGAGCAACGAATGAAGCTTCTCGAGTTCTTCTTTCAGAATTGC
AAAATTATTTGGCTGGAATTAATGCTGGAGGAGGCTCAAAACAAAATATTGACCTCGCAA
CCTCTTTCAATTCAGAGTCAATCAACTCGATTTTATCTGATCCCGAACGTCTGCAATCAC
TTCGTGCTCATTTGCCAAATATTAGTGAATCAGGAAATGAAGAGACAGATACAAACATAA
TCAAACAGCAATTAAAAGATACATTAGCTTCACCACAATTTCAACAAGCTCTTTCAATGT
TCTCTAATGCTCTGCAATCTGGTCAACTTGGCCCAGTTGTATCACAATTCAAATTGAATG
ATGATGCAGTTTTGGCAGCCAACAGTGGTGATTTGGAACAATTTGTTAAAGCTCTCGAGA
AGGCGTCAATTAAGGACGATAGTAGTAAAGAAGATGATGATAAGAAAGATAGTAGTGAGA
AAAAAGAATGA
>g2060.t4 Gene=g2060 Length=256
MSQQQLMQLFGGVGQMGGLSSLLGSLNRPSSGSRNTSSSTTTTTSTTTPSAAARTTTATG
STAIIPTPTNTNQPTTPRAPRKGPNSTASSAAEGSTPSSGATNEASRVLLSELQNYLAGI
NAGGGSKQNIDLATSFNSESINSILSDPERLQSLRAHLPNISESGNEETDTNIIKQQLKD
TLASPQFQQALSMFSNALQSGQLGPVVSQFKLNDDAVLAANSGDLEQFVKALEKASIKDD
SSKEDDDKKDSSEKKE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g2060.t4 | Gene3D | G3DSA:3.40.190.140 | - | 114 | 237 | 3.0E-36 |
| 4 | g2060.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 21 | 104 | - |
| 3 | g2060.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 234 | 256 | - |
| 2 | g2060.t4 | PANTHER | PTHR12225 | ADHESION REGULATING MOLECULE 1 110 KDA CELL MEMBRANE GLYCOPROTEIN | 62 | 241 | 3.4E-22 |
| 1 | g2060.t4 | Pfam | PF16550 | UCH-binding domain | 114 | 232 | 5.8E-31 |
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:0005634 | nucleus | CC |
| GO:0005737 | cytoplasm | CC |
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.
