General information for g2060.t1
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.t1 | TTS | g2060.t1 | 14870915 | 14870915 |
| chr_3 | g2060 | g2060.t1 | isoform | g2060.t1 | 14871114 | 14872519 |
| chr_3 | g2060 | g2060.t1 | exon | g2060.t1.exon1 | 14871114 | 14872188 |
| chr_3 | g2060 | g2060.t1 | cds | g2060.t1.CDS1 | 14871114 | 14872188 |
| chr_3 | g2060 | g2060.t1 | exon | g2060.t1.exon2 | 14872248 | 14872283 |
| chr_3 | g2060 | g2060.t1 | cds | g2060.t1.CDS2 | 14872248 | 14872283 |
| chr_3 | g2060 | g2060.t1 | exon | g2060.t1.exon3 | 14872395 | 14872519 |
| chr_3 | g2060 | g2060.t1 | cds | g2060.t1.CDS3 | 14872395 | 14872519 |
| chr_3 | g2060 | g2060.t1 | TSS | g2060.t1 | 14872687 | 14872687 |
Sequences
>g2060.t1 Gene=g2060 Length=1236
ATGTTTGGAAGCACGGCAGTATCGAATTCAAATAATAAATTGGAATTTAAAGCCGGTCGA
ATGAGCTTGATTGATAGTGTTGGACAAGATGGAGTTAAAAAGAAGATGGTACATCCTGAT
AAAAGAAAAGGCTTAGTTTATATCTATTCAGCTGATGATGGTTTAACCCACTTTTGCTGG
AAAGATCGAACATCAGGAAACGTAGAAGATGATTTAATTATTTTCCCTGATGATTGTGAA
TTTAAGAAAGTTGATCAATGTAAAGATGGTCGTGTATTTCTATTGAAATTCAAGTCGTCA
AATCGAAAATTATTCTTTTGGTTACAAGAGCCAAATACTGATAAAGACGATGAATATTGT
CGCAAAGTAAATGAATTGTTGAATAATCCACCGCAAGCAAACAGCAGTAGTGGTGGAGGA
AGAGGGCAACAAGAAGGAAGTGATTTGCAATATATGCTCAATAACATGTCACAACAACAG
TTGATGCAGTTATTTGGAGGTGTTGGACAAATGGGCGGTTTGAGTAGTTTATTAGGAAGT
CTCAATAGACCATCATCAGGAAGTCGCAATACTAGTAGTAGCACAACGACTACAACTTCA
ACTACAACACCTTCAGCAGCTGCAAGAACAACAACAGCCACTGGAAGTACTGCAATTATA
CCAACTCCCACTAACACAAATCAACCAACAACTCCACGAGCTCCTCGCAAAGGCCCGAAT
TCAACTGCTTCTAGTGCTGCTGAAGGAAGCACACCATCATCGGGAGCAACGAATGAAGCT
TCTCGAGTTCTTCTTTCAGAATTGCAAAATTATTTGGCTGGAATTAATGCTGGAGGAGGC
TCAAAACAAAATATTGACCTCGCAACCTCTTTCAATTCAGAGTCAATCAACTCGATTTTA
TCTGATCCCGAACGTCTGCAATCACTTCGTGCTCATTTGCCAAATATTAGTGAATCAGGA
AATGAAGAGACAGATACAAACATAATCAAACAGCAATTAAAAGATACATTAGCTTCACCA
CAATTTCAACAAGCTCTTTCAATGTTCTCTAATGCTCTGCAATCTGGTCAACTTGGCCCA
GTTGTATCACAATTCAAATTGAATGATGATGCAGTTTTGGCAGCCAACAGTGGTGATTTG
GAACAATTTGTTAAAGCTCTCGAGAAGGCGTCAATTAAGGACGATAGTAGTAAAGAAGAT
GATGATAAGAAAGATAGTAGTGAGAAAAAAGAATGA
>g2060.t1 Gene=g2060 Length=411
MFGSTAVSNSNNKLEFKAGRMSLIDSVGQDGVKKKMVHPDKRKGLVYIYSADDGLTHFCW
KDRTSGNVEDDLIIFPDDCEFKKVDQCKDGRVFLLKFKSSNRKLFFWLQEPNTDKDDEYC
RKVNELLNNPPQANSSSGGGRGQQEGSDLQYMLNNMSQQQLMQLFGGVGQMGGLSSLLGS
LNRPSSGSRNTSSSTTTTTSTTTPSAAARTTTATGSTAIIPTPTNTNQPTTPRAPRKGPN
STASSAAEGSTPSSGATNEASRVLLSELQNYLAGINAGGGSKQNIDLATSFNSESINSIL
SDPERLQSLRAHLPNISESGNEETDTNIIKQQLKDTLASPQFQQALSMFSNALQSGQLGP
VVSQFKLNDDAVLAANSGDLEQFVKALEKASIKDDSSKEDDDKKDSSEKKE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g2060.t1 | CDD | cd13314 | PH_Rpn13 | 14 | 127 | 7.57669E-71 |
| 6 | g2060.t1 | Gene3D | G3DSA:2.30.29.70 | - | 13 | 129 | 8.2E-45 |
| 7 | g2060.t1 | Gene3D | G3DSA:3.40.190.140 | - | 269 | 392 | 8.3E-36 |
| 5 | g2060.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 182 | 259 | - |
| 4 | g2060.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 389 | 411 | - |
| 3 | g2060.t1 | PANTHER | PTHR12225 | ADHESION REGULATING MOLECULE 1 110 KDA CELL MEMBRANE GLYCOPROTEIN | 9 | 395 | 9.6E-85 |
| 1 | g2060.t1 | Pfam | PF04683 | Proteasome complex subunit Rpn13 ubiquitin receptor | 33 | 110 | 1.9E-32 |
| 2 | g2060.t1 | Pfam | PF16550 | UCH-binding domain | 269 | 387 | 1.6E-30 |
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 transcript has been annotated with K06691 (26S proteasome regulatory subunit N13)
Pathway
- This transcript belongs to the following pathways
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.
