General information for g2060.t2
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.t2 | isoform | g2060.t2 | 14870854 | 14872188 |
| chr_3 | g2060 | g2060.t2 | exon | g2060.t2.exon1 | 14870854 | 14872188 |
| chr_3 | g2060 | g2060.t2 | cds | g2060.t2.CDS1 | 14871114 | 14871896 |
| chr_3 | g2060 | g2060.t2 | TSS | g2060.t2 | 14872687 | 14872687 |
| chr_3 | g2060 | g2060.t2 | TTS | g2060.t2 | NA | NA |
Sequences
>g2060.t2 Gene=g2060 Length=1335
TTTAACCCACTTTTGCTGGAAAGATCGAACATCAGGAAACGTAGAAGATGATTTAATTAT
TTTCCCTGATGATTGTGAATTTAAGAAAGTTGATCAATGTAAAGATGGTCGTGTATTTCT
ATTGAAATTCAAGTCGTCAAATCGAAAATTATTCTTTTGGTTACAAGAGCCAAATACTGA
TAAAGACGATGAATATTGTCGCAAAGTAAATGAATTGTTGAATAATCCACCGCAAGCAAA
CAGCAGTAGTGGTGGAGGAAGAGGGCAACAAGAAGGAAGTGATTTGCAATATATGCTCAA
TAACATGTCACAACAACAGTTGATGCAGTTATTTGGAGGTGTTGGACAAATGGGCGGTTT
GAGTAGTTTATTAGGAAGTCTCAATAGACCATCATCAGGAAGTCGCAATACTAGTAGTAG
CACAACGACTACAACTTCAACTACAACACCTTCAGCAGCTGCAAGAACAACAACAGCCAC
TGGAAGTACTGCAATTATACCAACTCCCACTAACACAAATCAACCAACAACTCCACGAGC
TCCTCGCAAAGGCCCGAATTCAACTGCTTCTAGTGCTGCTGAAGGAAGCACACCATCATC
GGGAGCAACGAATGAAGCTTCTCGAGTTCTTCTTTCAGAATTGCAAAATTATTTGGCTGG
AATTAATGCTGGAGGAGGCTCAAAACAAAATATTGACCTCGCAACCTCTTTCAATTCAGA
GTCAATCAACTCGATTTTATCTGATCCCGAACGTCTGCAATCACTTCGTGCTCATTTGCC
AAATATTAGTGAATCAGGAAATGAAGAGACAGATACAAACATAATCAAACAGCAATTAAA
AGATACATTAGCTTCACCACAATTTCAACAAGCTCTTTCAATGTTCTCTAATGCTCTGCA
ATCTGGTCAACTTGGCCCAGTTGTATCACAATTCAAATTGAATGATGATGCAGTTTTGGC
AGCCAACAGTGGTGATTTGGAACAATTTGTTAAAGCTCTCGAGAAGGCGTCAATTAAGGA
CGATAGTAGTAAAGAAGATGATGATAAGAAAGATAGTAGTGAGAAAAAAGAATGAGAATT
GAGCGACAGCCAACACTGTTGAAAAAAGAGAGATGTAATTAAGATTGAAATCTTTGCTTA
TAGAAAAGGAATTTTATGAAATTTGGACTTCTCTTTACTCCTGTCATTTTTAACTTCATT
TTTTGTCATATATTATTATTATTATCCCTAAATATTTGAGAGAAAAAAGAAATAAAAAAA
GAAATTATGGCAGTAAAGACGGTGCATTGAACTTTCTTAATACAGGTTTTTCATCTCATC
TCTTATATTTCAGGC
>g2060.t2 Gene=g2060 Length=260
MLNNMSQQQLMQLFGGVGQMGGLSSLLGSLNRPSSGSRNTSSSTTTTTSTTTPSAAARTT
TATGSTAIIPTPTNTNQPTTPRAPRKGPNSTASSAAEGSTPSSGATNEASRVLLSELQNY
LAGINAGGGSKQNIDLATSFNSESINSILSDPERLQSLRAHLPNISESGNEETDTNIIKQ
QLKDTLASPQFQQALSMFSNALQSGQLGPVVSQFKLNDDAVLAANSGDLEQFVKALEKAS
IKDDSSKEDDDKKDSSEKKE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g2060.t2 | Gene3D | G3DSA:3.40.190.140 | - | 118 | 241 | 3.1E-36 |
| 3 | g2060.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 31 | 108 | - |
| 4 | g2060.t2 | MobiDBLite | mobidb-lite | consensus disorder prediction | 238 | 260 | - |
| 2 | g2060.t2 | PANTHER | PTHR12225 | ADHESION REGULATING MOLECULE 1 110 KDA CELL MEMBRANE GLYCOPROTEIN | 66 | 245 | 3.3E-22 |
| 1 | g2060.t2 | Pfam | PF16550 | UCH-binding domain | 118 | 236 | 6.0E-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.
