General information for g10291.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as E3 ubiquitin-protein ligase NRDP1.
Parent gene
- The parent gene g10291 is located on chr_1: 8662399..8664536 (+ 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_1 | g10291 | g10291.t2 | TSS | g10291.t2 | 8662185 | 8662185 |
| chr_1 | g10291 | g10291.t2 | isoform | g10291.t2 | 8662399 | 8664536 |
| chr_1 | g10291 | g10291.t2 | exon | g10291.t2.exon1 | 8662399 | 8662426 |
| chr_1 | g10291 | g10291.t2 | exon | g10291.t2.exon2 | 8662494 | 8662562 |
| chr_1 | g10291 | g10291.t2 | exon | g10291.t2.exon3 | 8662639 | 8662859 |
| chr_1 | g10291 | g10291.t2 | cds | g10291.t2.CDS1 | 8662807 | 8662859 |
| chr_1 | g10291 | g10291.t2 | exon | g10291.t2.exon4 | 8662915 | 8663281 |
| chr_1 | g10291 | g10291.t2 | cds | g10291.t2.CDS2 | 8662915 | 8663281 |
| chr_1 | g10291 | g10291.t2 | exon | g10291.t2.exon5 | 8663358 | 8663597 |
| chr_1 | g10291 | g10291.t2 | cds | g10291.t2.CDS3 | 8663358 | 8663597 |
| chr_1 | g10291 | g10291.t2 | exon | g10291.t2.exon6 | 8663680 | 8664536 |
| chr_1 | g10291 | g10291.t2 | cds | g10291.t2.CDS4 | 8663680 | 8663709 |
| chr_1 | g10291 | g10291.t2 | TTS | g10291.t2 | 8664530 | 8664530 |
Sequences
>g10291.t2 Gene=g10291 Length=1782
ATGGGGTTTGAAGTTGTTCGTTTTGAAGGTGGAAATGTTGATGAAGAATTAATATGTCCT
ATTTGCAGTCAAGTGCTTGAAGAACCAGTTCAGGTTTGTAGTTACTTGTGAACACGCATT
TTGCCAAGCGTGTATTCATGAATGGCTTTCACGACAACCGACATGTCCTGTTGATAGGCA
GTCAATTACAACTGCCAACTTAAGATCTGTGCCGCGAATCTTAAGAAATTTACTTTCACG
TCTAAACATAACGTGTGATAATGCAATGTATGGATGCAATCAGGTGCTAAAACTCGATGC
TCTTCAATCTCATTTAGATGAATGCGAGCATAATCCTAAAAGACCAATCGGATGTGAAAA
TGGTTGCGGCTTTGTTATCCCAAAAGACGAATTTAAAGATCACAATTGTGTAAGAGAATT
ACGAACACTCTGTCATCAACAGCAACAAAAACTAACAGAACTCAAGACTGAAGTAGCCGA
TCAAAATATAACAATCAATGAGCTGAAACGAGAACTGAATTTAATAAAAGATTTTATGCG
CGCTATGAGAGTGTCTAATCCCGCTATGAGAGCGATAGCCGATCAAATGGAACGTGACGA
AGTATTACGTTGGTCAAATTCACTACCTAGAGCAAGAGTAACTCGCTGGGGAGGCATGAT
ATCGACACCTGATGATTCTCTTCAAATGATGGTAAAACGAGCGCTCTCTGAATCAGGCTG
TCCACCACATATTATAGAAGACCTTATGGAGAATTGTCATGAACGTCGATGGCCAAGAGG
TTTGAGCTCTTTGGAGACGAGACAGAATAATCGTCGAATATATGATAACTATGTTTGTCG
ACGAGTGCCAAATAAGCAAGCTGTTCTCGTCCTTCCATGCGATAATTCTCATATGTCTGA
GGATGTTATGGTTGAGCCAGGATTGGTAATGATCTTCGCACATGGCATCGAATGAATCTG
TATCAGCAAAAAAAGAAGATGAATCCATATCTCATATCTTCTGCATCGACTCTACTTCTC
GCACGTCGTGATAATTTTCTCATTATTCTTCAAATACACTGAAACATATATACATATATG
CATACATTTCTTGTTCACATTCATTCATACATGAGTAGAATTCTTTCCATCTATACTCAA
TGTAATAATGGCATATGTGTGTATAAATAAAATTATTTTAGATTAGGTGAAAGCAAAAAA
AAGAAGTGCGAAAAAAGGAAAGAACGAAAAAAATTCTCCAAATTTTGTGATAAAATATTT
TTTCATCTCTAACATTTAATGTGACAAGAATTGCTTGATAATAATGAAATTAAAGAGAAA
GTATATTATGTATATGTTAAGGATGATATCGCTGTAACATTGTGGTATGTTCTTTTCATG
ATTTAAAAATATTGCCCTCCTTCATAATTTAATTATTAAGGACATGCTTCTCACTTTAAA
AAAATCATAAGATAAATATCATAGATAATTGGTCCCAAAAAATTATTCCAAAATTTTTAT
AATTGATAGATTCAATTTCATTATTTGATGAAGATATTCTTTTTTGACATTCAAAAATTG
ATATATTATTTCTCTAAACATTTGCTTTATAAGAATTTAACAAATAAACAATAATGTGTC
CTTTTTATTACATACATAAAGTTCGGGTTTTAGTGACCTTTTTGATTTTTTTGTTTCATA
GAATCAATAGTAGAGTTTTACAATATAATGAGCATTTCATAATTCTTTGATACGCACATT
ACTAATTTTTAAATGAAATAAAATTTCAGAATAAAACAAAAA
>g10291.t2 Gene=g10291 Length=229
MYGCNQVLKLDALQSHLDECEHNPKRPIGCENGCGFVIPKDEFKDHNCVRELRTLCHQQQ
QKLTELKTEVADQNITINELKRELNLIKDFMRAMRVSNPAMRAIADQMERDEVLRWSNSL
PRARVTRWGGMISTPDDSLQMMVKRALSESGCPPHIIEDLMENCHERRWPRGLSSLETRQ
NNRRIYDNYVCRRVPNKQAVLVLPCDNSHMSEDVMVEPGLVMIFAHGIE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g10291.t2 | Coils | Coil | Coil | 49 | 83 | - |
| 6 | g10291.t2 | Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain | 1 | 46 | 1.4E-6 |
| 2 | g10291.t2 | PANTHER | PTHR15315:SF93 | EARLY GIRL, ISOFORM A-RELATED | 2 | 227 | 3.8E-97 |
| 3 | g10291.t2 | PANTHER | PTHR15315 | RING FINGER PROTEIN 41, 151 | 2 | 227 | 3.8E-97 |
| 1 | g10291.t2 | Pfam | PF08941 | USP8 interacting | 51 | 229 | 9.7E-86 |
| 4 | g10291.t2 | SUPERFAMILY | SSF49599 | TRAF domain-like | 1 | 60 | 2.55E-7 |
| 5 | g10291.t2 | SUPERFAMILY | SSF160088 | NRDP1 C-terminal domain-like | 107 | 229 | 1.96E-59 |
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:0061630 | ubiquitin protein ligase activity | MF |
| GO:0005515 | protein binding | MF |
| GO:0016567 | protein ubiquitination | BP |
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.
