General information for g10291.t1
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.t1 | TSS | g10291.t1 | 8662185 | 8662185 |
| chr_1 | g10291 | g10291.t1 | isoform | g10291.t1 | 8662399 | 8663709 |
| chr_1 | g10291 | g10291.t1 | exon | g10291.t1.exon1 | 8662399 | 8662426 |
| chr_1 | g10291 | g10291.t1 | cds | g10291.t1.CDS1 | 8662399 | 8662426 |
| chr_1 | g10291 | g10291.t1 | exon | g10291.t1.exon2 | 8662494 | 8662558 |
| chr_1 | g10291 | g10291.t1 | cds | g10291.t1.CDS2 | 8662494 | 8662558 |
| chr_1 | g10291 | g10291.t1 | exon | g10291.t1.exon3 | 8662639 | 8662859 |
| chr_1 | g10291 | g10291.t1 | cds | g10291.t1.CDS3 | 8662639 | 8662859 |
| chr_1 | g10291 | g10291.t1 | exon | g10291.t1.exon4 | 8662915 | 8663281 |
| chr_1 | g10291 | g10291.t1 | cds | g10291.t1.CDS4 | 8662915 | 8663281 |
| chr_1 | g10291 | g10291.t1 | exon | g10291.t1.exon5 | 8663358 | 8663597 |
| chr_1 | g10291 | g10291.t1 | cds | g10291.t1.CDS5 | 8663358 | 8663597 |
| chr_1 | g10291 | g10291.t1 | exon | g10291.t1.exon6 | 8663680 | 8663709 |
| chr_1 | g10291 | g10291.t1 | cds | g10291.t1.CDS6 | 8663680 | 8663709 |
| chr_1 | g10291 | g10291.t1 | TTS | g10291.t1 | 8664530 | 8664530 |
Sequences
>g10291.t1 Gene=g10291 Length=951
ATGGGGTTTGAAGTTGTTCGTTTTGAAGGTGGAAATGTTGATGAAGAATTAATATGTCCT
ATTTGCAGTCAAGTGCTTGAAGAACCAGTTCAGGTAGTTACTTGTGAACACGCATTTTGC
CAAGCGTGTATTCATGAATGGCTTTCACGACAACCGACATGTCCTGTTGATAGGCAGTCA
ATTACAACTGCCAACTTAAGATCTGTGCCGCGAATCTTAAGAAATTTACTTTCACGTCTA
AACATAACGTGTGATAATGCAATGTATGGATGCAATCAGGTGCTAAAACTCGATGCTCTT
CAATCTCATTTAGATGAATGCGAGCATAATCCTAAAAGACCAATCGGATGTGAAAATGGT
TGCGGCTTTGTTATCCCAAAAGACGAATTTAAAGATCACAATTGTGTAAGAGAATTACGA
ACACTCTGTCATCAACAGCAACAAAAACTAACAGAACTCAAGACTGAAGTAGCCGATCAA
AATATAACAATCAATGAGCTGAAACGAGAACTGAATTTAATAAAAGATTTTATGCGCGCT
ATGAGAGTGTCTAATCCCGCTATGAGAGCGATAGCCGATCAAATGGAACGTGACGAAGTA
TTACGTTGGTCAAATTCACTACCTAGAGCAAGAGTAACTCGCTGGGGAGGCATGATATCG
ACACCTGATGATTCTCTTCAAATGATGGTAAAACGAGCGCTCTCTGAATCAGGCTGTCCA
CCACATATTATAGAAGACCTTATGGAGAATTGTCATGAACGTCGATGGCCAAGAGGTTTG
AGCTCTTTGGAGACGAGACAGAATAATCGTCGAATATATGATAACTATGTTTGTCGACGA
GTGCCAAATAAGCAAGCTGTTCTCGTCCTTCCATGCGATAATTCTCATATGTCTGAGGAT
GTTATGGTTGAGCCAGGATTGGTAATGATCTTCGCACATGGCATCGAATGA
>g10291.t1 Gene=g10291 Length=316
MGFEVVRFEGGNVDEELICPICSQVLEEPVQVVTCEHAFCQACIHEWLSRQPTCPVDRQS
ITTANLRSVPRILRNLLSRLNITCDNAMYGCNQVLKLDALQSHLDECEHNPKRPIGCENG
CGFVIPKDEFKDHNCVRELRTLCHQQQQKLTELKTEVADQNITINELKRELNLIKDFMRA
MRVSNPAMRAIADQMERDEVLRWSNSLPRARVTRWGGMISTPDDSLQMMVKRALSESGCP
PHIIEDLMENCHERRWPRGLSSLETRQNNRRIYDNYVCRRVPNKQAVLVLPCDNSHMSED
VMVEPGLVMIFAHGIE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 11 | g10291.t1 | CDD | cd16634 | mRING-HC-C3HC3D_Nrdp1 | 16 | 58 | 3.18307E-22 |
| 10 | g10291.t1 | Coils | Coil | Coil | 136 | 170 | - |
| 8 | g10291.t1 | Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain | 9 | 77 | 3.3E-17 |
| 9 | g10291.t1 | Gene3D | G3DSA:3.30.40.10 | Zinc/RING finger domain | 78 | 133 | 1.6E-10 |
| 3 | g10291.t1 | PANTHER | PTHR15315:SF93 | EARLY GIRL, ISOFORM A-RELATED | 1 | 314 | 4.9E-151 |
| 4 | g10291.t1 | PANTHER | PTHR15315 | RING FINGER PROTEIN 41, 151 | 1 | 314 | 4.9E-151 |
| 1 | g10291.t1 | Pfam | PF13923 | Zinc finger, C3HC4 type (RING finger) | 19 | 56 | 3.2E-11 |
| 2 | g10291.t1 | Pfam | PF08941 | USP8 interacting | 138 | 316 | 2.6E-85 |
| 12 | g10291.t1 | ProSitePatterns | PS00518 | Zinc finger RING-type signature. | 35 | 44 | - |
| 15 | g10291.t1 | ProSiteProfiles | PS50089 | Zinc finger RING-type profile. | 19 | 58 | 12.799 |
| 13 | g10291.t1 | SMART | SM00504 | Ubox_2 | 16 | 80 | 0.0013 |
| 14 | g10291.t1 | SMART | SM00184 | ring_2 | 19 | 57 | 2.0E-5 |
| 6 | g10291.t1 | SUPERFAMILY | SSF57850 | RING/U-box | 10 | 91 | 9.56E-20 |
| 5 | g10291.t1 | SUPERFAMILY | SSF49599 | TRAF domain-like | 80 | 147 | 3.73E-11 |
| 7 | g10291.t1 | SUPERFAMILY | SSF160088 | NRDP1 C-terminal domain-like | 194 | 316 | 4.32E-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 |
| GO:0004842 | ubiquitin-protein transferase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K11981 (E3 ubiquitin-protein ligase NRDP1)
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.
