General information for g7674.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as E3 ubiquitin-protein ligase Nedd-4.
Parent gene
- The parent gene g7674 is located on chr_2: 25211918..25220249 (- 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_2 | g7674 | g7674.t3 | isoform | g7674.t3 | 25210995 | 25212264 |
| chr_2 | g7674 | g7674.t3 | exon | g7674.t3.exon1 | 25210995 | 25211144 |
| chr_2 | g7674 | g7674.t3 | cds | g7674.t3.CDS1 | 25210997 | 25211144 |
| chr_2 | g7674 | g7674.t3 | exon | g7674.t3.exon2 | 25211215 | 25211305 |
| chr_2 | g7674 | g7674.t3 | cds | g7674.t3.CDS2 | 25211215 | 25211305 |
| chr_2 | g7674 | g7674.t3 | exon | g7674.t3.exon3 | 25211365 | 25211436 |
| chr_2 | g7674 | g7674.t3 | cds | g7674.t3.CDS3 | 25211365 | 25211436 |
| chr_2 | g7674 | g7674.t3 | exon | g7674.t3.exon4 | 25211495 | 25211630 |
| chr_2 | g7674 | g7674.t3 | cds | g7674.t3.CDS4 | 25211495 | 25211630 |
| chr_2 | g7674 | g7674.t3 | exon | g7674.t3.exon5 | 25211690 | 25211942 |
| chr_2 | g7674 | g7674.t3 | cds | g7674.t3.CDS5 | 25211690 | 25211942 |
| chr_2 | g7674 | g7674.t3 | exon | g7674.t3.exon6 | 25212003 | 25212264 |
| chr_2 | g7674 | g7674.t3 | cds | g7674.t3.CDS6 | 25212003 | 25212085 |
| chr_2 | g7674 | g7674.t3 | TSS | g7674.t3 | NA | NA |
| chr_2 | g7674 | g7674.t3 | TTS | g7674.t3 | NA | NA |
Sequences
>g7674.t3 Gene=g7674 Length=964
CTGAAGATGCTGTTGATCATTCATCAGAGACATCATCAATCTCATCGACTCAACGCTCAG
TAGCTTCTGCACCAGGAAGTTCTTCACAATCACGACAAAGTTCCTTAGATAGTCCAGCAA
GTAGACAAGCGGCAGCAACAGCTCAATTATCTGATGCCGGTTTGCCACCAGGTTGGTCAA
TGCAACTCGCACCAAATGGTCGTGTATTTTTCATAGATCATCAACGTAAAACGACAAGTT
GGGTTGATCCCAGAACTGGATCTGCAAGTCCAATGCCAAATGCCACTCCATCCACATATG
AAGACCGATCAGAAGACAATCTTGGACCATTACCAGAAGGATGGGAAGAGCGAGTGCACA
CAGATGGAAGAATTTTCTTTATTGATCACAATACAAGAACTACACAATGGGATGATCCAA
GACTGTCAAATCCAAATGTCGCTGGTCAAGCTGTGCCGTATTCACGTGACTATAAACAGA
AATATGAATTCTTTAAGACACAACTTAGAAAACCGACTAATGTACCTAACAAAATTGAAA
TCAAAGTTCGTCGTGAATCTATTTTAGAAGATTCTTATAGAGTTATTAGTTCGGTAACAA
AAACTGATTTGCTGAAAACAAAATTATGGGTAGAATTTGAAGGTGAAACTGGTCTTGATT
ATGGTGGCTTAGCTAGAGAATGGTTCTTTTTATTATCAAAACAAATGTTCAATCCCTATT
ATGGACTCTTTGAGTACAGTGCAATGGACAATTATACTCTTCAAATTAATCCATTTAGTG
GCTTATGCAATGAAGAGCATTTAAGTTATTTCAAATTTATTGGTCGCATTGCCGGCATGG
CTGTTTATCATGGAAAATTACTTGATGCCTTCTTCATTCGTCCCTTTTATAAAATGATGC
TTGAAAAGCCCATCGAACTTAAAGATATGGAAAGTGTAGATATGGAATATTATAACTCAT
TATT
>g7674.t3 Gene=g7674 Length=261
MQLAPNGRVFFIDHQRKTTSWVDPRTGSASPMPNATPSTYEDRSEDNLGPLPEGWEERVH
TDGRIFFIDHNTRTTQWDDPRLSNPNVAGQAVPYSRDYKQKYEFFKTQLRKPTNVPNKIE
IKVRRESILEDSYRVISSVTKTDLLKTKLWVEFEGETGLDYGGLAREWFFLLSKQMFNPY
YGLFEYSAMDNYTLQINPFSGLCNEEHLSYFKFIGRIAGMAVYHGKLLDAFFIRPFYKMM
LEKPIELKDMESVDMEYYNSL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 12 | g7674.t3 | CDD | cd00201 | WW | 1 | 25 | 1.18305E-4 |
| 11 | g7674.t3 | CDD | cd00201 | WW | 52 | 82 | 4.66042E-12 |
| 10 | g7674.t3 | Gene3D | G3DSA:2.20.70.10 | - | 1 | 29 | 6.7E-10 |
| 9 | g7674.t3 | Gene3D | G3DSA:2.20.70.10 | - | 41 | 86 | 6.1E-24 |
| 8 | g7674.t3 | Gene3D | G3DSA:3.90.1750.10 | Hect | 87 | 260 | 2.9E-71 |
| 17 | g7674.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 20 | 46 | - |
| 18 | g7674.t3 | MobiDBLite | mobidb-lite | consensus disorder prediction | 21 | 43 | - |
| 3 | g7674.t3 | PANTHER | PTHR11254:SF420 | E3 UBIQUITIN-PROTEIN LIGASE NEDD-4 | 1 | 261 | 1.6E-144 |
| 4 | g7674.t3 | PANTHER | PTHR11254 | HECT DOMAIN UBIQUITIN-PROTEIN LIGASE | 1 | 261 | 1.6E-144 |
| 1 | g7674.t3 | Pfam | PF00397 | WW domain | 51 | 80 | 6.6E-13 |
| 2 | g7674.t3 | Pfam | PF00632 | HECT-domain (ubiquitin-transferase) | 171 | 261 | 6.9E-20 |
| 13 | g7674.t3 | ProSitePatterns | PS01159 | WW/rsp5/WWP domain signature. | 55 | 80 | - |
| 19 | g7674.t3 | ProSiteProfiles | PS50020 | WW/rsp5/WWP domain profile. | 1 | 26 | 10.561 |
| 20 | g7674.t3 | ProSiteProfiles | PS50020 | WW/rsp5/WWP domain profile. | 49 | 82 | 18.658 |
| 21 | g7674.t3 | ProSiteProfiles | PS50237 | HECT domain profile. | 141 | 261 | 49.143 |
| 15 | g7674.t3 | SMART | SM00456 | ww_5 | 1 | 26 | 1.1 |
| 16 | g7674.t3 | SMART | SM00456 | ww_5 | 50 | 82 | 1.5E-14 |
| 14 | g7674.t3 | SMART | SM00119 | hect_3 | 139 | 261 | 0.0065 |
| 7 | g7674.t3 | SUPERFAMILY | SSF51045 | WW domain | 3 | 27 | 2.52E-6 |
| 6 | g7674.t3 | SUPERFAMILY | SSF51045 | WW domain | 45 | 83 | 1.2E-14 |
| 5 | g7674.t3 | SUPERFAMILY | SSF56204 | Hect, E3 ligase catalytic domain | 100 | 261 | 1.15E-44 |
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:0005515 | protein binding | MF |
| GO:0004842 | ubiquitin-protein transferase activity | MF |
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.
