General information for g7674.t1
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.t1 | isoform | g7674.t1 | 25210218 | 25220249 |
| chr_2 | g7674 | g7674.t1 | exon | g7674.t1.exon1 | 25210218 | 25210336 |
| chr_2 | g7674 | g7674.t1 | cds | g7674.t1.CDS1 | 25210218 | 25210336 |
| chr_2 | g7674 | g7674.t1 | exon | g7674.t1.exon2 | 25210435 | 25210862 |
| chr_2 | g7674 | g7674.t1 | cds | g7674.t1.CDS2 | 25210435 | 25210862 |
| chr_2 | g7674 | g7674.t1 | exon | g7674.t1.exon3 | 25210995 | 25211144 |
| chr_2 | g7674 | g7674.t1 | cds | g7674.t1.CDS3 | 25210995 | 25211144 |
| chr_2 | g7674 | g7674.t1 | exon | g7674.t1.exon4 | 25211215 | 25211305 |
| chr_2 | g7674 | g7674.t1 | cds | g7674.t1.CDS4 | 25211215 | 25211305 |
| chr_2 | g7674 | g7674.t1 | exon | g7674.t1.exon5 | 25211365 | 25211436 |
| chr_2 | g7674 | g7674.t1 | cds | g7674.t1.CDS5 | 25211365 | 25211436 |
| chr_2 | g7674 | g7674.t1 | exon | g7674.t1.exon6 | 25211495 | 25211630 |
| chr_2 | g7674 | g7674.t1 | cds | g7674.t1.CDS6 | 25211495 | 25211630 |
| chr_2 | g7674 | g7674.t1 | exon | g7674.t1.exon7 | 25211690 | 25211942 |
| chr_2 | g7674 | g7674.t1 | cds | g7674.t1.CDS7 | 25211690 | 25211942 |
| chr_2 | g7674 | g7674.t1 | exon | g7674.t1.exon8 | 25212003 | 25212265 |
| chr_2 | g7674 | g7674.t1 | cds | g7674.t1.CDS8 | 25212003 | 25212265 |
| chr_2 | g7674 | g7674.t1 | exon | g7674.t1.exon9 | 25212452 | 25212739 |
| chr_2 | g7674 | g7674.t1 | cds | g7674.t1.CDS9 | 25212452 | 25212739 |
| chr_2 | g7674 | g7674.t1 | exon | g7674.t1.exon10 | 25213258 | 25213533 |
| chr_2 | g7674 | g7674.t1 | cds | g7674.t1.CDS10 | 25213258 | 25213533 |
| chr_2 | g7674 | g7674.t1 | exon | g7674.t1.exon11 | 25213692 | 25213782 |
| chr_2 | g7674 | g7674.t1 | cds | g7674.t1.CDS11 | 25213692 | 25213782 |
| chr_2 | g7674 | g7674.t1 | exon | g7674.t1.exon12 | 25213879 | 25214000 |
| chr_2 | g7674 | g7674.t1 | cds | g7674.t1.CDS12 | 25213879 | 25214000 |
| chr_2 | g7674 | g7674.t1 | exon | g7674.t1.exon13 | 25214130 | 25214241 |
| chr_2 | g7674 | g7674.t1 | cds | g7674.t1.CDS13 | 25214130 | 25214241 |
| chr_2 | g7674 | g7674.t1 | exon | g7674.t1.exon14 | 25214705 | 25214904 |
| chr_2 | g7674 | g7674.t1 | cds | g7674.t1.CDS14 | 25214705 | 25214904 |
| chr_2 | g7674 | g7674.t1 | exon | g7674.t1.exon15 | 25214967 | 25215128 |
| chr_2 | g7674 | g7674.t1 | cds | g7674.t1.CDS15 | 25214967 | 25215128 |
| chr_2 | g7674 | g7674.t1 | TTS | g7674.t1 | 25214982 | 25214982 |
| chr_2 | g7674 | g7674.t1 | exon | g7674.t1.exon16 | 25220094 | 25220249 |
| chr_2 | g7674 | g7674.t1 | cds | g7674.t1.CDS16 | 25220094 | 25220249 |
| chr_2 | g7674 | g7674.t1 | TSS | g7674.t1 | 25220492 | 25220492 |
Sequences
>g7674.t1 Gene=g7674 Length=2919
ATGAGGTCACAAATAAGTAATACAACAATAATAGCACCAGCAGCTAATTCACCGCAACCA
CCAGTTCGCAGACGTCGTGCACAGTCAGTTCAGGCAGTGCAGGGAATTTCAAGAATTTCA
CAAGAACCAAGAAGAGTGTCGCTATTTGAGACAAATAATGAAGAAGGATCTAGTCAAATT
CGAATTCGTGTGATTGCGGGAAAATCCTTAGCAAAAAAAGATATTTTCGGTGCAAGTGAT
CCGTATGTGCGAATTGATCTGAACACAATCAATGGAGACATCAATATCGACTCAGTACTT
ACGAAAACAAAGAAGAAGACACTAAATCCACAATGGGATGAAGAATTCATCTTTCGAGTA
AAACCAAACGAACACAAGCTCGTGTTTCAGGTATTTGATGAGAATCGTTTTACTCGCGAT
GATTTTCTCGGTATGGTTGAGCTGACACTTATAAATTTGCCAAAGGAACAAGAAGGTCGC
TTGATTGCGCCTAAGGTTTATCAACTACGAGCAAGAAGTGCACGATCAAAAGTCCGCGGA
ACGCTTGAAATTTATCATGCATACATACGTGATTTGGACGCATCACGTGGTGATAACGAT
TGGGAGATTGTGGACAATAATTCTGTGTCTATGATGAATCCATCAACTGCAGTTGAACCA
TTACCAAGTGGATGGGAAGAGAGACAAGACGCAAACGGTCGAACTTATTATGTTGATCAC
GTCAGACGAACAACGCAATGGGAGCGACCAACAACGGCACCACAATCATCTGTTGATAGC
GACATCGCGACAGCATTCGGACGAAGATTTCATATTAGTGTCGATGAGTCAGAGCAAAAT
AATGATCAAGATTCATATACAAATTCATCAGATGTGTCAATCAATGAAGACTTGCAAGTG
ATAGTGCCACCAATTGAAATTACAAGAAATTCACCGCAATTGCAAACAATGAATACTGTT
GATGACATTGATGAAGATGAGGCATTTATAAATGAGCTTATGGCATTACATCCTAATGAT
GAAGATATTGTCGTTGAAGATCTTGAATTTAATTCCGATCAATCAGCTTCTGTGATTAAT
GATAATGAAATTAATGATGATGATGATGAAGAAGATGGTCAACAAGACGGTGTTAGTGTT
CATTCTGATGATTCCAATCTCGACAATCAGTCACTTCATTCAACATCTGAACAATCAATT
GCTAGTCCAACTTCTGAAAACTCAAGAATTAGACCAACTAGGCCAGCACCTTCAATTCCT
AATAGTCTTACGCGCAATAACACGAGAAGATCTGCTCCAAATCCACCTGAAAGAACTCTT
AGTAGTGCTATAACTTCAGCCCAACCACGTAGAAGTACACCAAATTTGCAGAGACAAAAT
TCACTTGAAGATAATGCAGCTCAAAGTGCTGAAGATGCTGTTGATCATTCATCAGAGACA
TCATCAATCTCATCGACTCAACGCTCAGTAGCTTCTGCACCAGGAAGTTCTTCACAATCA
CGACAAAGTTCCTTAGATAGTCCAGCAAGTAGACAAGCGGCAGCAACAGCTCAATTATCT
GATGCCGGTTTGCCACCAGGTTGGTCAATGCAACTCGCACCAAATGGTCGTGTATTTTTC
ATAGATCATCAACGTAAAACGACAAGTTGGGTTGATCCCAGAACTGGATCTGCAAGTCCA
ATGCCAAATGCCACTCCATCCACATATGAAGACCGATCAGAAGACAATCTTGGACCATTA
CCAGAAGGATGGGAAGAGCGAGTGCACACAGATGGAAGAATTTTCTTTATTGATCACAAT
ACAAGAACTACACAATGGGATGATCCAAGACTGTCAAATCCAAATGTCGCTGGTCAAGCT
GTGCCGTATTCACGTGACTATAAACAGAAATATGAATTCTTTAAGACACAACTTAGAAAA
CCGACTAATGTACCTAACAAAATTGAAATCAAAGTTCGTCGTGAATCTATTTTAGAAGAT
TCTTATAGAGTTATTAGTTCGGTAACAAAAACTGATTTGCTGAAAACAAAATTATGGGTA
GAATTTGAAGGTGAAACTGGTCTTGATTATGGTGGCTTAGCTAGAGAATGGTTCTTTTTA
TTATCAAAACAAATGTTCAATCCCTATTATGGACTCTTTGAGTACAGTGCAATGGACAAT
TATACTCTTCAAATTAATCCATTTAGTGGCTTATGCAATGAAGAGCATTTAAGTTATTTC
AAATTTATTGGTCGCATTGCCGGCATGGCTGTTTATCATGGAAAATTACTTGATGCCTTC
TTCATTCGTCCCTTTTATAAAATGATGCTTGAAAAGCCCATCGAACTTAAAGATATGGAA
AGTGTAGATATGGAATATTATAACTCATTATTATGGATAAAAGAAAATGATCCGAGTGAA
TTAATGCTCACATTTTGTGTAGATGAAGAAACTTTCGGTCATACTAGTCAGAGAGATTTA
AAACCAAACGGAAGCCAGATTGAAGTGACAAACGAAAATAAAGACGAATATATTCGCTTG
GTTATTCAATGGAGATTTGAATCACGCGTCAAAGAGCAAATGCAAGCATTCCTCGATGGA
TTTGGTTCAATTGTGCCACTCAATCATCTCAAAATATTTGACGAAAACGAGCTCGAGTTG
TTGATGTGTGGAATACAAAATATTGATGTGAAAGATTGGAAGCGAAATACACTATACAAA
GGCGATTATTATGCTAATCACGTCATCATTCAATGGTTCTGGCGAGCGGTGCTTAGCATG
TCGAATGAAATGCGTGCTAGATTGCTTCAGTTTGTAACAGGTACATCGAGAATTCCAATG
AATGGAATGAAGGAACTTTATGGAAGTAATGGACCGCAAATGTTTACAATCGAGAAATGG
GGAACGCCAGAGAATTTTCCACGTGCTCATACGTGGTGA
>g7674.t1 Gene=g7674 Length=972
MRSQISNTTIIAPAANSPQPPVRRRRAQSVQAVQGISRISQEPRRVSLFETNNEEGSSQI
RIRVIAGKSLAKKDIFGASDPYVRIDLNTINGDINIDSVLTKTKKKTLNPQWDEEFIFRV
KPNEHKLVFQVFDENRFTRDDFLGMVELTLINLPKEQEGRLIAPKVYQLRARSARSKVRG
TLEIYHAYIRDLDASRGDNDWEIVDNNSVSMMNPSTAVEPLPSGWEERQDANGRTYYVDH
VRRTTQWERPTTAPQSSVDSDIATAFGRRFHISVDESEQNNDQDSYTNSSDVSINEDLQV
IVPPIEITRNSPQLQTMNTVDDIDEDEAFINELMALHPNDEDIVVEDLEFNSDQSASVIN
DNEINDDDDEEDGQQDGVSVHSDDSNLDNQSLHSTSEQSIASPTSENSRIRPTRPAPSIP
NSLTRNNTRRSAPNPPERTLSSAITSAQPRRSTPNLQRQNSLEDNAAQSAEDAVDHSSET
SSISSTQRSVASAPGSSSQSRQSSLDSPASRQAAATAQLSDAGLPPGWSMQLAPNGRVFF
IDHQRKTTSWVDPRTGSASPMPNATPSTYEDRSEDNLGPLPEGWEERVHTDGRIFFIDHN
TRTTQWDDPRLSNPNVAGQAVPYSRDYKQKYEFFKTQLRKPTNVPNKIEIKVRRESILED
SYRVISSVTKTDLLKTKLWVEFEGETGLDYGGLAREWFFLLSKQMFNPYYGLFEYSAMDN
YTLQINPFSGLCNEEHLSYFKFIGRIAGMAVYHGKLLDAFFIRPFYKMMLEKPIELKDME
SVDMEYYNSLLWIKENDPSELMLTFCVDEETFGHTSQRDLKPNGSQIEVTNENKDEYIRL
VIQWRFESRVKEQMQAFLDGFGSIVPLNHLKIFDENELELLMCGIQNIDVKDWKRNTLYK
GDYYANHVIIQWFWRAVLSMSNEMRARLLQFVTGTSRIPMNGMKELYGSNGPQMFTIEKW
GTPENFPRAHTW
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 23 | g7674.t1 | CDD | cd04033 | C2_NEDD4_NEDD4L | 60 | 189 | 1.58046E-68 |
| 26 | g7674.t1 | CDD | cd00201 | WW | 222 | 251 | 5.91078E-12 |
| 25 | g7674.t1 | CDD | cd00201 | WW | 525 | 554 | 1.27204E-8 |
| 24 | g7674.t1 | CDD | cd00201 | WW | 581 | 611 | 4.58529E-12 |
| 27 | g7674.t1 | CDD | cd00078 | HECTc | 648 | 971 | 4.28302E-147 |
| 16 | g7674.t1 | Gene3D | G3DSA:2.60.40.150 | - | 53 | 216 | 1.0E-38 |
| 17 | g7674.t1 | Gene3D | G3DSA:2.20.70.10 | - | 217 | 265 | 4.5E-17 |
| 18 | g7674.t1 | Gene3D | G3DSA:2.20.70.10 | - | 524 | 559 | 4.5E-15 |
| 13 | g7674.t1 | Gene3D | G3DSA:3.90.1750.10 | Hect | 579 | 881 | 2.4E-144 |
| 14 | g7674.t1 | Gene3D | G3DSA:3.30.2160.10 | Hect | 773 | 849 | 2.4E-144 |
| 15 | g7674.t1 | Gene3D | G3DSA:3.30.2410.10 | Hect | 886 | 972 | 1.5E-31 |
| 39 | g7674.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 24 | - |
| 42 | g7674.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 15 | - |
| 41 | g7674.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 273 | 292 | - |
| 38 | g7674.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 363 | 526 | - |
| 37 | g7674.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 379 | 517 | - |
| 36 | g7674.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 549 | 575 | - |
| 40 | g7674.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 550 | 572 | - |
| 6 | g7674.t1 | PANTHER | PTHR11254:SF420 | E3 UBIQUITIN-PROTEIN LIGASE NEDD-4 | 51 | 971 | 0.0 |
| 7 | g7674.t1 | PANTHER | PTHR11254 | HECT DOMAIN UBIQUITIN-PROTEIN LIGASE | 51 | 971 | 0.0 |
| 21 | g7674.t1 | PIRSF | PIRSF001569 | E3_ub_ligase_SMURF1 | 46 | 163 | 1.1E-12 |
| 22 | g7674.t1 | PIRSF | PIRSF001569 | E3_ub_ligase_SMURF1 | 192 | 325 | 1.4E-16 |
| 20 | g7674.t1 | PIRSF | PIRSF001569 | E3_ub_ligase_SMURF1 | 308 | 504 | 18.0 |
| 19 | g7674.t1 | PIRSF | PIRSF001569 | E3_ub_ligase_SMURF1 | 473 | 972 | 1.3E-197 |
| 1 | g7674.t1 | Pfam | PF00168 | C2 domain | 59 | 156 | 1.8E-21 |
| 4 | g7674.t1 | Pfam | PF00397 | WW domain | 221 | 250 | 3.7E-12 |
| 3 | g7674.t1 | Pfam | PF00397 | WW domain | 524 | 553 | 1.6E-8 |
| 2 | g7674.t1 | Pfam | PF00397 | WW domain | 580 | 609 | 3.3E-12 |
| 5 | g7674.t1 | Pfam | PF00632 | HECT-domain (ubiquitin-transferase) | 700 | 971 | 1.0E-85 |
| 33 | g7674.t1 | ProSitePatterns | PS01159 | WW/rsp5/WWP domain signature. | 225 | 250 | - |
| 35 | g7674.t1 | ProSitePatterns | PS01159 | WW/rsp5/WWP domain signature. | 528 | 553 | - |
| 34 | g7674.t1 | ProSitePatterns | PS01159 | WW/rsp5/WWP domain signature. | 584 | 609 | - |
| 43 | g7674.t1 | ProSiteProfiles | PS50004 | C2 domain profile. | 57 | 147 | 19.07 |
| 44 | g7674.t1 | ProSiteProfiles | PS50020 | WW/rsp5/WWP domain profile. | 219 | 252 | 18.362 |
| 45 | g7674.t1 | ProSiteProfiles | PS50020 | WW/rsp5/WWP domain profile. | 522 | 555 | 15.722 |
| 46 | g7674.t1 | ProSiteProfiles | PS50020 | WW/rsp5/WWP domain profile. | 578 | 611 | 18.658 |
| 47 | g7674.t1 | ProSiteProfiles | PS50237 | HECT domain profile. | 670 | 972 | 102.698 |
| 28 | g7674.t1 | SMART | SM00239 | C2_3c | 59 | 162 | 2.7E-19 |
| 30 | g7674.t1 | SMART | SM00456 | ww_5 | 220 | 252 | 5.2E-14 |
| 31 | g7674.t1 | SMART | SM00456 | ww_5 | 523 | 555 | 1.2E-9 |
| 32 | g7674.t1 | SMART | SM00456 | ww_5 | 579 | 611 | 1.5E-14 |
| 29 | g7674.t1 | SMART | SM00119 | hect_3 | 668 | 971 | 2.6E-141 |
| 9 | g7674.t1 | SUPERFAMILY | SSF49562 | C2 domain (Calcium/lipid-binding domain, CaLB) | 58 | 187 | 8.18E-28 |
| 11 | g7674.t1 | SUPERFAMILY | SSF51045 | WW domain | 210 | 252 | 7.23E-14 |
| 10 | g7674.t1 | SUPERFAMILY | SSF51045 | WW domain | 521 | 556 | 3.77E-11 |
| 12 | g7674.t1 | SUPERFAMILY | SSF51045 | WW domain | 574 | 612 | 6.68E-14 |
| 8 | g7674.t1 | SUPERFAMILY | SSF56204 | Hect, E3 ligase catalytic domain | 630 | 971 | 6.41E-113 |
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:0006511 | ubiquitin-dependent protein catabolic process | BP |
| GO:0005515 | protein binding | MF |
| GO:0004842 | ubiquitin-protein transferase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K10591 (E3 ubiquitin-protein ligase NEDD4)
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.
