Gene loci information

Transcript annotation

  • This transcript has been annotated as E3 ubiquitin-protein ligase Su(dx).

Parent gene

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 g6094 g6094.t4 isoform g6094.t4 14089812 14093246
chr_2 g6094 g6094.t4 exon g6094.t4.exon1 14089812 14090171
chr_2 g6094 g6094.t4 cds g6094.t4.CDS1 14089813 14090171
chr_2 g6094 g6094.t4 exon g6094.t4.exon2 14090229 14091699
chr_2 g6094 g6094.t4 cds g6094.t4.CDS2 14090229 14091621
chr_2 g6094 g6094.t4 exon g6094.t4.exon3 14092625 14093246
chr_2 g6094 g6094.t4 TSS g6094.t4 NA NA
chr_2 g6094 g6094.t4 TTS g6094.t4 NA NA

Sequences

>g6094.t4 Gene=g6094 Length=2453
TATTGTTGCAATTATTTATTTAATGCTCTTGTAATACTTGAACTATAAAGAAATTATTAA
GCAAGATATTGAAATTAATTTATTTTGTTGATATGAAGAAATGTGCTTCACTTTTCCAGA
AAAAATATGGGGTTGATGCCGCAAATTTTCTTTTCGATTTTTTACTATAAAATTCGTATT
TTTAGCACTCACAATAATTATATTCTAAAAATATAGCGGCTAAACAAAAATAATCTTATA
TTTAAAAGGTACAAAATAAGTTATTAACTTAATAAAATCCAAAGAAAAACTTACGATAAA
ATTAGCGTTTTGAATGTTTTAGCGTCAATGAAGCAGAATATTTTCGCATCAAAAATTTTC
AAAATATTTGAATTTTTTATACGTTAAATTAGTTTTTTTTGAAAAATGCGCTCTCATTCC
AAAAGTGGATTTGAAATTTTTAGTTTTGTGTAAAAAAAGAATTGCTTGTGAGAGAAATTT
TTGTTATTTTCGTAATTTCAACTAATATTAACGCCATAAACGTATATTAAATAGTATTAA
CAATCGGTGGCTATTGGGTGATATCGAACAACTCTAGGAATAATCTTGAGATATAGGATA
TTTCGTAAAATAGTTTAATTGGATTTATATCAAAATGAATTCCTTCTTCTGAGAATTATT
TTTATTGCATCATTTGAAAGAAAAGAAATTAAGAATAATAATGGCAGATTCAAATTCGTC
AAATAGAACTCCTGCAATTAATCAAGGCTTTCATCAATTACAAATAACAATAGAGCATGC
ATCATTACGTAATTCATCGTTTTTAAAGCCAAATCCATATGTAGAACTTTCGGTCGATTC
AAATCCTGCTCGCAAAACAGATTATCAAAAGACGACATATCTGCCTAAATGGAATGACAC
ATTTACTGTGTTGGTCACACCAACATCAATTTTGCAATTCCGAGTATATGACCATTCAAA
TTTTCGCAAAGATTCATTAATTGGTGAACAAACAGTGCATTTAGTTCAAATATTACAACA
TTATAATGGTCGTTGTGAGAATTTAGAATTGGCAATGGACCTTCTTTATGAATCAAAATC
AGAAGGAAGACAAATAAAAAATGGTGAGCTAGTTGCAGTACTAAATGGTTTAAAAATCGA
TATGGTACAGAATAATGGTAATGATACTCAAGCTCGATCTGTAACAGATCTCTCGTTTCA
AAATGGTGCAATGTTGAGAAGTTCGATACTGAATGGCGGTATACGATCACGCATGAGGCT
AAGAAGTAGTAATAACAATGGTTCAATACCGACACAACAACAACAAAATGGAAATGTGAT
ACCTGCTGGTCAGAATGGTGTAAATAATAGTAGTGGATTAGTTCAAAGTCCATCAACAGG
TGCTGTAAGAAGATCTAGTGGAATGAATCAATGGGATCAACCACCATCACAACCGATGAA
TAACTATCAACGACTTACACCAGCCTTTTCAAATCCTCCTATAATGAATCCACAACAAGT
TCCTCAACCTCCACCTCAATTGCAAGCTTCTCCTTCGCCAAATTCTAATAACGCTGTAGT
TGCACCGACAGCAGCAGCAGCAGGTGTTGTAGTACCTGCACAAAATGGTGAAGTAATGCG
AGCTGCTGATGATGATGATGAAGAATTACCTTCAGGTTGGGAAAGACGAACTGATCCATT
TGGAAGAAGATATTATGTAGATCATAATACACGATCAACTTATTGGGAAAAACCATCGCC
TTTACCACCTGGTTGGGAGATTCGTAGAGACCCGAGAGGTCGAGTTTATTATGTTGATCA
TAATACAAGAACAACAACATGGCAACGTCCAAATAGTGAGCGATTAATGCATTTTCAACA
TTGGCAGGGTCAACGAGCACATGTAATGACACAGGGAAACCAAAGATTTCTCTATCCACA
ACATGCTCAGCAATCAAATACAACTCAAGCTCCAGTGCAAGATGATGAAGATGGCCTTGG
TCCATTGCCTGATGGCTGGGAAAAACGAGTGCAACCTGATAATCGAGTTTATTTTGTTAA
TCATAAAAATAGAACGACACAATGGGAGGATCCAAGAACACAGGGACAAGAAGTAAGTTT
AATGGGAGCAGAAGGACCTTTACCAAGCGGATGGGAAATACGATACACAGCAACTGGTGA
AAGATTTTTCGTTGATCATAATACGAGAAGAACAACATTTGAAGATCCTCGACCAGGAGC
TCAAAAAGGTGCAAAAGGAATGTATGGTGTACCTCGTGCATATGAAAGATCCTTCCGTTG
GAAATTAAGTCAGTTCCGTTATTTATGTCAATCAAATGCTTTACCGTCACATATAAAGAT
TACTCTCACGAGACAAACACTTTTCGAAGATTCTTATCATCAAATTATGCGATTACCTGC
TTATGAACTACGGCGAAGGCTTTACATTATATTTCGAGGAGAAGAAGGGCTCG

>g6094.t4 Gene=g6094 Length=584
MADSNSSNRTPAINQGFHQLQITIEHASLRNSSFLKPNPYVELSVDSNPARKTDYQKTTY
LPKWNDTFTVLVTPTSILQFRVYDHSNFRKDSLIGEQTVHLVQILQHYNGRCENLELAMD
LLYESKSEGRQIKNGELVAVLNGLKIDMVQNNGNDTQARSVTDLSFQNGAMLRSSILNGG
IRSRMRLRSSNNNGSIPTQQQQNGNVIPAGQNGVNNSSGLVQSPSTGAVRRSSGMNQWDQ
PPSQPMNNYQRLTPAFSNPPIMNPQQVPQPPPQLQASPSPNSNNAVVAPTAAAAGVVVPA
QNGEVMRAADDDDEELPSGWERRTDPFGRRYYVDHNTRSTYWEKPSPLPPGWEIRRDPRG
RVYYVDHNTRTTTWQRPNSERLMHFQHWQGQRAHVMTQGNQRFLYPQHAQQSNTTQAPVQ
DDEDGLGPLPDGWEKRVQPDNRVYFVNHKNRTTQWEDPRTQGQEVSLMGAEGPLPSGWEI
RYTATGERFFVDHNTRRTTFEDPRPGAQKGAKGMYGVPRAYERSFRWKLSQFRYLCQSNA
LPSHIKITLTRQTLFEDSYHQIMRLPAYELRRRLYIIFRGEEGL

Protein features from InterProScan

Transcript Database ID Name Start End E.value
19 g6094.t4 CDD cd04021 C2_E3_ubiquitin_ligase 17 142 2.46229E-52
20 g6094.t4 CDD cd00201 WW 317 347 2.19083E-10
22 g6094.t4 CDD cd00201 WW 349 377 4.71086E-12
21 g6094.t4 CDD cd00201 WW 430 459 4.54247E-11
23 g6094.t4 CDD cd00201 WW 475 505 5.31029E-9
15 g6094.t4 Gene3D G3DSA:2.60.40.150 - 16 156 9.1E-28
17 g6094.t4 Gene3D G3DSA:2.20.70.10 - 308 346 1.3E-13
18 g6094.t4 Gene3D G3DSA:2.20.70.10 - 347 383 4.0E-17
16 g6094.t4 Gene3D G3DSA:2.20.70.10 - 417 464 7.6E-19
14 g6094.t4 Gene3D G3DSA:3.90.1750.10 Hect 466 584 1.9E-34
32 g6094.t4 MobiDBLite mobidb-lite consensus disorder prediction 221 243 -
6 g6094.t4 PANTHER PTHR11254:SF396 NEDD4-LIKE E3 UBIQUITIN-PROTEIN LIGASE WWP2 5 584 5.2E-125
7 g6094.t4 PANTHER PTHR11254 HECT DOMAIN UBIQUITIN-PROTEIN LIGASE 5 584 5.2E-125
1 g6094.t4 Pfam PF00168 C2 domain 19 108 1.3E-15
2 g6094.t4 Pfam PF00397 WW domain 316 345 2.6E-10
5 g6094.t4 Pfam PF00397 WW domain 348 377 2.6E-13
3 g6094.t4 Pfam PF00397 WW domain 429 458 2.2E-12
4 g6094.t4 Pfam PF00397 WW domain 474 503 3.9E-8
25 g6094.t4 ProSitePatterns PS01159 WW/rsp5/WWP domain signature. 352 377 -
24 g6094.t4 ProSitePatterns PS01159 WW/rsp5/WWP domain signature. 433 458 -
26 g6094.t4 ProSitePatterns PS01159 WW/rsp5/WWP domain signature. 478 503 -
33 g6094.t4 ProSiteProfiles PS50004 C2 domain profile. 19 98 11.996
35 g6094.t4 ProSiteProfiles PS50020 WW/rsp5/WWP domain profile. 314 347 17.574
34 g6094.t4 ProSiteProfiles PS50020 WW/rsp5/WWP domain profile. 346 379 18.776
36 g6094.t4 ProSiteProfiles PS50020 WW/rsp5/WWP domain profile. 427 460 18.283
37 g6094.t4 ProSiteProfiles PS50020 WW/rsp5/WWP domain profile. 472 505 15.447
27 g6094.t4 SMART SM00239 C2_3c 19 113 4.4E-9
28 g6094.t4 SMART SM00456 ww_5 315 347 8.8E-11
29 g6094.t4 SMART SM00456 ww_5 348 379 1.2E-11
31 g6094.t4 SMART SM00456 ww_5 428 460 3.3E-13
30 g6094.t4 SMART SM00456 ww_5 473 505 2.9E-11
9 g6094.t4 SUPERFAMILY SSF49562 C2 domain (Calcium/lipid-binding domain, CaLB) 16 130 1.29E-17
12 g6094.t4 SUPERFAMILY SSF51045 WW domain 309 346 4.9E-12
10 g6094.t4 SUPERFAMILY SSF51045 WW domain 346 379 2.52E-13
11 g6094.t4 SUPERFAMILY SSF51045 WW domain 422 461 4.79E-14
13 g6094.t4 SUPERFAMILY SSF51045 WW domain 469 504 2.23E-11
8 g6094.t4 SUPERFAMILY SSF56204 Hect, E3 ligase catalytic domain 526 583 1.44E-6

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.

Raw TPM values