Gene loci information

Transcript annotation

  • This transcript has been annotated as Segment polarity protein dishevelled homolog DVL-3.

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_3 g2662 g2662.t1 TTS g2662.t1 19446055 19446055
chr_3 g2662 g2662.t1 isoform g2662.t1 19447080 19449830
chr_3 g2662 g2662.t1 exon g2662.t1.exon1 19447080 19447153
chr_3 g2662 g2662.t1 cds g2662.t1.CDS1 19447080 19447153
chr_3 g2662 g2662.t1 exon g2662.t1.exon2 19447241 19447609
chr_3 g2662 g2662.t1 cds g2662.t1.CDS2 19447241 19447609
chr_3 g2662 g2662.t1 exon g2662.t1.exon3 19447691 19447884
chr_3 g2662 g2662.t1 cds g2662.t1.CDS3 19447691 19447884
chr_3 g2662 g2662.t1 exon g2662.t1.exon4 19447949 19448201
chr_3 g2662 g2662.t1 cds g2662.t1.CDS4 19447949 19448201
chr_3 g2662 g2662.t1 exon g2662.t1.exon5 19448261 19448414
chr_3 g2662 g2662.t1 cds g2662.t1.CDS5 19448261 19448414
chr_3 g2662 g2662.t1 exon g2662.t1.exon6 19448561 19448652
chr_3 g2662 g2662.t1 cds g2662.t1.CDS6 19448561 19448652
chr_3 g2662 g2662.t1 exon g2662.t1.exon7 19448798 19449224
chr_3 g2662 g2662.t1 cds g2662.t1.CDS7 19448798 19449224
chr_3 g2662 g2662.t1 exon g2662.t1.exon8 19449406 19449475
chr_3 g2662 g2662.t1 cds g2662.t1.CDS8 19449406 19449475
chr_3 g2662 g2662.t1 exon g2662.t1.exon9 19449625 19449830
chr_3 g2662 g2662.t1 cds g2662.t1.CDS9 19449625 19449830
chr_3 g2662 g2662.t1 TSS g2662.t1 19450468 19450468

Sequences

>g2662.t1 Gene=g2662 Length=1839
ATGGCAGAAGATGACGATAATAATCAAGTGTATCATCAAAAGGAGACAAAAATCATTTAT
CACATCGATGAAGAGACAACACCATACTTGGTTAAAATTCCACTTCCACCATCTCAAGTG
AAATTGAGAGATTTTAAAATAATCTTGAGCAAGCAACAAACGTGCAATTATAAATTCTTC
TTTAAGTCTATGGATGCTGATTTTGGAGTCGTGAAAGAAGAAATAATTGATGATAATACA
GTTCTTCCATGTTTCAATAATAAAGTTGTTTGTTGGTTGGTAACAGCAACAGATACAACA
TCTAACGCATCAGAAAATCAACATACCACTGATGGTGTTGAGCACAAAGTGCGACATGGA
CCAGATGGAAAGCTTACGTATCAGGCTGTTACTAATTTCCTCTCATCGTCATCTGATCTG
GCTTCTTCGACCTCCTTCTTTGACGATGATGAAACTGAAAATGATATGGATAAAATGAAG
CATGAAAATTATTATGATTTTGATGAAAATTTAACGGAATATTCGTCAATACTATCAAGT
CAGCAGAACAATCGATTGAGAATTAGAAAGAAACCACAAAAAAGAAAAAAGCGCCCCAAT
CAGCAAATGTCGCGCACTTCATCCTATAGCTCAATTACAGACTCAACTATGTCATTAAAT
ATAATCACGGTGACACTAAATATGGATACAGTGAACTTTCTAGGTATATCAATAGTCGGG
CAATCAAATCGTGGTGGAGATGGTGGTATTTACGTTGGAAGTATTATGAAAGGAGGAGCA
GTGCAGCTTGACGGGAGAATTGAACCGGGCGATATGATTTTACAAGTGAATGACATAAAT
TTTGAAAATATGACCAATGATGAAGCTGTTAAAATATTGCGCGAAGTCGTTCAAAAACCC
GGACCAGTAAGACTGGTTGTAGCCAAATGTTGGGACCCAAATCCAAAAGGTTACTTTACA
ATACCACGTTCTGAGCCAGTTCGTCCAATTGATCCATCAGCATGGCTAGCTCATACAAAT
GCACTACGCTCAACTGAAAATTTAGAAACCGAATCCGAAGTTTTAATGGCTGTTCATCCT
CGCTTAAATGTCAACATGCCATACAAAGTAATTGTACAAGCAATGAAAAAACCAGACAGT
GGTTTAGAAATTCGTGATAGATTATGGCTTAAGATCACAATACCAAATGCTTTTATAGGA
AGTGACCTCGTTAACTGGATACTACAGAATGTTGACGGAATCAGTGATAGAAGAGAGGCG
AGAAAATTCATTGGCAATATGTTGCGAAAAAATTATATAAAGCACACGGTGAACAAATTG
ACTTTTAGTGAAAATTCCTATTATCAGTTTGGAGAGGGTGACGGTTCGAGTGGACATTTA
TTGAATGAGGACGATGACTCTGCTTCAACATTGATTGGACACAGTCCATATATGGACGAT
TCCGAAAGTATTATTAGTGAACATGTTTCCCATTTGCCATCACATGTCAATACTCTTCCT
CATCAAATAGGAACACCACCGAGTCTTCCTACACCACCTGACTGTTTTTTACCTGGACAG
GCTCATTACTTTACAGTTGGCAGCAGCGTGAGTGCAAACGATCCCAATTATTATGTCATT
GAAAAACCAATGTCAATGATAAGCGGCGGCACTTTACCTCACATGCAAAAGGCATCATCA
AAATCGAGCACAACATCCAAAAGCTGTTCATCAACAGAAAGCCAAAAATATATGATTAAA
AATTTAATTCAGCAGACGAATCACATGTCCATCAAAAATGGCGATAAAAATTCCAAATCA
TCGTCCAATTCCTCATCGAAGGGCCATCAACATGATTAA

>g2662.t1 Gene=g2662 Length=612
MAEDDDNNQVYHQKETKIIYHIDEETTPYLVKIPLPPSQVKLRDFKIILSKQQTCNYKFF
FKSMDADFGVVKEEIIDDNTVLPCFNNKVVCWLVTATDTTSNASENQHTTDGVEHKVRHG
PDGKLTYQAVTNFLSSSSDLASSTSFFDDDETENDMDKMKHENYYDFDENLTEYSSILSS
QQNNRLRIRKKPQKRKKRPNQQMSRTSSYSSITDSTMSLNIITVTLNMDTVNFLGISIVG
QSNRGGDGGIYVGSIMKGGAVQLDGRIEPGDMILQVNDINFENMTNDEAVKILREVVQKP
GPVRLVVAKCWDPNPKGYFTIPRSEPVRPIDPSAWLAHTNALRSTENLETESEVLMAVHP
RLNVNMPYKVIVQAMKKPDSGLEIRDRLWLKITIPNAFIGSDLVNWILQNVDGISDRREA
RKFIGNMLRKNYIKHTVNKLTFSENSYYQFGEGDGSSGHLLNEDDDSASTLIGHSPYMDD
SESIISEHVSHLPSHVNTLPHQIGTPPSLPTPPDCFLPGQAHYFTVGSSVSANDPNYYVI
EKPMSMISGGTLPHMQKASSKSSTTSKSCSSTESQKYMIKNLIQQTNHMSIKNGDKNSKS
SSNSSSKGHQHD

Protein features from InterProScan

Transcript Database ID Name Start End E.value
17 g2662.t1 CDD cd00992 PDZ_signaling 221 308 6.508E-21
18 g2662.t1 CDD cd04438 DEP_dishevelled 371 452 1.23438E-42
14 g2662.t1 Gene3D G3DSA:3.10.20.380 - 12 96 1.7E-36
15 g2662.t1 Gene3D G3DSA:2.30.42.10 - 216 315 3.0E-31
16 g2662.t1 Gene3D G3DSA:1.10.10.10 winged helix repressor DNA binding domain 350 452 5.6E-30
25 g2662.t1 MobiDBLite mobidb-lite consensus disorder prediction 179 211 -
23 g2662.t1 MobiDBLite mobidb-lite consensus disorder prediction 187 201 -
22 g2662.t1 MobiDBLite mobidb-lite consensus disorder prediction 553 612 -
24 g2662.t1 MobiDBLite mobidb-lite consensus disorder prediction 553 605 -
5 g2662.t1 PANTHER PTHR10878:SF25 SEGMENT POLARITY PROTEIN DISHEVELLED 15 607 4.8E-174
6 g2662.t1 PANTHER PTHR10878 SEGMENT POLARITY PROTEIN DISHEVELLED 15 607 4.8E-174
10 g2662.t1 PRINTS PR01760 Dishevelled protein signature 298 312 2.3E-15
9 g2662.t1 PRINTS PR01760 Dishevelled protein signature 332 344 2.3E-15
7 g2662.t1 PRINTS PR01760 Dishevelled protein signature 409 419 2.3E-15
8 g2662.t1 PRINTS PR01760 Dishevelled protein signature 435 446 2.3E-15
1 g2662.t1 Pfam PF00778 DIX domain 15 94 1.3E-28
2 g2662.t1 Pfam PF02377 Dishevelled specific domain 102 219 1.7E-8
4 g2662.t1 Pfam PF00595 PDZ domain 224 307 2.0E-18
3 g2662.t1 Pfam PF00610 Domain found in Dishevelled, Egl-10, and Pleckstrin (DEP) 381 450 2.9E-16
26 g2662.t1 ProSiteProfiles PS50841 DIX domain profile. 13 97 25.569
28 g2662.t1 ProSiteProfiles PS50106 PDZ domain profile. 223 295 19.32
27 g2662.t1 ProSiteProfiles PS50186 DEP domain profile. 378 452 26.258
20 g2662.t1 SMART SM00021 dax_2 13 97 2.6E-44
19 g2662.t1 SMART SM00228 pdz_new 232 311 3.2E-17
21 g2662.t1 SMART SM00049 DEP_3 378 452 3.0E-24
13 g2662.t1 SUPERFAMILY SSF54236 Ubiquitin-like 14 95 3.31E-22
12 g2662.t1 SUPERFAMILY SSF50156 PDZ domain-like 201 312 5.65E-25
11 g2662.t1 SUPERFAMILY SSF46785 Winged helix DNA-binding domain 364 466 3.21E-27

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:0016055 Wnt signaling pathway BP
GO:0035556 intracellular signal transduction BP

KEGG

Orthology

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.

Raw TPM values