Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Protein salvador homolog 1.

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 g2963 g2963.t5 TSS g2963.t5 21604744 21604744
chr_3 g2963 g2963.t5 isoform g2963.t5 21604825 21606424
chr_3 g2963 g2963.t5 exon g2963.t5.exon1 21604825 21605675
chr_3 g2963 g2963.t5 cds g2963.t5.CDS1 21605204 21605675
chr_3 g2963 g2963.t5 exon g2963.t5.exon2 21605740 21605793
chr_3 g2963 g2963.t5 cds g2963.t5.CDS2 21605740 21605793
chr_3 g2963 g2963.t5 exon g2963.t5.exon3 21605857 21605944
chr_3 g2963 g2963.t5 cds g2963.t5.CDS3 21605857 21605944
chr_3 g2963 g2963.t5 exon g2963.t5.exon4 21606006 21606305
chr_3 g2963 g2963.t5 cds g2963.t5.CDS4 21606006 21606305
chr_3 g2963 g2963.t5 exon g2963.t5.exon5 21606361 21606424
chr_3 g2963 g2963.t5 cds g2963.t5.CDS5 21606361 21606424
chr_3 g2963 g2963.t5 TTS g2963.t5 21606529 21606529

Sequences

>g2963.t5 Gene=g2963 Length=1357
ATGCTTTCTAGGAAAAAGGACAAATCCTCCAAAACTGGTTTAGCAGGAAAATACATAAGT
ATTTCGCAAAATATGTTGTACAAAGAATAAAATTGATTAAATAGCATTTTTTGTTGTCTT
CTTATTTTCTTTTAGAAAAAGAATTGACTCCAGGAATTAAACGTAAGTGGTTTTATTTTT
TAATTGCGTTTCATGAAACTAGATAAAGTCACTTTTAGTCATAAATGTATGGACAACAAA
TACTGATCAAAAAAATACAAAATCTAAAACTCGACAGAGCGAAGAAAAATCAAAATTAAG
TATCAACAATGGTTCAACGAGCAGTAGTAGTAATATTGGTCAAGGAAAATTTTTACAAAA
CTCATCGCTTGCCTTAAACATGCTCGCGAGTCAAAAATATCATATGCAGCCAAGTAGTAG
TTCATCAATAAATTCTGAACCATCTTATTTTCATCGAACTCTTGCACATCATCATCATCC
AATCAGCAATAATAACAGTGCACTCGCGAGTGATAGTCAAAATAATTATGTAGAAATAGA
TACTCTAGAAACGTTTTTATCTGAACAACAGAATGAGCAGCAACAGCAATATTCAAATGC
TCCGTATGAAATCAATAATTACAAAGACAATAATCAACAAGTTTCAATCGACATGGCATT
ATCCTCTCCAATTTATGAAAATCAAGCAGTAGTTCGACGATCTGAATCGCCTATTTATAC
AAATACAAATCATCAAAACTCATTATATTCGACATCACAAAACTTGTACTCAAATCTACC
ACCGAGCAATTCAAATACATCAGCTTATGCAAATTTGCCTTCCAGTATCAGTTTAAATTT
AGTTCCAGCAATTCGTAGCACGCCACAATTTAATGTGAACGTTGAAGAATTGCCATTACC
TCCGGGCTGGTCAGTCGATTATACATTAAAAGGAAGAAGAAAATATTATATTGACCACAA
TACTGCAACTACACATTGGTCTCATCCACTAGACTATATAACGAGACAAGTGCAATTGCA
CAATCCCTATTTCGCATATTATTTGCCAGGCTATCATCAATATCAAGCACAACCGACTCT
CATTCATCATCAAGCATTAGTTCCTGCTAATCCATTACTTCACGTTGAAGTGCCTCACTG
GCTAAAAGTATATTGTGCTTCCTCACATGAAAAAGATCACATAATTAAATGGAATATGTT
CCAAGTTAATCAACTTATGACTATTAATGAAATGATTACAAAGCTTTTCAAAGAAGAGCT
ACATAATATTGTATTGAAATTTGAGTCAATGAGAATTGCTATAAGCTTTGAAATGGAGAA
GCGCAAGCAGCAACAAGGACCGCATTATAACAATTAA

>g2963.t5 Gene=g2963 Length=325
MLASQKYHMQPSSSSSINSEPSYFHRTLAHHHHPISNNNSALASDSQNNYVEIDTLETFL
SEQQNEQQQQYSNAPYEINNYKDNNQQVSIDMALSSPIYENQAVVRRSESPIYTNTNHQN
SLYSTSQNLYSNLPPSNSNTSAYANLPSSISLNLVPAIRSTPQFNVNVEELPLPPGWSVD
YTLKGRRKYYIDHNTATTHWSHPLDYITRQVQLHNPYFAYYLPGYHQYQAQPTLIHHQAL
VPANPLLHVEVPHWLKVYCASSHEKDHIIKWNMFQVNQLMTINEMITKLFKEELHNIVLK
FESMRIAISFEMEKRKQQQGPHYNN

Protein features from InterProScan

Transcript Database ID Name Start End E.value
9 g2963.t5 CDD cd00201 WW 174 205 0.0000008
6 g2963.t5 Gene3D G3DSA:2.20.70.10 - 166 216 0.0000000
3 g2963.t5 PANTHER PTHR47522 SALVADOR FAMILY WW DOMAIN-CONTAINING PROTEIN 1 13 205 0.0000000
2 g2963.t5 PANTHER PTHR47522 SALVADOR FAMILY WW DOMAIN-CONTAINING PROTEIN 1 224 322 0.0000000
1 g2963.t5 Pfam PF00397 WW domain 173 203 0.0000008
8 g2963.t5 ProSiteProfiles PS50020 WW/rsp5/WWP domain profile. 171 205 15.0920000
7 g2963.t5 ProSiteProfiles PS50951 SARAH domain profile. 268 315 10.5140000
5 g2963.t5 SMART SM00456 ww_5 172 205 0.0000470
4 g2963.t5 SUPERFAMILY SSF51045 WW domain 167 203 0.0000000

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:0060090 molecular adaptor activity MF
GO:0035329 hippo signaling BP
GO:0007165 signal transduction BP
GO:0005515 protein binding MF
GO:0042127 regulation of cell population proliferation BP
GO:0006915 apoptotic process 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