Gene loci information

Transcript annotation

  • This transcript has been annotated as Serine/threonine-protein phosphatase 5.

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 g3707 g3707.t2 TSS g3707.t2 27568731 27568731
chr_3 g3707 g3707.t2 isoform g3707.t2 27568802 27569872
chr_3 g3707 g3707.t2 exon g3707.t2.exon1 27568802 27568892
chr_3 g3707 g3707.t2 cds g3707.t2.CDS1 27568802 27568892
chr_3 g3707 g3707.t2 exon g3707.t2.exon2 27569257 27569872
chr_3 g3707 g3707.t2 cds g3707.t2.CDS2 27569257 27569870
chr_3 g3707 g3707.t2 TTS g3707.t2 27570813 27570813

Sequences

>g3707.t2 Gene=g3707 Length=707
ATGGCAACTGAAGTCAAAAATGGAAGTCCAACTGCAGAGCAGATAGCAGAGGCTGATAAA
TATAAAGAACAAGCTAATGAATACTTCAAAAATAAAATATATGATAAGGCTATCGAGTTA
TATTCAAAGGCAATTGAGTTAGACCCAAATAATGCAGTTTATTATGCAAACAGATCACTT
GCAAATCTTCGAACAGAATTATTTGGATATGCACTTAACGATGCTGTTAAGGCTGTAAAG
GCTGATCCAGGATACTTAAAAGGATATTATCGTCGAGCGGCAGCACATATGTCTTTAGGA
AAATTCAAACTCGCACTTGCTGACTTTGAGATTGTAAGTAAGAGAAGACCAAACGATTCC
GATGCTAAAAAGAAATTCGTAGAGTGCAATAAGATTGTAAAAAAGATTGCATTCGAGAGA
GCGATTGCTGTTGATAGACCAGAAAAAACTCTGGCTGAAATGTATCAAAGTTTAGACTCG
ATCTCAATTGAAGATGATTATAATGGACCAAAATTAAAAGACGACGAAACAGTTACCATA
GAATTTATGAAAGAGCTAATGCAATGGTACAAAGATCAAAAGAAATTACACAAGAAGTTT
GCTTATAAAATTCTTTACGACATTGATTCCTATCTAAGGAAACAGCCTTCACTCGTTGAT
ATTTCAATTCCTGATGAAGGAAAATTTACGATTTGTGGAGATATTCA

>g3707.t2 Gene=g3707 Length=235
MATEVKNGSPTAEQIAEADKYKEQANEYFKNKIYDKAIELYSKAIELDPNNAVYYANRSL
ANLRTELFGYALNDAVKAVKADPGYLKGYYRRAAAHMSLGKFKLALADFEIVSKRRPNDS
DAKKKFVECNKIVKKIAFERAIAVDRPEKTLAEMYQSLDSISIEDDYNGPKLKDDETVTI
EFMKELMQWYKDQKKLHKKFAYKILYDIDSYLRKQPSLVDISIPDEGKFTICGDI

Protein features from InterProScan

Transcript Database ID Name Start End E.value
10 g3707.t2 Gene3D G3DSA:1.25.40.10 - 7 169 0.0000e+00
11 g3707.t2 Gene3D G3DSA:3.60.21.10 - 170 235 0.0000e+00
3 g3707.t2 PANTHER PTHR45668 SERINE/THREONINE-PROTEIN PHOSPHATASE 5-RELATED 17 235 0.0000e+00
4 g3707.t2 PANTHER PTHR45668:SF12 BNAC09G39960D PROTEIN 17 235 0.0000e+00
2 g3707.t2 Pfam PF00515 Tetratricopeptide repeat 19 51 0.0000e+00
1 g3707.t2 Pfam PF08321 PPP5 TPR repeat region 128 220 0.0000e+00
13 g3707.t2 ProSiteProfiles PS50005 TPR repeat profile. 18 51 1.2567e+01
14 g3707.t2 ProSiteProfiles PS50293 TPR repeat region circular profile. 18 119 2.0680e+01
12 g3707.t2 ProSiteProfiles PS50005 TPR repeat profile. 86 119 7.4340e+00
9 g3707.t2 SMART SM00028 tpr_5 18 51 3.0000e-07
8 g3707.t2 SMART SM00028 tpr_5 52 85 1.2000e+02
7 g3707.t2 SMART SM00028 tpr_5 86 119 1.4000e-03
5 g3707.t2 SUPERFAMILY SSF48452 TPR-like 17 130 0.0000e+00
6 g3707.t2 SUPERFAMILY SSF56300 Metallo-dependent phosphatases 177 235 1.1400e-05

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

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