General information for g3719.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Serine/threonine-protein phosphatase 4 regulatory subunit 3.
Parent gene
- The parent gene g3719 is located on chr_3: 27639448..27640122 (- 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_3 | g3719 | g3719.t1 | TTS | g3719.t1 | 27636431 | 27636431 |
| chr_3 | g3719 | g3719.t1 | isoform | g3719.t1 | 27637074 | 27640122 |
| chr_3 | g3719 | g3719.t1 | exon | g3719.t1.exon1 | 27637074 | 27637160 |
| chr_3 | g3719 | g3719.t1 | cds | g3719.t1.CDS1 | 27637074 | 27637160 |
| chr_3 | g3719 | g3719.t1 | exon | g3719.t1.exon2 | 27637227 | 27637693 |
| chr_3 | g3719 | g3719.t1 | cds | g3719.t1.CDS2 | 27637227 | 27637693 |
| chr_3 | g3719 | g3719.t1 | exon | g3719.t1.exon3 | 27637757 | 27637893 |
| chr_3 | g3719 | g3719.t1 | cds | g3719.t1.CDS3 | 27637757 | 27637893 |
| chr_3 | g3719 | g3719.t1 | exon | g3719.t1.exon4 | 27637951 | 27638098 |
| chr_3 | g3719 | g3719.t1 | cds | g3719.t1.CDS4 | 27637951 | 27638098 |
| chr_3 | g3719 | g3719.t1 | exon | g3719.t1.exon5 | 27638165 | 27638214 |
| chr_3 | g3719 | g3719.t1 | cds | g3719.t1.CDS5 | 27638165 | 27638214 |
| chr_3 | g3719 | g3719.t1 | exon | g3719.t1.exon6 | 27638294 | 27638549 |
| chr_3 | g3719 | g3719.t1 | cds | g3719.t1.CDS6 | 27638294 | 27638549 |
| chr_3 | g3719 | g3719.t1 | exon | g3719.t1.exon7 | 27638616 | 27639938 |
| chr_3 | g3719 | g3719.t1 | cds | g3719.t1.CDS7 | 27638616 | 27639938 |
| chr_3 | g3719 | g3719.t1 | exon | g3719.t1.exon8 | 27640002 | 27640122 |
| chr_3 | g3719 | g3719.t1 | cds | g3719.t1.CDS8 | 27640002 | 27640122 |
| chr_3 | g3719 | g3719.t1 | TSS | g3719.t1 | 27640929 | 27640929 |
Sequences
>g3719.t1 Gene=g3719 Length=2589
ATGACAACACAAGACACAAGTACACGGAGACGAGTGAAGCTTTATGCGCTAAATGCTGAT
CGACAATGGGACGATCGTGGAACAGGTCATGTAACTTCAAGTTATGTAGATCGATTGAAA
GGCATTTCACTGCTGGTGCGTGCAGAAAATGATGGATCACTGTTGCTTGAAAGCAAAATT
CAGCCAGACACTGCCTATCAAAAACAGCAAGATACACTGATTGTATGGAGTGAGGGCGAT
AATTTTGATTTAGCACTCAGTTTCCAAGAAAAGGCTGGCTGTGACGAGATTTGGGAGAAA
ATATGTCAAGTTCAAGGAAAAGATCCTTCAGTTGATACAACACAAGATCTCGTTGAAGAG
TCAGAAGACGAACGATATGAAGATCTTCCTGATTCTGTTCCTCCAATTGAATTACCGCCA
TGTGAAATTTCCCGCTTAGAAGAAATCAGTGAGCTGATATCTCAATGTCTCAACACACAA
ATACGTAAAGAAAAATTGGCAGTTGCATTAGAACAAGAGAATTATATTAAGAAATTGCTT
AATTTATTTCACATGTGCGAAGATTTGGAGAATCAAGAAGGACTCCATTGTCTCTTTGAA
ATTTTCAAAAATATTTTTTTACTAAATCGCACGCAACTCTTTGAAATTATGTTTGCCGAA
GACACTATTTTTGATGTTGTTGGATGTTTGGAATATGATCCAGTTGCTGGCACTCCCAAG
AGACATCGAAATTATCTTAAGCAATTCTCAAAGTTCCGTGAGCCAATAGAAATTAAAAAT
CCGGATTTGTTGGCGAAAATTCACCAGACATATCGTGTTCAGTACATACAAGATATTGTT
TTACCAGCACCGTCTGTATTTGAGGATGCAATGCTGAATTCTCTGTCTAGTTTCATATTT
TTTAATAAATGCGAGATTGTGACACTAATTCAAGAGGACGAAAAGTACTTGGACGATCTC
TTCTCTTTATTAAGCGATCTAAATACACCACTCGATAAGCGTCGAGACTCTGTTTTATTC
TTGAAAGAATTTTGTAGCTATGCACAACTCTTGCAACCGCATGCAAAAGAAGCATTTTAT
AAAAGCTTGATCACACTTGGAATTTTACCCGCATTGGAAATCATACTTAATATTAATGAT
CCTAAAATCAAGTCAGCTTCAATTGATATTCTTACAACTATCGTCGAATATTCACCATCG
TTAATACGAGATTACACTTTATCGCAATATACCAATCCTGAACATGATGAAGATCAGTGT
TTACTGAATATTACAATAGAACAAATGCTTAGTGATTCAGAACCTGAACTTGGTGGTGCT
GTGCAGCTAATGGGTGTTATAAGAATTCTCTTAGATCCTGAAACCATGCTCGCGAGTGCT
AACAAAGCCGAGAAGACAGATTTTCTCAATTTCTTTTATAGAAATTCCATTCACATACTT
ATTGAGCCACTTCTCAAAAATACAGTTAATGACAAACCTGCAAATGAAGATTATCACACT
GTTCAATTATTGGGTTTAGTGTTAGAACTCCTTTCGTTTTGCGTGGAGCATCACAGCTAT
CATATTAAGAATTGCATAATTAGCAAAGACTTGTTGCGACGAATTCTAGTACTAATGAAG
TCAACACACACATTTTTGGTATTATGTGCATTGAGATTTCTACGTAAAATTATTTCTATG
AAGGATGATTTTTACAATCGATACATCATGAAAGGAAACTTATTCGCACCCGTCGTTGAA
GCTTTCGTTCAGGATATTAAAATCTTGTGCACCTATGTTGTAGAGAATTTTGGCAAAGTT
TTCGAAGAGATTCAGTATGTACAGACTTTTAAAAATCTTCGCAGCAAATATGATCAGCAT
CAAGATAGAATCAAAGACAAGGAGAAAGGATTTGATACAATGCTTTCAAATCTACGAAAT
CAACGCTATAGAAGAGATCAAAGACAACCACCAGAAGAAGAAGAAATGTGGTTTAACGAA
GAAGATGATTTTGAAGATGTTCCCGCTACAGCATCAGATTTGGACAACAGCATAAGTAAA
ATAATGGACAAAAAATCAGAACTTATAAATGGTCCAATTAAACTTCATCATCAGCATCAT
CATCACCACCATCAATCGCTACAAATTCATGGTTCACAACAAACGATATCGTCTCATACA
GTTGTTAATACAAATAATAGTAGTAGTAGTGTAAATGAAAGTAACAATAATATGAAATCT
ACCGAGACAGTAACATCTTCACAAGTTCAAGAACAAGAAAAAGATGAAACAAATGCCGTT
AAAAATGCCACTTCTTTAACAGATGTATCATATGAGAATACCGATAGTAGTGGAAGTAAG
CTTTTAGCTGAGGTTCTTGACGAAACTCCGTTTGACAATGAAAATAATTCGTTCAGCGAT
GAATCATCGTCAAAAAGTGATAATGAAGTAATTGATAATAATGTTAAGGATGACAGTTTA
TCGATTAAGAGAAATGTGGATAAGGACGTGTCTCTAAAGAAATCTCTTGTCGATTACGAG
GCAGGAGATTCGGATGAAGAAGAAAATGGTGATGATTCTCCTGCGCAGAAAAAACAGCGA
CTAGCATAG
>g3719.t1 Gene=g3719 Length=862
MTTQDTSTRRRVKLYALNADRQWDDRGTGHVTSSYVDRLKGISLLVRAENDGSLLLESKI
QPDTAYQKQQDTLIVWSEGDNFDLALSFQEKAGCDEIWEKICQVQGKDPSVDTTQDLVEE
SEDERYEDLPDSVPPIELPPCEISRLEEISELISQCLNTQIRKEKLAVALEQENYIKKLL
NLFHMCEDLENQEGLHCLFEIFKNIFLLNRTQLFEIMFAEDTIFDVVGCLEYDPVAGTPK
RHRNYLKQFSKFREPIEIKNPDLLAKIHQTYRVQYIQDIVLPAPSVFEDAMLNSLSSFIF
FNKCEIVTLIQEDEKYLDDLFSLLSDLNTPLDKRRDSVLFLKEFCSYAQLLQPHAKEAFY
KSLITLGILPALEIILNINDPKIKSASIDILTTIVEYSPSLIRDYTLSQYTNPEHDEDQC
LLNITIEQMLSDSEPELGGAVQLMGVIRILLDPETMLASANKAEKTDFLNFFYRNSIHIL
IEPLLKNTVNDKPANEDYHTVQLLGLVLELLSFCVEHHSYHIKNCIISKDLLRRILVLMK
STHTFLVLCALRFLRKIISMKDDFYNRYIMKGNLFAPVVEAFVQDIKILCTYVVENFGKV
FEEIQYVQTFKNLRSKYDQHQDRIKDKEKGFDTMLSNLRNQRYRRDQRQPPEEEEMWFNE
EDDFEDVPATASDLDNSISKIMDKKSELINGPIKLHHQHHHHHHQSLQIHGSQQTISSHT
VVNTNNSSSSVNESNNNMKSTETVTSSQVQEQEKDETNAVKNATSLTDVSYENTDSSGSK
LLAEVLDETPFDNENNSFSDESSSKSDNEVIDNNVKDDSLSIKRNVDKDVSLKKSLVDYE
AGDSDEEENGDDSPAQKKQRLA
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 15 | g3719.t1 | Coils | Coil | Coil | 610 | 630 | - |
| 14 | g3719.t1 | Gene3D | G3DSA:2.30.29.30 | - | 5 | 126 | 7.0E-43 |
| 13 | g3719.t1 | Gene3D | G3DSA:1.25.10.10 | - | 290 | 646 | 1.1E-5 |
| 9 | g3719.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 695 | 775 | - |
| 10 | g3719.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 708 | 775 | - |
| 11 | g3719.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 790 | 810 | - |
| 12 | g3719.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 790 | 804 | - |
| 8 | g3719.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 839 | 862 | - |
| 2 | g3719.t1 | PANTHER | PTHR23318:SF3 | SERINE/THREONINE-PROTEIN PHOSPHATASE 4 REGULATORY SUBUNIT 3A | 6 | 584 | 4.5E-290 |
| 4 | g3719.t1 | PANTHER | PTHR23318 | ATP SYNTHASE GAMMA-RELATED | 6 | 584 | 4.5E-290 |
| 3 | g3719.t1 | PANTHER | PTHR23318:SF3 | SERINE/THREONINE-PROTEIN PHOSPHATASE 4 REGULATORY SUBUNIT 3A | 583 | 730 | 4.5E-290 |
| 5 | g3719.t1 | PANTHER | PTHR23318 | ATP SYNTHASE GAMMA-RELATED | 583 | 730 | 4.5E-290 |
| 1 | g3719.t1 | Pfam | PF04802 | Component of IIS longevity pathway SMK-1 | 172 | 363 | 1.2E-71 |
| 17 | g3719.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 534 | - |
| 18 | g3719.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 535 | 554 | - |
| 16 | g3719.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 555 | 862 | - |
| 6 | g3719.t1 | SUPERFAMILY | SSF50729 | PH domain-like | 9 | 105 | 1.85E-16 |
| 7 | g3719.t1 | SUPERFAMILY | SSF48371 | ARM repeat | 139 | 605 | 8.81E-8 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K17491 (protein phosphatase 4 regulatory subunit 3)
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.
