Neuropeptide-42

Overview
NameNeuropeptide-42
Smed IDSMED30033087
Length (bp)225
Neoblast Clusters

Zeng et. al., 2018



 

 

Overview

 

Single cell RNA-seq of pluripotent neoblasts and its early progenies


We isolated X1 neoblasts cells enriched in high piwi-1 expression (Neoblast Population), and profiled ∼7,614 individual cells via scRNA-seq. Unsupervised analyses uncovered 12 distinct classes from 7,088 high-quality cells. We designated these classes Nb1 to Nb12 and ordered them based on high (Nb1) to low (Nb12) piwi-1 expression levels. We further defined groups of genes that best classified the cells parsed into 12 distinct cell clusters to generate a scaled expression heat map of discriminative gene sets for each cluster. Expression of each cluster’s gene signatures was validated using multiplex fluorescence in situ hybridization (FISH) co-stained with piwi-1 and largely confirmed the cell clusters revealed by scRNA-seq.

We also tested sub-lethal irradiation exposure. To profile rare pluripotent stem cells (PSCs) and avoid interference from immediate progenitor cells, we determined a time point after sub-lethal irradiation (7 DPI) with minimal piwi-1+ cells, followed by isolation and single-cell RNA-seq of 1,200 individual cells derived from X1 (Piwi-1 high) and X2 (Piwi-1 low) cell populations (Sub-lethal Irradiated Surviving X1 and X2 Cell Population)



Explore this single cell expression dataset with our NB Cluster Shiny App



Embryonic Expression

Davies et. al., 2017

Hover the mouse over a column in the graph to view average RPKM values per sample.
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Embryonic Stages: Y: yolk. S2-S8: Stages 2-8. C4: asexual adult. SX: virgin, sexually mature adult.
For further information about sample preparation and analysis for the single animal RNA-Seq experiment, please refer to the Materials and Methods

 

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Anatomical Expression

PAGE et. al., 2020



SMED30033087

has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGE



PAGE Curations: 3

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
prepharyngeal regionSMED30033087 SmedASXL_043107SmedAsxl_ww_GCZZ01PMID:27034770
Currie et al., 2016		whole organism asexual adult RNA-sequencing evidence
parapharyngeal regionSMED30033087 SmedASXL_043107SmedAsxl_ww_GCZZ01PMID:27034770
Currie et al., 2016		whole organism asexual adult RNA-sequencing evidence
parapharyngeal regionSMED30033087 GU295181smed_ncbi_20240424PMID:20967238
Collins JJ et al., 2010		whole organism asexual adult colorimetric in situ hybridization evidence
Note: Hover over icons to view figure legend
Homology
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BLAST of Neuropeptide-42 vs. TrEMBL
Match: E3T7U3 (Secreted peptide prohormone 8 OS=Schmidtea mediterranea OX=79327 PE=2 SV=1)

HSP 1 Score: 120.553 bits (301), Expect = 2.522e-34
Identity = 60/60 (100.00%), Postives = 60/60 (100.00%), Query Frame = 2 
Query:    2 MKIIILLAIFLAVCAFEALGEVEKRTMGFGFNRNMLLYKRMLEKRLIDPMTFGSGFANLR 181
            MKIIILLAIFLAVCAFEALGEVEKRTMGFGFNRNMLLYKRMLEKRLIDPMTFGSGFANLR
Sbjct:    1 MKIIILLAIFLAVCAFEALGEVEKRTMGFGFNRNMLLYKRMLEKRLIDPMTFGSGFANLR 60
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BLAST of Neuropeptide-42 vs. TrEMBL
Match: E3T7U0 (Secreted peptide prohormone 7 OS=Schmidtea mediterranea OX=79327 PE=2 SV=1)

HSP 1 Score: 88.9669 bits (219), Expect = 8.018e-22
Identity = 42/60 (70.00%), Postives = 50/60 (83.33%), Query Frame = 2 
Query:    2 MKIIILLAIFLAVCAFEALGEVEKRTMGFGFNRNMLLYKRMLEKRLIDPMTFGSGFANLR 181
            MK II L + L +C   A+ E++KRT+GFGFNRN+ LYKRMLEKRLIDPMTFGSGFANL+
Sbjct:    1 MKFIISLFVVLFLCVVMAMSEIDKRTVGFGFNRNLHLYKRMLEKRLIDPMTFGSGFANLK 60
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BLAST of Neuropeptide-42 vs. TrEMBL
Match: E3T7T9 (Secreted peptide prohormone 6 OS=Schmidtea mediterranea OX=79327 PE=2 SV=1)

HSP 1 Score: 77.411 bits (189), Expect = 3.951e-17
Identity = 37/62 (59.68%), Postives = 48/62 (77.42%), Query Frame = 2 
Query:    2 MKIIILLAI--FLAVCAFEALGEVEKRTMGFGFNRNMLLYKRMLEKRLIDPMTFGSGFANLR 181
            +KI IL+++  F+A+C    L E++KR  G GFNRN  +YKRMLEKRLIDPMTFG GF+NL+
Sbjct:    2 IKIRILMSVLLFMAICLAAGLAEIDKRIPGIGFNRNFAIYKRMLEKRLIDPMTFGYGFSNLK 63
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BLAST of Neuropeptide-42 vs. TrEMBL
Match: A0A193PE78 (Neuropeptide-42 (Fragment) OS=Dugesia japonica OX=6161 GN=DjNp42 PE=2 SV=1)

HSP 1 Score: 68.9366 bits (167), Expect = 4.603e-14
Identity = 33/42 (78.57%), Postives = 35/42 (83.33%), Query Frame = 2 
Query:   41 CAFEALGEVEKRTMGFGFNRNMLLYKRMLEKRLIDPMTFGSG 166
            CA  AL E+EKRTMGFG N N  LYKR+LEKRLIDPMTFGSG
Sbjct:    2 CAMGALCELEKRTMGFGLNSNYRLYKRLLEKRLIDPMTFGSG 43
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BLAST of Neuropeptide-42 vs. TrEMBL
Match: E3CTK1 (Secreted peptide prohormone-9 OS=Schmidtea mediterranea OX=79327 PE=2 SV=1)

HSP 1 Score: 55.4546 bits (132), Expect = 1.513e-8
Identity = 29/59 (49.15%), Postives = 38/59 (64.41%), Query Frame = 2 
Query:    2 MKIIILLAIFLAVCAFEALGEVEKRTMGFGFNRNMLLYKRMLEKRLIDPMTFGSGFANL 178
            M  +I+L I   VC       V+KR++ +  N    LYKR +EKRLIDP+TFGSGF+NL
Sbjct:    1 MNSLIILLIVALVCLANVCCGVQKRSLPY--NPEYELYKRFVEKRLIDPLTFGSGFSNL 57
The following BLAST results are available for this feature:
BLAST of Neuropeptide-42 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of Neuropeptide-42 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of Neuropeptide-42 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of Neuropeptide-42 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of Neuropeptide-42 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of Neuropeptide-42 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of Neuropeptide-42 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of Neuropeptide-42 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
E3T7U32.522e-34100.00Secreted peptide prohormone 8 OS=Schmidtea mediter... [more]
E3T7U08.018e-2270.00Secreted peptide prohormone 7 OS=Schmidtea mediter... [more]
E3T7T93.951e-1759.68Secreted peptide prohormone 6 OS=Schmidtea mediter... [more]
A0A193PE784.603e-1478.57Neuropeptide-42 (Fragment) OS=Dugesia japonica OX=... [more]
E3CTK11.513e-849.15Secreted peptide prohormone-9 OS=Schmidtea mediter... [more]
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BLAST of Neuropeptide-42 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of Neuropeptide-42 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of Neuropeptide-42 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of Neuropeptide-42 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of Neuropeptide-42 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of Neuropeptide-42 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 0
Match NameE-valueIdentityDescription
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30033087 ID=SMED30033087|Name=Neuropeptide-42|organism=Schmidtea mediterranea sexual|type=transcript|length=225bp
CATGAAAATTATTATTTTACTAGCTATTTTTCTGGCTGTTTGTGCTTTTG
AAGCCTTAGGAGAGGTAGAGAAGCGGACTATGGGATTCGGATTCAACAGA
AATATGCTTCTGTATAAGCGAATGCTGGAGAAGAGACTAATAGATCCGAT
GACATTTGGGTCAGGGTTTGCCAACCTGAGATAAAAATGAACATTTTTCT
CATTAATAAATGTTTCATCATGTTT
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000420parapharyngeal region
Vocabulary: biological process
TermDefinition
GO:0007218neuropeptide signaling pathway
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availableSIGNALP_EUKSignalP-noTMSignalP-noTMcoord: 1..20
score: 0.835