Neuropeptide Y prohormone-8

Overview
NameNeuropeptide Y prohormone-8
Smed IDSMED30020594
Length (bp)280
Neoblast Clusters

Zeng et. al., 2018



▻ Overview

▻ Sub-lethal Irradiated Surviving X1 and X2 Cell Population

 

 

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



Sub-lethal Irradiated Surviving X1 and X2 Cell Population

 

t-SNE plot of surviving X1 and X2 cells (n = 1,039 after QC filter) after sub-lethal irradiation. Colors indicate unbiased cell classification via graph-based clustering. SL, sub-lethal irradiated cell groups.

Expression of Neuropeptide Y prohormone-8 (SMED30020594) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for Neuropeptide Y prohormone-8 (SMED30020594) in cells (dots) of each of the 10 clusters of sub-leathally irradiated X1 and X2 cells.

 

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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



SMED30020594

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



PAGE Curations: 16

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
nervous systemSMED30020594SMESG000066803.1 dd_Smed_v4_77250_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cilated neuronSMED30020594SMESG000066803.1 dd_Smed_v4_77250_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
peripheral nervous systemSMED30020594SMESG000066803.1 BK007010smed_ncbi_20200123PMID:20967238
Collins JJ et al., 2010		whole organism adult hermaphrodite colorimetric in situ hybridization evidence
peripheral nervous systemSMED30020594SMESG000066803.1 BK007010smed_ncbi_20200123PMID:20967238
Collins JJ et al., 2010		whole organism juvenile colorimetric in situ hybridization evidence
central nervous systemSMED30020594SMESG000066803.1 BK007010smed_ncbi_20200123PMID:20967238
Collins JJ et al., 2010		whole organism adult hermaphrodite colorimetric in situ hybridization evidence
testisSMED30020594SMESG000066803.1 BK007010smed_ncbi_20200123PMID:20967238
Collins JJ et al., 2010		whole organism juvenile colorimetric in situ hybridization evidence
testisSMED30020594SMESG000066803.1 BK007010smed_ncbi_20200123PMID:20967238
Collins JJ et al., 2010		whole organism adult hermaphrodite colorimetric in situ hybridization evidence
obsolete pharynx nerve plexusSMED30020594SMESG000066803.1 BK007010smed_ncbi_20200123PMID:20967238
Collins JJ et al., 2010		whole organism juvenile colorimetric in situ hybridization evidence
obsolete pharynx nerve plexusSMED30020594SMESG000066803.1 BK007010smed_ncbi_20200123PMID:20967238
Collins JJ et al., 2010		whole organism adult hermaphrodite colorimetric in situ hybridization evidence
pharynx nerve plexusSMED30020594SMESG000066803.1 BK007010smed_ncbi_20200123PMID:20967238
Collins JJ et al., 2010		whole organism juvenile colorimetric in situ hybridization evidence
pharynx nerve plexusSMED30020594SMESG000066803.1 BK007010smed_ncbi_20200123PMID:20967238
Collins JJ et al., 2010		whole organism adult hermaphrodite colorimetric in situ hybridization evidence
submuscular nerve plexusSMED30020594SMESG000066803.1 BK007010smed_ncbi_20200123PMID:20967238
Collins JJ et al., 2010		whole organism adult hermaphrodite colorimetric in situ hybridization evidence
submuscular nerve plexusSMED30020594SMESG000066803.1 BK007010smed_ncbi_20200123PMID:20967238
Collins JJ et al., 2010		whole organism juvenile colorimetric in situ hybridization evidence
reproductive organSMED30020594SMESG000066803.1 Contig10627newmark_estsPMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
reproductive organSMED30020594SMESG000066803.1 Contig10627uc_Smed_v2PMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
neuronSMED30020594SMESG000066803.1 BK007010smed_ncbi_20200123PMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite fluorescence in situ hybridization evidence
Note: Hover over icons to view figure legend
Homology
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BLAST of Neuropeptide Y prohormone-8 vs. UniProt/SwissProt
Match: sp|Q27441|NPY_APLCA (Pro-neuropeptide Y OS=Aplysia californica OX=6500 GN=NPY PE=1 SV=1)

HSP 1 Score: 45.4394 bits (106), Expect = 1.547e-6
Identity = 27/74 (36.49%), Postives = 36/74 (48.65%), Query Frame = 1 
Query:    7 INKCYFLVFILCFMSFIHLNTCNQK------RPM-FDSADAFRNYLRKLNNEYMIAGRPRFGKRRSDFEKELFY 207
            + +   +V +L  M+ + +   N +      RP  F SA   R YL  LN  Y I GRPRFGKR   F K  F+
Sbjct:    1 MQRVILVVLLLSCMAVLSVRADNSEMLAPPPRPEEFTSAQQLRQYLAALNEYYSIMGRPRFGKRGDSFRKREFF 74
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BLAST of Neuropeptide Y prohormone-8 vs. TrEMBL
Match: E3CTI5 (Neuropeptide Y prohormone-8 OS=Schmidtea mediterranea OX=79327 PE=2 SV=1)

HSP 1 Score: 154.451 bits (389), Expect = 3.246e-47
Identity = 75/75 (100.00%), Postives = 75/75 (100.00%), Query Frame = 1 
Query:    1 MIINKCYFLVFILCFMSFIHLNTCNQKRPMFDSADAFRNYLRKLNNEYMIAGRPRFGKRRSDFEKELFYNLKSNL 225
            MIINKCYFLVFILCFMSFIHLNTCNQKRPMFDSADAFRNYLRKLNNEYMIAGRPRFGKRRSDFEKELFYNLKSNL
Sbjct:    1 MIINKCYFLVFILCFMSFIHLNTCNQKRPMFDSADAFRNYLRKLNNEYMIAGRPRFGKRRSDFEKELFYNLKSNL 75
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BLAST of Neuropeptide Y prohormone-8 vs. Planmine SMEST
Match: SMESG000066803.1 (SMESG000066803.1)

HSP 1 Score: 154.451 bits (389), Expect = 9.028e-51
Identity = 75/75 (100.00%), Postives = 75/75 (100.00%), Query Frame = 1 
Query:    1 MIINKCYFLVFILCFMSFIHLNTCNQKRPMFDSADAFRNYLRKLNNEYMIAGRPRFGKRRSDFEKELFYNLKSNL 225
            MIINKCYFLVFILCFMSFIHLNTCNQKRPMFDSADAFRNYLRKLNNEYMIAGRPRFGKRRSDFEKELFYNLKSNL
Sbjct:    1 MIINKCYFLVFILCFMSFIHLNTCNQKRPMFDSADAFRNYLRKLNNEYMIAGRPRFGKRRSDFEKELFYNLKSNL 75
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BLAST of Neuropeptide Y prohormone-8 vs. Planmine SMEST
Match: SMESG000069090.1 (SMESG000069090.1)

HSP 1 Score: 43.8986 bits (102), Expect = 3.520e-7
Identity = 22/54 (40.74%), Postives = 30/54 (55.56%), Query Frame = 1 
Query:   16 CYFLVFILCFMSFIHLNTCNQKRPMFDSADAFRNYLRKLNNEYMIAGRPRFGKR 177
            C  LV ++C    + +     K   FD  +  RNY++KLN  + I GRPRFGKR
Sbjct:    9 CLTLVNVICSQKSLFIEP-PAKPEFFDDPELLRNYIKKLNEYFAIVGRPRFGKR 61
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BLAST of Neuropeptide Y prohormone-8 vs. Planmine SMEST
Match: SMESG000058298.1 (SMESG000058298.1)

HSP 1 Score: 40.4318 bits (93), Expect = 6.702e-6
Identity = 24/62 (38.71%), Postives = 36/62 (58.06%), Query Frame = 1 
Query:   22 FLVFIL----CFMSFIHLNTCNQ------KRPMFDSADAFRNYLRKLNNEYMIAGRPRFGKR 177
            F++FIL    C +S    ++ NQ       + +F++A     YL+KL+  Y IAGRPR+GKR
Sbjct:   10 FVIFILFQNICTLSDYETSSFNQWYDKRDSKLLFNNAKQLLWYLQKLDKMYAIAGRPRYGKR 71
[Close]
BLAST of Neuropeptide Y prohormone-8 vs. Planmine SMEST
Match: SMESG000050248.1 (SMESG000050248.1)

HSP 1 Score: 40.4318 bits (93), Expect = 8.230e-6
Identity = 18/34 (52.94%), Postives = 22/34 (64.71%), Query Frame = 1 
Query:   97 SADAFRNYLRKLNNEYMIAGRPRFGKRRSDFEKE 198
            S    +N L  LN EY+IAGRPRFGKR   F++ 
Sbjct:   27 SLAELKNLLSDLNEEYLIAGRPRFGKRNMIFKRS 60
The following BLAST results are available for this feature:
BLAST of Neuropeptide Y prohormone-8 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 Y prohormone-8 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 Y prohormone-8 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 Y prohormone-8 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 Y prohormone-8 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 Y prohormone-8 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 Y prohormone-8 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 1
Match NameE-valueIdentityDescription
sp|Q27441|NPY_APLCA1.547e-636.49Pro-neuropeptide Y OS=Aplysia californica OX=6500 ... [more]
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BLAST of Neuropeptide Y prohormone-8 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 1
Match NameE-valueIdentityDescription
E3CTI53.246e-47100.00Neuropeptide Y prohormone-8 OS=Schmidtea mediterra... [more]
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BLAST of Neuropeptide Y prohormone-8 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 Y prohormone-8 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 Y prohormone-8 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 Y prohormone-8 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 Y prohormone-8 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 Y prohormone-8 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 4
Match NameE-valueIdentityDescription
SMESG000066803.19.028e-51100.00SMESG000066803.1[more]
SMESG000069090.13.520e-740.74SMESG000069090.1[more]
SMESG000058298.16.702e-638.71SMESG000058298.1[more]
SMESG000050248.18.230e-652.94SMESG000050248.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30020594 ID=SMED30020594|Name=Neuropeptide Y prohormone-8|organism=Schmidtea mediterranea sexual|type=transcript|length=280bp
ATGATCATTAACAAATGCTATTTTCTCGTTTTCATTTTATGTTTCATGTC
ATTTATCCATTTAAACACTTGCAATCAGAAAAGGCCGATGTTTGACTCAG
CTGATGCCTTTCGGAACTATTTGAGAAAATTAAACAATGAATATATGATA
GCAGGAAGACCAAGATTTGGCAAAAGAAGATCAGACTTTGAAAAGGAATT
ATTCTATAATTTAAAATCTAATCTATGAACTAGTTTTACACCTGTTTATT
ATAATTTCTAATATTAATATATTGTTATCG
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Aliases
The feature 'Neuropeptide Y prohormone-8' has the following synonyms
Synonym
npy-8
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000080peripheral nervous system
PLANA:0000103central nervous system
PLANA:0000208testis
PLANA:0000465pharynx nerve plexus
PLANA:0000467submuscular nerve plexus
PLANA:0002089reproductive organ
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..24
score: 0.737
NoneNo IPR availableTMHMMTMhelixcoord: 7..24