Secreted peptide prohormone 18

Overview
NameSecreted peptide prohormone 18
Smed IDSMED30033838
Length (bp)384
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 Secreted peptide prohormone 18 (SMED30033838) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for Secreted peptide prohormone 18 (SMED30033838) 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




SMED30033838

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



PAGE Curations: 7

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
head regionSMED30033838SMESG000030647.1 SmedASXL_005593SmedAsxl_ww_GCZZ01PMID:27034770
Currie et al., 2016
whole organism asexual adult RNA-sequencing evidence
nervous systemSMED30033838SMESG000030647.1 dd_Smed_v4_584_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30033838SMESG000030647.1 dd_Smed_v4_584_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
head regionSMED30033838SMESG000030647.1 dd_Smed_v6_584_0_1dd_Smed_v6PMID:28171748
Stückemann et al., 2017
whole organism asexual adult RNA-sequencing evidence
cephalic gangliaSMED30033838SMESG000030647.1 GU295184smed_ncbi_20200123PMID:20967238
Collins JJ et al., 2010
whole organism asexual adult colorimetric in situ hybridization evidence
nervous systemSMED30033838SMESG000030647.1 ADC84438smed_ncbi_20200123PMID:25356635
Cowles et al., 2014
whole organism asexual adult colorimetric in situ hybridization evidence
neuronSMED30033838SMESG000030647.1 ADC84438smed_ncbi_20200123PMID:25356635
Cowles et al., 2014
whole organism asexual adult colorimetric in situ hybridization evidence
Note: Hover over icons to view figure legend
Homology
BLAST of Secreted peptide prohormone 18 vs. TrEMBL
Match: E3T7U6 (Secreted peptide prohormone 18 OS=Schmidtea mediterranea OX=79327 PE=2 SV=1)

HSP 1 Score: 148.288 bits (373), Expect = 3.419e-44
Identity = 75/91 (82.42%), Postives = 75/91 (82.42%), Query Frame = 1
Query:   34 MKSGALTVVGFCLISYCMSAIPEGLRGWRLVLKLIILNLDYEKRGYHFFRLKKSGDCVIPDVMKAMIETKIQNHEQLCAADKKFIEMISSV 306
            MKSGALTVVGFCLISYCMSAIPE                DYEKRGYHFFRLKKSGDCVIPDVMKAMIETKIQNHEQLCAADKKFIEMISSV
Sbjct:    1 MKSGALTVVGFCLISYCMSAIPE----------------DYEKRGYHFFRLKKSGDCVIPDVMKAMIETKIQNHEQLCAADKKFIEMISSV 75          
BLAST of Secreted peptide prohormone 18 vs. TrEMBL
Match: E3T7U8 (Secreted peptide prohormone 19 OS=Schmidtea mediterranea OX=79327 PE=2 SV=1)

HSP 1 Score: 54.299 bits (129), Expect = 5.514e-7
Identity = 21/49 (42.86%), Postives = 34/49 (69.39%), Query Frame = 1
Query:  160 KRGYHFFRLKKSGDCVIPDVMKAMIETKIQNHEQLCAADKKFIEMISSV 306
            KRGYHFFRL+K   C+IP  +K+ I+  +++   LC +DK F+  ++S+
Sbjct:   40 KRGYHFFRLRKDEKCLIPGELKSAIKNDLESGSNLCGSDKSFLAELASL 88          
BLAST of Secreted peptide prohormone 18 vs. Planmine SMEST
Match: SMESG000030647.1 (SMESG000030647.1)

HSP 1 Score: 148.288 bits (373), Expect = 9.509e-48
Identity = 75/91 (82.42%), Postives = 75/91 (82.42%), Query Frame = 1
Query:   34 MKSGALTVVGFCLISYCMSAIPEGLRGWRLVLKLIILNLDYEKRGYHFFRLKKSGDCVIPDVMKAMIETKIQNHEQLCAADKKFIEMISSV 306
            MKSGALTVVGFCLISYCMSAIPE                DYEKRGYHFFRLKKSGDCVIPDVMKAMIETKIQNHEQLCAADKKFIEMISSV
Sbjct:    1 MKSGALTVVGFCLISYCMSAIPE----------------DYEKRGYHFFRLKKSGDCVIPDVMKAMIETKIQNHEQLCAADKKFIEMISSV 75          
BLAST of Secreted peptide prohormone 18 vs. Planmine SMEST
Match: SMESG000053016.1 (SMESG000053016.1)

HSP 1 Score: 51.9878 bits (123), Expect = 1.065e-9
Identity = 22/48 (45.83%), Postives = 34/48 (70.83%), Query Frame = 1
Query:  160 KRGYHFFRLKKSGDCVIPDVMKAMIETKIQNHEQLCAADKKFI-EMIS 300
            KRGYHFFRL+K   C+IP  +K+ I+  +++   LC +DK F+ E++S
Sbjct:   40 KRGYHFFRLRKDEKCLIPVELKSAIKNDLESGSNLCGSDKSFLAELVS 87          
BLAST of Secreted peptide prohormone 18 vs. Planmine SMEST
Match: SMESG000061019.1 (SMESG000061019.1)

HSP 1 Score: 43.8986 bits (102), Expect = 1.674e-6
Identity = 18/49 (36.73%), Postives = 29/49 (59.18%), Query Frame = 1
Query:  160 KRGYHFFRLKKSGDCVIPDVMKAMIETKIQNHEQLCAADKKFIEMISSV 306
            K+G+H+FRLKK  +C+  +  K  I    + H  LC +D  FIE + ++
Sbjct:   48 KKGFHYFRLKKPSNCIFDNYFKQDILKLARKHSGLCPSDLSFIEELQNI 96          
The following BLAST results are available for this feature:
BLAST of Secreted peptide prohormone 18 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 Secreted peptide prohormone 18 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 Secreted peptide prohormone 18 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 Secreted peptide prohormone 18 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 Secreted peptide prohormone 18 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 Secreted peptide prohormone 18 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 Secreted peptide prohormone 18 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 Secreted peptide prohormone 18 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 2
Match NameE-valueIdentityDescription
E3T7U63.419e-4482.42Secreted peptide prohormone 18 OS=Schmidtea medite... [more]
E3T7U85.514e-742.86Secreted peptide prohormone 19 OS=Schmidtea medite... [more]
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BLAST of Secreted peptide prohormone 18 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 Secreted peptide prohormone 18 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 Secreted peptide prohormone 18 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 Secreted peptide prohormone 18 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 Secreted peptide prohormone 18 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 Secreted peptide prohormone 18 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 3
Match NameE-valueIdentityDescription
SMESG000030647.19.509e-4882.42SMESG000030647.1[more]
SMESG000053016.11.065e-945.83SMESG000053016.1[more]
SMESG000061019.11.674e-636.73SMESG000061019.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30033838 ID=SMED30033838|Name=Secreted peptide prohormone 18|organism=Schmidtea mediterranea sexual|type=transcript|length=384bp
AGCTCGCATTTTATTTCATTATTACCTACAATAATGAAGAGCGGAGCATT
AACTGTTGTCGGGTTTTGTTTGATTTCATATTGCATGAGTGCCATACCAG
AAGGTTTGAGAGGTTGGAGATTGGTTCTAAAATTAATTATCTTAAATTTA
GATTACGAAAAACGAGGTTATCACTTTTTTCGACTGAAAAAATCAGGAGA
TTGCGTAATTCCGGATGTCATGAAGGCAATGATTGAGACAAAAATTCAAA
ATCATGAACAGTTGTGTGCAGCGGACAAAAAATTTATCGAAATGATTTCC
AGCGTTTAAAATGACAAAATTAGTTTTTAGTGTCAATAATATAATTTTTT
TGTCAATGGTTTTTTTATTGGTTTTTCAAAATTT
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protein sequence of SMED30033838-orf-1

>SMED30033838-orf-1 ID=SMED30033838-orf-1|Name=SMED30033838-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=103bp
SSHFISLLPTIMKSGALTVVGFCLISYCMSAIPEGLRGWRLVLKLIILNL
DYEKRGYHFFRLKKSGDCVIPDVMKAMIETKIQNHEQLCAADKKFIEMIS
SV*
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Aliases
The feature 'Secreted peptide prohormone 18' has the following synonyms
Synonym
spp-18
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000025nervous system
PLANA:0000044cephalic ganglia
PLANA:0000099neuron
PLANA:0000418head
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availableTMHMMTMhelixcoord: 5..27