EGF-like domain-containing protein

Overview
NameEGF-like domain-containing protein
Smed IDSMED30017051
Length (bp)435
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



SMED30017051

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



PAGE Curations: 9

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
intestinal phagocyteSMED30017051h1SMcG0014346 Contig1777uc_Smed_v2PMID:23079596
Forsthoefel et al., 2012		FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
intestinal phagocyteSMED30017051h1SMcG0014346 Contig1777newmark_estsPMID:23079596
Forsthoefel et al., 2012		FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
intestinal phagocyteSMED30017051h1SMcG0021086 Contig1777uc_Smed_v2PMID:23079596
Forsthoefel et al., 2012		FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
intestinal phagocyteSMED30017051h1SMcG0021086 Contig1777newmark_estsPMID:23079596
Forsthoefel et al., 2012		FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
head regionSMED30017051h1SMcG0021086 SmedASXL_003489SmedAsxl_ww_GCZZ01PMID:27034770
Currie et al., 2016		whole organism asexual adult RNA-sequencing evidence
nervous systemSMED30017051h1SMcG0021086 dd_Smed_v4_13460_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30017051h1SMcG0021086 dd_Smed_v4_13460_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
muscle cellSMED30017051h1SMcG0021086 dd_Smed_v4_13460_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
head regionSMED30017051h1SMcG0021086 dd_Smed_v6_13460_0_1dd_Smed_v6PMID:28171748
Stückemann et al., 2017		whole organism asexual adult RNA-sequencing evidence
Note: Hover over icons to view figure legend
Homology
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BLAST of EGF-like domain-containing protein vs. TrEMBL
Match: A0A4Z2DMR9 (Uncharacterized protein OS=Schistosoma japonicum OX=6182 GN=EWB00_010804 PE=4 SV=1)

HSP 1 Score: 92.0485 bits (227), Expect = 1.031e-18
Identity = 48/116 (41.38%), Postives = 69/116 (59.48%), Query Frame = 3 
Query:   87 SGIKMTIDLVNIKLHFKYQDVEHPESDNDFILHAKSPSVAADLQKPLLNIIQNFCREPLPDHYFLTVTPFKNRYTRGNKIICNQIQMTTGSVRCPEHYYNGQIYAYRTVNDQCTHN 434
            SGI + ID+ NI+L  +Y+DVEH  SDN  ++ +   S     +KPL  II+  CR PLP  Y+LT+ P+ +R+T   + IC     T  S  CP +Y +G I+  R++N QCT N
Sbjct:  204 SGINVYIDVKNIRLLPEYEDVEHLSSDNGIVMDSSRKSNMQHWRKPLETIIKTACRYPLPKQYYLTMHPYLDRHTTARRHICQ--SNTVTSRLCPANYPSGYIFYDRSINGQCTQN 317
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BLAST of EGF-like domain-containing protein vs. TrEMBL
Match: A0A4E0RZ73 (Uncharacterized protein OS=Fasciola hepatica OX=6192 GN=D915_001335 PE=4 SV=1)

HSP 1 Score: 84.3445 bits (207), Expect = 4.007e-16
Identity = 41/117 (35.04%), Postives = 67/117 (57.26%), Query Frame = 3 
Query:   87 SGIKMTIDLVNIKLHFKYQDVEHPESDNDFILHAKSPSVAADLQKPLLNIIQNFCREPLPDHYFLTVTPFKNRYTRGNKIICNQIQMTTGSVR-CPEHYYNGQIYAYRTVNDQCTHN 434
            +GI + + +++I+L  +YQDVEH  SDN  +L     S     + PL  ++++ CR P+P HY+LT+ P+ +R+T   + IC +        R CP+    G +Y  R++N QCT N
Sbjct:  263 TGINVHVAIMDIRLLPEYQDVEHEGSDNGIVLDTSRRSNMHHWRAPLQALLKSKCRYPIPKHYYLTMHPYSDRHTTAKRQICRRADEVHSRRRLCPKGLPPGSVYYQRSINGQCTQN 379
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BLAST of EGF-like domain-containing protein vs. TrEMBL
Match: A0A5K4F598 (Uncharacterized protein OS=Schistosoma mansoni OX=6183 PE=4 SV=1)

HSP 1 Score: 83.9593 bits (206), Expect = 5.074e-16
Identity = 44/116 (37.93%), Postives = 66/116 (56.90%), Query Frame = 3 
Query:   87 SGIKMTIDLVNIKLHFKYQDVEHPESDNDFILHAKSPSVAADLQKPLLNIIQNFCREPLPDHYFLTVTPFKNRYTRGNKIICNQIQMTTGSVRCPEHYYNGQIYAYRTVNDQCTHN 434
            SGI + I++ NI+L  +Y+DVEH  SDN  ++     S     +KPL  II+  CR PLP  Y+L + P+ +R+T   + +C        S  CP +Y +G I+  R++N QCT N
Sbjct:  200 SGISVHINVKNIRLLPEYEDVEHLASDNGIVMDPSRKSNMQHWRKPLETIIKTACRYPLPKQYYLAMHPYLDRHTTARRHVCQ--PNNVNSRLCPANYPSGYIFYDRSINGQCTQN 313
[Close]
BLAST of EGF-like domain-containing protein vs. TrEMBL
Match: A0A5K4F6N1 (Uncharacterized protein OS=Schistosoma mansoni OX=6183 PE=4 SV=1)

HSP 1 Score: 83.9593 bits (206), Expect = 5.180e-16
Identity = 44/116 (37.93%), Postives = 67/116 (57.76%), Query Frame = 3 
Query:   87 SGIKMTIDLVNIKLHFKYQDVEHPESDNDFILHAKSPSVAADLQKPLLNIIQNFCREPLPDHYFLTVTPFKNRYTRGNKIICNQIQMTTGSVRCPEHYYNGQIYAYRTVNDQCTHN 434
            SGI + I++ NI+L  +Y+DVEH  SDN  ++     S     +KPL  II+  CR PLP  Y+L + P+ +R+T   + +C    +   S  CP +Y +G I+  R++N QCT N
Sbjct:  200 SGISVHINVKNIRLLPEYEDVEHLASDNGIVMDPSRKSNMQHWRKPLETIIKTACRYPLPKQYYLAMHPYLDRHTTARRHVCQPNNV--NSRLCPANYPSGYIFYDRSINGQCTQN 313
[Close]
BLAST of EGF-like domain-containing protein vs. TrEMBL
Match: A0A095C147 (Uncharacterized protein OS=Schistosoma haematobium OX=6185 GN=MS3_03503 PE=4 SV=1)

HSP 1 Score: 76.6406 bits (187), Expect = 6.285e-15
Identity = 45/130 (34.62%), Postives = 66/130 (50.77%), Query Frame = 3 
Query:   87 SGIKMTIDLVNIKLHFKYQDVEHPESDNDFILHAKSPSVAADLQKPLLNIIQNFCRE--------------PLPDHYFLTVTPFKNRYTRGNKIICNQIQMTTGSVRCPEHYYNGQIYAYRTVNDQCTHN 434
            SGI + I++ NI+L  +Y+DVEH  SDN  ++     S     +KPL  II+  CR               PLP  Y+L + P+ +R+T   + IC        S  CP +Y +G I+  R++N QCT N
Sbjct:   17 SGISVHINVKNIRLLPEYEDVEHLASDNGIVMDPSRKSNMQHWRKPLETIIKTACRSILRHREFRIKISMYPLPKQYYLAMHPYLDRHTTARRYICQ--PNNVNSRLCPANYPSGYIFYDRSINGQCTQN 144
[Close]
BLAST of EGF-like domain-containing protein vs. Planmine SMEST
Match: SMESG000016698.1 (SMESG000016698.1)

HSP 1 Score: 256.529 bits (654), Expect = 2.859e-84
Identity = 124/144 (86.11%), Postives = 130/144 (90.28%), Query Frame = 3 
Query:   12 NILVEKLHCHLFYGNKSKLSSKI---RRSGIKMTIDLVNIKLHFKYQDVEHPESDNDFILHAKSPSVAADLQKPLLNIIQNFCREPLPDHYFLTVTPFKNRYTRGNKIICNQIQMTTGSVRCPEHYYNGQIYAYRTVNDQCTHN 434
            ++L+E    H+   NK   ++ I   RRSGIKMTIDLVNIKLHFKYQDVEHPESDNDFILHAKSPSVAADLQKPLLNIIQNFCREPLPDHYFLTVTPFKNRYTRGNKIICNQIQMTTGSVRCPEHYYNGQIYAYRTVNDQCTHN
Sbjct:   79 DLLLETSFNHIITVNKVNQNASIEIIRRSGIKMTIDLVNIKLHFKYQDVEHPESDNDFILHAKSPSVAADLQKPLLNIIQNFCREPLPDHYFLTVTPFKNRYTRGNKIICNQIQMTTGSVRCPEHYYNGQIYAYRTVNDQCTHN 222
[Close]
BLAST of EGF-like domain-containing protein vs. Planmine SMEST
Match: SMESG000016698.1 (SMESG000016698.1)

HSP 1 Score: 260.766 bits (665), Expect = 2.427e-81
Identity = 124/144 (86.11%), Postives = 130/144 (90.28%), Query Frame = 3 
Query:   12 NILVEKLHCHLFYGNKSKLSSKI---RRSGIKMTIDLVNIKLHFKYQDVEHPESDNDFILHAKSPSVAADLQKPLLNIIQNFCREPLPDHYFLTVTPFKNRYTRGNKIICNQIQMTTGSVRCPEHYYNGQIYAYRTVNDQCTHN 434
            ++L+E    H+   NK   ++ I   RRSGIKMTIDLVNIKLHFKYQDVEHPESDNDFILHAKSPSVAADLQKPLLNIIQNFCREPLPDHYFLTVTPFKNRYTRGNKIICNQIQMTTGSVRCPEHYYNGQIYAYRTVNDQCTHN
Sbjct:   79 DLLLETSFNHIITVNKVNQNASIEIIRRSGIKMTIDLVNIKLHFKYQDVEHPESDNDFILHAKSPSVAADLQKPLLNIIQNFCREPLPDHYFLTVTPFKNRYTRGNKIICNQIQMTTGSVRCPEHYYNGQIYAYRTVNDQCTHN 222
[Close]
BLAST of EGF-like domain-containing protein vs. Planmine SMEST
Match: SMESG000077687.1 (SMESG000077687.1)

HSP 1 Score: 97.4413 bits (241), Expect = 3.021e-24
Identity = 45/118 (38.14%), Postives = 75/118 (63.56%), Query Frame = 3 
Query:   81 RRSGIKMTIDLVNIKLHFKYQDVEHPESDNDFILHAKSPSVAADLQKPLLNIIQNFCREPLPDHYFLTVTPFKNRYTRGNKIICNQIQMTTGSVRCPEHYYNGQIYAYRTVNDQCTHN 434
            R+SG+ + I+L NI ++  ++DV H   DN  IL +   S    L+ PL+N+++N CR PLP +Y++T+  +++RYT   KIIC   +       CP  +++GQIY +RT+N++C+ N
Sbjct:  531 RKSGLVVRINLNNISMNPMFEDVTH-SGDNSIILKSSQGSSTYHLKNPLMNVLRNHCRFPLPKYYYITMNEYRHRYTTAVKIICANQKYPGSKEFCPADFFDGQIYYFRTLNNRCSSN 647
[Close]
BLAST of EGF-like domain-containing protein vs. Planmine SMEST
Match: SMESG000041540.1 (SMESG000041540.1)

HSP 1 Score: 85.1149 bits (209), Expect = 7.535e-20
Identity = 44/116 (37.93%), Postives = 74/116 (63.79%), Query Frame = 3 
Query:   87 SGIKMTIDLVNIKLHFKYQDVEHPESDNDFILHAKSPSVAADLQKPLLNIIQNFCREPLPDHYFLTVTPFKNRYTRGNKIICNQIQMTTGSVRCPEHYYNGQIYAYRTVNDQCTHN 434
            SG+ + I L+N+ L   ++D+EH +SDN+FIL++   S    L+ PLL I++N+CR PLPD YF+T+T + +R+T+  +  CNQ++    +  C +       +  R++NDQC+ N
Sbjct:  518 SGLIINITLLNVNLPPIFEDMEH-KSDNEFILNSTQGSNLYHLKTPLLQIMKNYCRHPLPDSYFITMTTYTDRHTKAQRYNCNQMEHPFNN-HCHQDSTEYNSFYTRSINDQCSVN 631
[Close]
BLAST of EGF-like domain-containing protein vs. Planmine SMEST
Match: SMESG000041540.1 (SMESG000041540.1)

HSP 1 Score: 85.1149 bits (209), Expect = 7.696e-20
Identity = 44/116 (37.93%), Postives = 74/116 (63.79%), Query Frame = 3 
Query:   87 SGIKMTIDLVNIKLHFKYQDVEHPESDNDFILHAKSPSVAADLQKPLLNIIQNFCREPLPDHYFLTVTPFKNRYTRGNKIICNQIQMTTGSVRCPEHYYNGQIYAYRTVNDQCTHN 434
            SG+ + I L+N+ L   ++D+EH +SDN+FIL++   S    L+ PLL I++N+CR PLPD YF+T+T + +R+T+  +  CNQ++    +  C +       +  R++NDQC+ N
Sbjct:  518 SGLIINITLLNVNLPPIFEDMEH-KSDNEFILNSTQGSNLYHLKTPLLQIMKNYCRHPLPDSYFITMTTYTDRHTKAQRYNCNQMEHPFNN-HCHQDSTEYNSFYTRSINDQCSVN 631
The following BLAST results are available for this feature:
BLAST of EGF-like domain-containing protein 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 EGF-like domain-containing protein 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 EGF-like domain-containing protein 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 EGF-like domain-containing protein 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 EGF-like domain-containing protein 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 EGF-like domain-containing protein 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 EGF-like domain-containing protein 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 EGF-like domain-containing protein vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A4Z2DMR91.031e-1841.38Uncharacterized protein OS=Schistosoma japonicum O... [more]
A0A4E0RZ734.007e-1635.04Uncharacterized protein OS=Fasciola hepatica OX=61... [more]
A0A5K4F5985.074e-1637.93Uncharacterized protein OS=Schistosoma mansoni OX=... [more]
A0A5K4F6N15.180e-1637.93Uncharacterized protein OS=Schistosoma mansoni OX=... [more]
A0A095C1476.285e-1534.62Uncharacterized protein OS=Schistosoma haematobium... [more]
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BLAST of EGF-like domain-containing protein 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 EGF-like domain-containing protein 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 EGF-like domain-containing protein 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 EGF-like domain-containing protein 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 EGF-like domain-containing protein 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 EGF-like domain-containing protein vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 5
Match NameE-valueIdentityDescription
SMESG000016698.12.859e-8486.11SMESG000016698.1[more]
SMESG000016698.12.427e-8186.11SMESG000016698.1[more]
SMESG000077687.13.021e-2438.14SMESG000077687.1[more]
SMESG000041540.17.535e-2037.93SMESG000041540.1[more]
SMESG000041540.17.696e-2037.93SMESG000041540.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30017051 ID=SMED30017051|Name=EGF-like domain-containing protein|organism=Schmidtea mediterranea sexual|type=transcript|length=435bp
CATCTATAGTAAATATTCTTGTAGAAAAATTACATTGTCATCTATTTTAT
GGTAATAAATCAAAGTTGTCATCAAAAATTCGCCGATCTGGGATCAAGAT
GACAATTGACTTGGTGAACATTAAACTCCACTTCAAATATCAGGACGTCG
AACATCCAGAAAGCGATAATGATTTCATTTTGCATGCCAAAAGTCCAAGT
GTAGCTGCTGATTTACAGAAACCTTTATTAAATATAATTCAAAACTTTTG
CAGAGAACCCCTTCCTGATCATTATTTCCTTACGGTGACGCCGTTTAAAA
ACCGCTATACGAGAGGAAATAAAATAATATGTAACCAAATTCAAATGACA
ACCGGCTCAGTCCGTTGTCCAGAACATTACTACAACGGCCAAATATACGC
CTACCGAACTGTTAATGATCAGTGCACTCATAATA
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protein sequence of SMED30017051-orf-1

>SMED30017051-orf-1 ID=SMED30017051-orf-1|Name=SMED30017051-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=144bp
SIVNILVEKLHCHLFYGNKSKLSSKIRRSGIKMTIDLVNIKLHFKYQDVE
HPESDNDFILHAKSPSVAADLQKPLLNIIQNFCREPLPDHYFLTVTPFKN
RYTRGNKIICNQIQMTTGSVRCPEHYYNGQIYAYRTVNDQCTHN
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: molecular function
TermDefinition
GO:0005509calcium ion binding
Vocabulary: cellular component
TermDefinition
GO:0016020membrane
GO:0016021integral component of membrane
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000099neuron
PLANA:0000101muscle cell
PLANA:0000418head