DDE_Tnp_IS1595 domain-containing protein

Overview
NameDDE_Tnp_IS1595 domain-containing protein
Smed IDSMED30026614
Length (bp)1048
Neoblast Clusters

Zeng et. al., 2018



▻ Overview

▻ Neoblast 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



 

Neoblast Population

 

t-SNE plot shows two-dimensional representation of global gene expression relationships among all neoblasts (n = 7,088 after filter). Cluster identity was assigned based on the top 10 marker genes of each cluster (Table S2), followed by inspection of RNA in situ hybridization patterns. Neoblast groups, Nb.


Expression of DDE_Tnp_IS1595 domain-containing protein (SMED30026614) t-SNE clustered cells

Violin plots show distribution of expression levels for DDE_Tnp_IS1595 domain-containing protein (SMED30026614) in cells (dots) of each of the 12 neoblast clusters.

 

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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



SMED30026614

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



PAGE Curations: 4

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
nervous systemSMED30026614SMESG000080852.1 dd_Smed_v4_7818_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neoblastSMED30026614SMESG000080852.1 dd_Smed_v4_7818_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymal cellSMED30026614SMESG000080852.1 dd_Smed_v4_7818_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
muscle cellSMED30026614SMESG000080852.1 dd_Smed_v4_7818_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
Note: Hover over icons to view figure legend
Homology
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BLAST of DDE_Tnp_IS1595 domain-containing protein vs. TrEMBL
Match: A0A146LFY4 (Putative transposase-like protein HI_1328.1 OS=Lygus hesperus OX=30085 GN=HI_1328.1_3 PE=4 SV=1)

HSP 1 Score: 85.1149 bits (209), Expect = 5.505e-21
Identity = 39/67 (58.21%), Postives = 47/67 (70.15%), Query Frame = 3 
Query:  669 ESVFTSRKNEIGRILLQQSVFGVNCCETDECFKFTIPDRTAATLMSIIAVKIHPVTAVMSDQWCAYN 869
            ES+F+ RKN  GR L QQ +FG  C ET ECF   +PDRT+ATLMS+I  +I P T +MSDQW AY 
Sbjct:  139 ESLFSRRKNHTGRQLPQQRIFGGICRETKECFLVAVPDRTSATLMSVIKDRIMPGTTIMSDQWSAYG 205

HSP 2 Score: 33.113 bits (74), Expect = 5.505e-21
Identity = 17/37 (45.95%), Postives = 21/37 (56.76%), Query Frame = 1 
Query:  886 DLTHQTVNHSVALVNQKT*TNTQ*IERSWKTVKERNK 996
            +  H TVNHS+  V+  T  +TQ IE  W   K RNK
Sbjct:  212 NFRHFTVNHSLNFVDPTTGAHTQSIESLWGKCKTRNK 248

HSP 3 Score: 32.7278 bits (73), Expect = 5.505e-21
Identity = 16/47 (34.04%), Postives = 26/47 (55.32%), Query Frame = 2 
Query:  470 SCLTYTQIVRFICCWS*KLISISFCASELRIANGMVRYRNHYLRDAC 610
            S L  T IV FI  W+ +++S+ FC  EL + +  V    +Y+ + C
Sbjct:   71 SKLPLTDIVLFIYAWADEMVSVKFCEKELSMNHNTVVGWCNYMHEVC 117
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BLAST of DDE_Tnp_IS1595 domain-containing protein vs. TrEMBL
Match: A0A0A9YMJ9 (Putative transposase-like protein HI_1328.1 OS=Lygus hesperus OX=30085 GN=CM83_19026 PE=4 SV=1)

HSP 1 Score: 84.7297 bits (208), Expect = 9.771e-21
Identity = 39/67 (58.21%), Postives = 47/67 (70.15%), Query Frame = 3 
Query:  669 ESVFTSRKNEIGRILLQQSVFGVNCCETDECFKFTIPDRTAATLMSIIAVKIHPVTAVMSDQWCAYN 869
            ES+F+ RKN  GR L QQ +FG  C ET ECF   +PDRT+ATLMS+I  +I P T +MSDQW AY 
Sbjct:  139 ESLFSRRKNHTGRQLPQQRIFGGICRETKECFLVAVPDRTSATLMSVIKDRIMPGTTIMSDQWSAYG 205

HSP 2 Score: 32.7278 bits (73), Expect = 9.771e-21
Identity = 16/47 (34.04%), Postives = 26/47 (55.32%), Query Frame = 2 
Query:  470 SCLTYTQIVRFICCWS*KLISISFCASELRIANGMVRYRNHYLRDAC 610
            S L  T IV FI  W+ +++S+ FC  EL + +  V    +Y+ + C
Sbjct:   71 SKLPLTDIVLFIYAWANEMVSVKFCEKELSMNHNTVVDWCNYMHEVC 117

HSP 3 Score: 32.3426 bits (72), Expect = 9.771e-21
Identity = 17/37 (45.95%), Postives = 21/37 (56.76%), Query Frame = 1 
Query:  886 DLTHQTVNHSVALVNQKT*TNTQ*IERSWKTVKERNK 996
            +  H TVNHS+  V+  T  +TQ IE  W   K RNK
Sbjct:  212 NFRHFTVNHSLNFVDLTTGAHTQSIESLWGKCKTRNK 248
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BLAST of DDE_Tnp_IS1595 domain-containing protein vs. TrEMBL
Match: A0A1B6H5F2 (DDE_Tnp_IS1595 domain-containing protein (Fragment) OS=Homalodisca liturata OX=320908 GN=g.11270 PE=4 SV=1)

HSP 1 Score: 72.4034 bits (176), Expect = 5.696e-20
Identity = 33/67 (49.25%), Postives = 45/67 (67.16%), Query Frame = 3 
Query:  669 ESVFTSRKNEIGRILLQQSVFGVNCCETDECFKFTIPDRTAATLMSIIAVKIHPVTAVMSDQWCAYN 869
            ESVF  RK  +GR+  +Q +FG  C ET +CF F + DR+AA+LM II   I P T ++SD+W +YN
Sbjct:  132 ESVFAKRKYNVGRVPKKQWIFGGICHETKDCFLFAVEDRSAASLMPIIVESIAPGTRIVSDKWRSYN 198

HSP 2 Score: 48.1358 bits (113), Expect = 5.696e-20
Identity = 33/98 (33.67%), Postives = 49/98 (50.00%), Query Frame = 2 
Query:  341 FCNIVTLHNARLCANNHGMTLPLPDHWDR**--------E*ARPPSS*SHVSCLTYTQIVRFICCWS*KLISISFCASELRIANGMVRYRNHYLRDAC 610
            F NI  L   +LC N H MTL + D  +R          +     ++    S L + +++ FI CWS KL S+ FC  EL+I +  +   N+YLR+ C
Sbjct:   13 FQNIDILPREKLCENGHKMTLSVTDGRERWRCRKNTCRQDIQLRSNTWLENSRLGFDRVLLFIYCWSHKLTSVDFCERELKINHNTIVDWNNYLREVC 110

HSP 3 Score: 26.5646 bits (57), Expect = 5.696e-20
Identity = 14/44 (31.82%), Postives = 20/44 (45.45%), Query Frame = 1 
Query:  853 NGARTIDDTIDDLTHQTVNHSVALVNQKT*TNTQ*IERSWKTVK 984
            NG R  +   D   H TVNHS   ++  T  +   ++R W   K
Sbjct:  198 NGIRNANSNYD---HNTVNHSENFIDPGTGAHINTVKRMWGVAK 238
[Close]
BLAST of DDE_Tnp_IS1595 domain-containing protein vs. TrEMBL
Match: A0A146M1Q1 (Putative transposase-like protein HI_1328.1 (Fragment) OS=Lygus hesperus OX=30085 GN=HI_1328.1_0 PE=4 SV=1)

HSP 1 Score: 67.3958 bits (163), Expect = 2.226e-19
Identity = 31/66 (46.97%), Postives = 42/66 (63.64%), Query Frame = 3 
Query:  669 ESVFTSRKNEIGRILLQQSVFGVNCCETDECFKFTIPDRTAATLMSIIAVKIHPVTAVMSDQWCAY 866
            ES+F+ RK+ +GR+L QQ VFG  C ET + F   +P+R A TL+S I   I P + +MSD W  Y
Sbjct:  127 ESLFSKRKSNVGRVLPQQWVFGGLCRETGQRFLVKVPNRGAVTLLSEIKKNIEPGSTIMSDSWRGY 192

HSP 2 Score: 41.9726 bits (97), Expect = 2.226e-19
Identity = 19/47 (40.43%), Postives = 31/47 (65.96%), Query Frame = 2 
Query:  470 SCLTYTQIVRFICCWS*KLISISFCASELRIANGMVRYRNHYLRDAC 610
            S L++T ++RFI  W+ +L S++FC  +L +A   V   N+YLR+ C
Sbjct:   58 SKLSFTTVIRFIYFWAEELTSVNFCHKQLGMAPNTVVDWNNYLREVC 104

HSP 3 Score: 35.8094 bits (81), Expect = 2.226e-19
Identity = 16/37 (43.24%), Postives = 20/37 (54.05%), Query Frame = 1 
Query:  886 DLTHQTVNHSVALVNQKT*TNTQ*IERSWKTVKERNK 996
               H  VNH    V+ +T  NTQ +ER W + K RNK
Sbjct:  201 GFAHFKVNHKYNFVDPETGANTQQVERMWGSAKWRNK 237
[Close]
BLAST of DDE_Tnp_IS1595 domain-containing protein vs. TrEMBL
Match: A0A2S2QDD2 (DDE_Tnp_IS1595 domain-containing protein OS=Sipha flava OX=143950 GN=g.81683 PE=4 SV=1)

HSP 1 Score: 72.4034 bits (176), Expect = 1.637e-18
Identity = 35/67 (52.24%), Postives = 44/67 (65.67%), Query Frame = 3 
Query:  669 ESVFTSRKNEIGRILLQQSVFGVNCCETDECFKFTIPDRTAATLMSIIAVKIHPVTAVMSDQWCAYN 869
            ES+F+ RKN   RIL QQ +FG  CCET ECF   +PDRT +TL++ I + I   T + SD W AYN
Sbjct:  136 ESLFSKRKNNTCRILPQQWIFGGLCCETKECFLIQVPDRTMSTLLNEILLNIKKGTKMYSDCWRAYN 202

HSP 2 Score: 38.1206 bits (87), Expect = 1.637e-18
Identity = 19/47 (40.43%), Postives = 27/47 (57.45%), Query Frame = 2 
Query:  470 SCLTYTQIVRFICCWS*KLISISFCASELRIANGMVRYRNHYLRDAC 610
            S L +  ++RFI  WS +L SI +    L+I N  V   N+YLR+ C
Sbjct:   67 SRLPFVTVLRFIFAWSQELTSIKWYEQHLKINNNTVIDWNNYLREVC 113

HSP 3 Score: 31.5722 bits (70), Expect = 1.637e-18
Identity = 16/38 (42.11%), Postives = 22/38 (57.89%), Query Frame = 1 
Query:  889 LTHQTVNHSVALVNQKT*TNTQ*IERSWKTVKERNKCH 1002
              H TVNHS   V+ ++  +TQ +ER W + K  NK H
Sbjct:  211 FKHFTVNHSKNFVDPQSGAHTQNVERLWGSAKWGNKKH 248
[Close]
BLAST of DDE_Tnp_IS1595 domain-containing protein vs. Planmine SMEST
Match: SMESG000080852.1 (SMESG000080852.1)

HSP 1 Score: 84.7297 bits (208), Expect = 1.156e-17
Identity = 37/38 (97.37%), Postives = 38/38 (100.00%), Query Frame = 3 
Query:  717 QQSVFGVNCCETDECFKFTIPDRTAATLMSIIAVKIHP 830
            +QSVFGVNCCETDECFKFTIPDRTAATLMSIIAVKIHP
Sbjct:   19 EQSVFGVNCCETDECFKFTIPDRTAATLMSIIAVKIHP 56
The following BLAST results are available for this feature:
BLAST of DDE_Tnp_IS1595 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 DDE_Tnp_IS1595 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 DDE_Tnp_IS1595 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 DDE_Tnp_IS1595 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 DDE_Tnp_IS1595 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 DDE_Tnp_IS1595 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 DDE_Tnp_IS1595 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 DDE_Tnp_IS1595 domain-containing protein vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A146LFY45.505e-2158.21Putative transposase-like protein HI_1328.1 OS=Lyg... [more]
A0A0A9YMJ99.771e-2158.21Putative transposase-like protein HI_1328.1 OS=Lyg... [more]
A0A1B6H5F25.696e-2049.25DDE_Tnp_IS1595 domain-containing protein (Fragment... [more]
A0A146M1Q12.226e-1946.97Putative transposase-like protein HI_1328.1 (Fragm... [more]
A0A2S2QDD21.637e-1852.24DDE_Tnp_IS1595 domain-containing protein OS=Sipha ... [more]
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BLAST of DDE_Tnp_IS1595 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 DDE_Tnp_IS1595 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 DDE_Tnp_IS1595 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 DDE_Tnp_IS1595 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 DDE_Tnp_IS1595 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 DDE_Tnp_IS1595 domain-containing protein vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 1
Match NameE-valueIdentityDescription
SMESG000080852.11.156e-1797.37SMESG000080852.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30026614 ID=SMED30026614|Name=DDE_Tnp_IS1595 domain-containing protein|organism=Schmidtea mediterranea sexual|type=transcript|length=1048bp
TCAGAAAAATGTGTTTTATTCGATATGTTTATTCACTATCGGAAGTATCA
AAATATAAGATTAGTCGATTTTGTCTTTTTAATATTGGTTTGAACTACCG
ATTCATCGCGAAGAGGCCATTGTTTCAACATTTAAATATAATTCATTATC
TGAAGAATCAACAAACTGATTCCGAGGCGTTAATAGTTATCATTTAACAT
TAAATATTATCAGTAAAATTTTTTTCTTTTTCATTTTCATCTTCTATTTT
CAATTTCCCGAATTATTTTTGATAATTTTTTAGTTATAATCTTTTTGAAG
TTATCAGCGTTGGTTCACGCTAAAAAAAGTAGTTTGCAATTTTTGCAACA
TCGTGACACTGCATAATGCTAGGCTCTGTGCAAACAATCATGGGATGACT
TTGCCACTTCCTGATCACTGGGATCGTTAATAAGAATAAGCAAGACCCCC
AAGTTCGTAAAGCCATGTTTCATGTCTTACATACACACAGATAGTGCGGT
TTATTTGCTGTTGGTCTTAAAAGTTAATAAGCATATCTTTTTGTGCTTCT
GAGTTGAGAATTGCAAATGGTATGGTAAGGTATAGGAATCACTACCTTCG
AGACGCATGTACCAATACACTTATTACAATCCTGTTGTTATTGGCGAACG
TATTACAATTGAAAGTTTGAAAGTGTGTTCACATCCCGGAAGAATGAAAT
TGGTCGAATTTTACTACAGCAATCGGTATTTGGTGTAAATTGTTGCGAGA
CAGATGAATGCTTTAAGTTTACAATTCCTGATAGAACAGCGGCTACTCTT
ATGTCCATTATTGCTGTCAAAATTCATCCAGTTACAGCTGTCATGTCGGA
TCAATGGTGCGCGTACAATTGATGATACAATTGATGATTTGACACACCAA
ACGGTAAATCACTCTGTAGCCCTTGTCAATCAGAAGACATGAACCAATAC
ACAATGAATCGAAAGATCATGGAAGACTGTCAAAGAGCGCAATAAATGTC
ACAATGAAATGCACCTCCACATGTTTAATTAGGATATATGAGAATTTA
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000099neuron
PLANA:0000101muscle cell
PLANA:0003116parenchymal cell