ZZ-type domain-containing protein

Overview
NameZZ-type domain-containing protein
Smed IDSMED30006515
Length (bp)877
Neoblast Clusters

Zeng et. al., 2018




▻ Overview

▻ Neoblast Population

▻ 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




 

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 ZZ-type domain-containing protein (SMED30006515) t-SNE clustered cells

Violin plots show distribution of expression levels for ZZ-type domain-containing protein (SMED30006515) in cells (dots) of each of the 12 neoblast clusters.

 

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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 ZZ-type domain-containing protein (SMED30006515) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for ZZ-type domain-containing protein (SMED30006515) 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.
Sort Descending | Sort Ascending | Only Non-Zero Values | Tile/Chart | Reset

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




SMED30006515

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



PAGE Curations: 5

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
headSMED30006515SMESG000055420.1 SmedASXL_004524SmedAsxl_ww_GCZZ01PMID:27034770
Currie et al., 2016
whole organism asexual adult RNA-sequencing evidence
pharynxSMED30006515SMESG000055420.1 dd_Smed_v4_10173_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
whole organism asexual adult single-cell RNA-sequencing evidence
headSMED30006515SMESG000055420.1 dd_Smed_v6_10173_0_1dd_Smed_v6PMID:28171748
Stückemann et al., 2017
whole organism asexual adult RNA-sequencing evidence
epidermisSMED30006515SMESG000055420.1 dd_Smed_v4_10173_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
ventral epidermisSMED30006515SMESG000055420.1 dd_Smed_v4_10173_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
Note: Hover over icons to view figure legend
Homology
BLAST of ZZ-type domain-containing protein vs. TrEMBL
Match: A0A267G920 (Uncharacterized protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig029517g3 PE=4 SV=1)

HSP 1 Score: 81.2629 bits (199), Expect = 5.649e-14
Identity = 31/53 (58.49%), Postives = 39/53 (73.58%), Query Frame = 3
Query:  387 LKEVPIYRTGRMGACWRHLKRVTGPNGENIMFIDGTVKESDCNNYPPHGYPSV 545
            L   P++R+GR G+CWRH+++ TG  G NIMFIDG VKE DC  +PPHGYP  
Sbjct:  164 LDGSPVFRSGRNGSCWRHVRQCTGNLGNNIMFIDGNVKEDDCRRFPPHGYPGA 216          
BLAST of ZZ-type domain-containing protein vs. TrEMBL
Match: A0A1I8HK46 (Uncharacterized protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig029517g2 PE=4 SV=1)

HSP 1 Score: 81.2629 bits (199), Expect = 5.720e-14
Identity = 31/53 (58.49%), Postives = 39/53 (73.58%), Query Frame = 3
Query:  387 LKEVPIYRTGRMGACWRHLKRVTGPNGENIMFIDGTVKESDCNNYPPHGYPSV 545
            L   P++R+GR G+CWRH+++ TG  G NIMFIDG VKE DC  +PPHGYP  
Sbjct:  165 LDGSPVFRSGRNGSCWRHVRQCTGNLGNNIMFIDGNVKEDDCRRFPPHGYPGA 217          
BLAST of ZZ-type domain-containing protein vs. TrEMBL
Match: A0A1I8GXH8 (Uncharacterized protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig029517g1 PE=4 SV=1)

HSP 1 Score: 80.8777 bits (198), Expect = 6.361e-14
Identity = 31/53 (58.49%), Postives = 39/53 (73.58%), Query Frame = 3
Query:  387 LKEVPIYRTGRMGACWRHLKRVTGPNGENIMFIDGTVKESDCNNYPPHGYPSV 545
            L   P++R+GR G+CWRH+++ TG  G NIMFIDG VKE DC  +PPHGYP  
Sbjct:  164 LDGSPVFRSGRNGSCWRHVRQCTGNLGNNIMFIDGNVKEDDCRRFPPHGYPGA 216          
BLAST of ZZ-type domain-containing protein vs. TrEMBL
Match: A0A1I8H9Z5 (ZZ-type domain-containing protein OS=Macrostomum lignano OX=282301 PE=4 SV=1)

HSP 1 Score: 82.0333 bits (201), Expect = 1.176e-13
Identity = 31/53 (58.49%), Postives = 39/53 (73.58%), Query Frame = 3
Query:  387 LKEVPIYRTGRMGACWRHLKRVTGPNGENIMFIDGTVKESDCNNYPPHGYPSV 545
            L   P++R+GR G+CWRH+++ TG  G NIMFIDG VKE DC  +PPHGYP  
Sbjct:  694 LDGSPVFRSGRNGSCWRHVRQCTGNLGNNIMFIDGNVKEDDCRRFPPHGYPGA 746          
BLAST of ZZ-type domain-containing protein vs. TrEMBL
Match: R7T7B0 (Uncharacterized protein OS=Capitella teleta OX=283909 GN=CAPTEDRAFT_206272 PE=4 SV=1)

HSP 1 Score: 73.9442 bits (180), Expect = 1.381e-11
Identity = 39/92 (42.39%), Postives = 55/92 (59.78%), Query Frame = 3
Query:  264 SKSTAGFS-PENNFFQRLREANRSTYKGSISENLMPTYRSPYLKEVPIYRTGRMGACWRHLKRVTGPNGENIMFIDGTVKESDCNNYPPHGY 536
            +++ AG S P NN+FQR+     S +  + S  L P  +       PI+R+GR+GA WRH+++ TG  G++I FIDG VK  D   YPP GY
Sbjct:   92 ARAAAGTSIPANNYFQRMVT---SVHPYTYSRQLNPPAQRFTEPGPPIFRSGRLGAPWRHIRQCTGNRGDHICFIDGVVKTEDMQRYPPFGY 180          
BLAST of ZZ-type domain-containing protein vs. Planmine SMEST
Match: SMESG000055420.1 (SMESG000055420.1)

HSP 1 Score: 456.447 bits (1173), Expect = 1.200e-164
Identity = 219/220 (99.55%), Postives = 220/220 (100.00%), Query Frame = 3
Query:   99 MESKMPNICCHGYRRPQTVLSTSYYVPASNQCKGKESTISVGLQTETPEPRLLSRSKSTAGFSPENNFFQRLREANRSTYKGSISENLMPTYRSPYLKEVPIYRTGRMGACWRHLKRVTGPNGENIMFIDGTVKESDCNNYPPHGYPSVRISPKPFLSKSDIQNYLIRSKSTLQSRLDENHLKTIPAETNLTFRESEMRHSNMRSNSAYSEISKHYNYRK 758
            MESKMPNICCHGYRRPQTVLSTS+YVPASNQCKGKESTISVGLQTETPEPRLLSRSKSTAGFSPENNFFQRLREANRSTYKGSISENLMPTYRSPYLKEVPIYRTGRMGACWRHLKRVTGPNGENIMFIDGTVKESDCNNYPPHGYPSVRISPKPFLSKSDIQNYLIRSKSTLQSRLDENHLKTIPAETNLTFRESEMRHSNMRSNSAYSEISKHYNYRK
Sbjct:    1 MESKMPNICCHGYRRPQTVLSTSFYVPASNQCKGKESTISVGLQTETPEPRLLSRSKSTAGFSPENNFFQRLREANRSTYKGSISENLMPTYRSPYLKEVPIYRTGRMGACWRHLKRVTGPNGENIMFIDGTVKESDCNNYPPHGYPSVRISPKPFLSKSDIQNYLIRSKSTLQSRLDENHLKTIPAETNLTFRESEMRHSNMRSNSAYSEISKHYNYRK 220          
BLAST of ZZ-type domain-containing protein vs. Planmine SMEST
Match: SMESG000055420.1 (SMESG000055420.1)

HSP 1 Score: 447.588 bits (1150), Expect = 3.175e-161
Identity = 215/216 (99.54%), Postives = 216/216 (100.00%), Query Frame = 3
Query:  111 MPNICCHGYRRPQTVLSTSYYVPASNQCKGKESTISVGLQTETPEPRLLSRSKSTAGFSPENNFFQRLREANRSTYKGSISENLMPTYRSPYLKEVPIYRTGRMGACWRHLKRVTGPNGENIMFIDGTVKESDCNNYPPHGYPSVRISPKPFLSKSDIQNYLIRSKSTLQSRLDENHLKTIPAETNLTFRESEMRHSNMRSNSAYSEISKHYNYRK 758
            MPNICCHGYRRPQTVLSTS+YVPASNQCKGKESTISVGLQTETPEPRLLSRSKSTAGFSPENNFFQRLREANRSTYKGSISENLMPTYRSPYLKEVPIYRTGRMGACWRHLKRVTGPNGENIMFIDGTVKESDCNNYPPHGYPSVRISPKPFLSKSDIQNYLIRSKSTLQSRLDENHLKTIPAETNLTFRESEMRHSNMRSNSAYSEISKHYNYRK
Sbjct:    1 MPNICCHGYRRPQTVLSTSFYVPASNQCKGKESTISVGLQTETPEPRLLSRSKSTAGFSPENNFFQRLREANRSTYKGSISENLMPTYRSPYLKEVPIYRTGRMGACWRHLKRVTGPNGENIMFIDGTVKESDCNNYPPHGYPSVRISPKPFLSKSDIQNYLIRSKSTLQSRLDENHLKTIPAETNLTFRESEMRHSNMRSNSAYSEISKHYNYRK 216          
The following BLAST results are available for this feature:
BLAST of ZZ-type 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 ZZ-type 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 ZZ-type 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 ZZ-type 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 ZZ-type 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 ZZ-type 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 ZZ-type 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 ZZ-type domain-containing protein vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A267G9205.649e-1458.49Uncharacterized protein OS=Macrostomum lignano OX=... [more]
A0A1I8HK465.720e-1458.49Uncharacterized protein OS=Macrostomum lignano OX=... [more]
A0A1I8GXH86.361e-1458.49Uncharacterized protein OS=Macrostomum lignano OX=... [more]
A0A1I8H9Z51.176e-1358.49ZZ-type domain-containing protein OS=Macrostomum l... [more]
R7T7B01.381e-1142.39Uncharacterized protein OS=Capitella teleta OX=283... [more]
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BLAST of ZZ-type 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 ZZ-type 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 ZZ-type 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 ZZ-type 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 ZZ-type 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 ZZ-type domain-containing protein vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 2
Match NameE-valueIdentityDescription
SMESG000055420.11.200e-16499.55SMESG000055420.1[more]
SMESG000055420.13.175e-16199.54SMESG000055420.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30006515 ID=SMED30006515|Name=ZZ-type domain-containing protein|organism=Schmidtea mediterranea sexual|type=transcript|length=877bp
CTTAAATCAAATTCTATTCATTTCTTTTTTAATACTTTAAAACTATTTTC
AAGTCGGCAAATTGAAAAAAGAACTCCAACATTTATATAAATTTGCAAAT
GGAATCAAAGATGCCAAATATATGTTGTCATGGATATCGAAGACCTCAGA
CTGTACTGAGCACCAGTTACTATGTCCCAGCTTCAAATCAGTGCAAAGGC
AAAGAATCAACGATCTCTGTTGGGCTTCAAACAGAAACTCCGGAACCAAG
ATTGTTATCTAGATCTAAATCAACTGCGGGTTTTAGTCCAGAAAATAACT
TCTTTCAAAGGCTTAGAGAAGCAAACCGTTCAACATATAAAGGAAGTATT
TCTGAGAATCTAATGCCAACTTATAGATCACCGTATTTGAAAGAAGTTCC
AATTTACAGAACAGGCCGGATGGGAGCTTGCTGGAGGCATTTGAAACGTG
TTACTGGGCCAAATGGAGAAAATATTATGTTTATTGACGGCACTGTAAAA
GAATCTGATTGTAATAATTACCCTCCTCATGGTTATCCATCTGTACGAAT
CTCTCCGAAGCCATTTCTAAGCAAATCGGACATTCAGAATTATCTGATTC
GTTCAAAATCCACATTACAATCGCGATTGGATGAAAATCATCTCAAAACA
ATTCCAGCTGAAACGAATTTGACTTTCCGTGAAAGCGAAATGCGGCATTC
CAACATGCGATCAAATTCAGCATATTCAGAGATCTCTAAGCACTACAATT
ATAGAAAAGACAATGCGCAGCACGTTCATATTCATTTGCAGCTATACCCT
CATGAACTGAAACAATTGAGTGAAATTCAAAATCACGGGGAAAAATAAAT
TTTTCCATTAAATGGAAACGATTCTAG
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protein sequence of SMED30006515-orf-1

>SMED30006515-orf-1 ID=SMED30006515-orf-1|Name=SMED30006515-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=250bp
MESKMPNICCHGYRRPQTVLSTSYYVPASNQCKGKESTISVGLQTETPEP
RLLSRSKSTAGFSPENNFFQRLREANRSTYKGSISENLMPTYRSPYLKEV
PIYRTGRMGACWRHLKRVTGPNGENIMFIDGTVKESDCNNYPPHGYPSVR
ISPKPFLSKSDIQNYLIRSKSTLQSRLDENHLKTIPAETNLTFRESEMRH
SNMRSNSAYSEISKHYNYRKDNAQHVHIHLQLYPHELKQLSEIQNHGEK*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: molecular function
TermDefinition
GO:0008270zinc ion binding
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000016pharynx
PLANA:0000034epidermis
PLANA:0000096ventral epidermis
PLANA:0000418head