Protein TBATA

Overview
NameProtein TBATA
Smed IDSMED30027244
Length (bp)1224
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 Protein TBATA (SMED30027244) t-SNE clustered cells

Violin plots show distribution of expression levels for Protein TBATA (SMED30027244) 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 Protein TBATA (SMED30027244) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for Protein TBATA (SMED30027244) 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




SMED30027244

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
headSMED30027244SMESG000022377.1 SmedASXL_001239SmedAsxl_ww_GCZZ01PMID:27034770
Currie et al., 2016
whole organism asexual adult RNA-sequencing evidence
pharynxSMED30027244SMESG000022377.1 dd_Smed_v4_8051_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
whole organism asexual adult single-cell RNA-sequencing evidence
epidermal cellSMED30027244SMESG000022377.1 dd_Smed_v4_8051_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
whole organism asexual adult single-cell RNA-sequencing evidence
headSMED30027244SMESG000022377.1 dd_Smed_v6_8051_0_1dd_Smed_v6PMID:28171748
Stückemann et al., 2017
whole organism asexual adult RNA-sequencing evidence
epidermisSMED30027244SMESG000022377.1 dd_Smed_v4_8051_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
dorsal region of the epidermisSMED30027244SMESG000022377.1 dd_Smed_v4_8051_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
ventral epidermisSMED30027244SMESG000022377.1 dd_Smed_v4_8051_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 Protein TBATA vs. TrEMBL
Match: A0A1S3I2F2 (uncharacterized protein LOC106160400 OS=Lingula unguis OX=7574 GN=LOC106160400 PE=4 SV=1)

HSP 1 Score: 75.485 bits (184), Expect = 5.646e-11
Identity = 44/115 (38.26%), Postives = 58/115 (50.43%), Query Frame = 2
Query:  140 RHNPHPRRVNHFYGLQNMPICHVVDPPLLTS---------------IKCVD---------PSVDIDPVLVPSNTLNGLPIFRFRN-IPIKEKAIPQLGIVPIQENWRRELRALTE 409
            RHNPHPRRV H  GL +MPIC V D     S                K +           +++++  L P NT+ GL  F   N  P +EKA+P++G+VP  E WR EL+ LTE
Sbjct:   55 RHNPHPRRVRHLKGLLDMPICSVNDDGFFASPRYSLFYNSPNSYNDAKSMQRGLGVTLPVNAINVNSTLHPINTITGLQHFTGLNSYPFREKAVPKVGMVPQTEAWRDELKMLTE 169          
BLAST of Protein TBATA vs. TrEMBL
Match: K1R2A0 (Protein SPATIAL OS=Crassostrea gigas OX=29159 GN=CGI_10026923 PE=4 SV=1)

HSP 1 Score: 73.9442 bits (180), Expect = 1.427e-10
Identity = 44/120 (36.67%), Postives = 64/120 (53.33%), Query Frame = 2
Query:  140 RHNPHPRRVNHFYGLQNMPICHVVD-------------PPLLTSIKCVDP--------SVDIDPVLVPSNTLNGLPIFRFRN-IPIKEKAIPQLGIVPIQENWRRELRALTESIIVPISE 433
            RHNPHP RV H  GL ++PIC V D             PP   + K ++         +++++  L P NT+ GL  F   N  P +EKA+P++G+VP+ E WR EL+ LT++I     E
Sbjct:   61 RHNPHPSRVRHIKGLLDVPICAVNDDGYFASPKYSLQFPPNAFNNKQMNKWKGQVPVNAINVNSRLHPINTVTGLQYFTGLNSYPFREKAVPRVGMVPVTEQWRDELQQLTKAIGFGTDE 180          
BLAST of Protein TBATA vs. TrEMBL
Match: A0A1I8H186 (Uncharacterized protein OS=Macrostomum lignano OX=282301 PE=4 SV=1)

HSP 1 Score: 73.9442 bits (180), Expect = 1.566e-10
Identity = 46/118 (38.98%), Postives = 60/118 (50.85%), Query Frame = 2
Query:  137 ARHNPHPRRVNHFYGLQNMPICHVVDPPLLTSIK---CVDPSVDIDPVLV------------------PSNTLNGLPIF-RFRNIPIKEKAIPQLGIVPIQENWRRELRALTESIIVP 424
            ARHNPHP R  H  GL  +PI  VVD    +S +   C  P+   D  L                   P +T+NGL  F   RN   KEKA+P+LG+VP+ E+WR +LR+LT+    P
Sbjct:   40 ARHNPHPHRCVHIKGLLGLPIPVVVDDCDDSSYETHLCFPPNGHNDEKLASQRLLLPVNAIHLNSHKHPLDTVNGLQYFTNLRNYSFKEKAVPRLGLVPVTESWREQLRSLTDQTFHP 157          
BLAST of Protein TBATA vs. TrEMBL
Match: A0A1I8JKL9 (Uncharacterized protein OS=Macrostomum lignano OX=282301 PE=4 SV=1)

HSP 1 Score: 73.9442 bits (180), Expect = 1.624e-10
Identity = 46/118 (38.98%), Postives = 60/118 (50.85%), Query Frame = 2
Query:  137 ARHNPHPRRVNHFYGLQNMPICHVVDPPLLTSIK---CVDPSVDIDPVLV------------------PSNTLNGLPIF-RFRNIPIKEKAIPQLGIVPIQENWRRELRALTESIIVP 424
            ARHNPHP R  H  GL  +PI  VVD    +S +   C  P+   D  L                   P +T+NGL  F   RN   KEKA+P+LG+VP+ E+WR +LR+LT+    P
Sbjct:   40 ARHNPHPHRCVHIKGLLGLPIPVVVDDCDDSSYETHLCFPPNGHNDEKLASQRLLLPVNAIHLNSHKHPLDTVNGLQYFTNLRNYSFKEKAVPRLGLVPVTESWREQLRSLTDQTFHP 157          
BLAST of Protein TBATA vs. TrEMBL
Match: A0A267H1S7 (Uncharacterized protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig006934g1 PE=4 SV=1)

HSP 1 Score: 73.9442 bits (180), Expect = 1.657e-10
Identity = 46/118 (38.98%), Postives = 60/118 (50.85%), Query Frame = 2
Query:  137 ARHNPHPRRVNHFYGLQNMPICHVVDPPLLTSIK---CVDPSVDIDPVLV------------------PSNTLNGLPIF-RFRNIPIKEKAIPQLGIVPIQENWRRELRALTESIIVP 424
            ARHNPHP R  H  GL  +PI  VVD    +S +   C  P+   D  L                   P +T+NGL  F   RN   KEKA+P+LG+VP+ E+WR +LR+LT+    P
Sbjct:   40 ARHNPHPHRCVHIKGLLGLPIPVVVDDCDDSSYETHLCFPPNGHNDEKLASQRLLLPVNAIHLNSHKHPLDTVNGLQYFTNLRNYSFKEKAVPRLGLVPVTESWREQLRSLTDQTFHP 157          
BLAST of Protein TBATA vs. Ensembl Nematostella
Match: EDO46545 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7RPP9])

HSP 1 Score: 72.0182 bits (175), Expect = 9.592e-14
Identity = 44/103 (42.72%), Postives = 57/103 (55.34%), Query Frame = 2
Query:  137 ARHNPHPRRVNHFYGLQNMPICHVVDPPLLTSIKCVDPSVDIDPVLVPSNT------LNGL--PIFRFRNIPIKEKAIPQLGIVPIQENWRRELRALTESIIV 421
            ARHNPHP+RV H  GL ++P+C V+D P       V+ + D   V  P+        L GL  PI     + +KEKAIP +G+VPI   WR ELR L E+  V
Sbjct:   60 ARHNPHPQRVRHLKGLLDIPVCTVIDSP------GVEDNQDRFLVCTPTTDQMRQRPLRGLRMPINADSFVTVKEKAIPTVGLVPITFTWREELRKLAEAAGV 156          
BLAST of Protein TBATA vs. Planmine SMEST
Match: SMESG000022377.1 (SMESG000022377.1)

HSP 1 Score: 389.423 bits (999), Expect = 1.327e-180
Identity = 204/208 (98.08%), Postives = 204/208 (98.08%), Query Frame = 2
Query:   29 MIEQPFTFXXXXXXXXXXXXVSQPKKQTRTIRWNLTARHNPHPRRVNHFYGLQNMPICHVVDPPLLTSIKCVDPSVDIDPVLVPSNTLNGLPIFRFRNIPIKEKAIPQLGIVPIQENWRRELRALTESIIVPISEEIGIT----QTLIEYHPYPICRPITSIIQRTFVPKMNQDFIMEREKLKTSTPKFPPIKPLSSDKFLWDESQEG 640
            MIEQPFTFRLCNNRPRNRLNVSQPKKQTRTIRWNLTARHNPHPRRVNHFYGLQNMPICHVVDPPLLTSIKCVDPSVDIDPVLVPSNTLNGLPIFRFRNIPIKEKAIPQLGIVPIQENWRRELRALTESIIVPISEEIGIT    QTLIEYHPYPICRPITSIIQRTFVPKMNQDFIMEREKLKTSTPKFPPIKPLSSDKFLWDESQEG
Sbjct:    1 MIEQPFTFRLCNNRPRNRLNVSQPKKQTRTIRWNLTARHNPHPRRVNHFYGLQNMPICHVVDPPLLTSIKCVDPSVDIDPVLVPSNTLNGLPIFRFRNIPIKEKAIPQLGIVPIQENWRRELRALTESIIVPISEEIGITQGQLQTLIEYHPYPICRPITSIIQRTFVPKMNQDFIMEREKLKTSTPKFPPIKPLSSDKFLWDESQEG 208          

HSP 2 Score: 263.462 bits (672), Expect = 1.327e-180
Identity = 163/164 (99.39%), Postives = 164/164 (100.00%), Query Frame = 3
Query:  636 KVFALLGQILQTSDVDYVKTWLTVASDREKATVMGMLQSAVESKFSSEDKRXXXXXXXXXXXXXXXXPGESEERTENLDRLIIDSYFDKRASTCLSRPKTMASKIRPQTADSSFSDXXXXXXXXXXXXSKPQTAPVILRYRTAPKYRVEVLTADSIPEENAKLE 1127
            +VFALLGQILQTSDVDYVKTWLTVASDREKATVMGMLQSAVESKFSSEDKREIKSENLNKEENKLELPGESEERTENLDRLIIDSYFDKRASTCLSRPKTMASKIRPQTADSSFSDNNCNNNNNNIINSKPQTAPVILRYRTAPKYRVEVLTADSIPEENAKLE
Sbjct:  213 QVFALLGQILQTSDVDYVKTWLTVASDREKATVMGMLQSAVESKFSSEDKREIKSENLNKEENKLELPGESEERTENLDRLIIDSYFDKRASTCLSRPKTMASKIRPQTADSSFSDNNCNNNNNNIINSKPQTAPVILRYRTAPKYRVEVLTADSIPEENAKLE 376          
The following BLAST results are available for this feature:
BLAST of Protein TBATA 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 Protein TBATA 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 Protein TBATA 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 Protein TBATA 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 Protein TBATA 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 Protein TBATA 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 Protein TBATA 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 Protein TBATA vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A1S3I2F25.646e-1138.26uncharacterized protein LOC106160400 OS=Lingula un... [more]
K1R2A01.427e-1036.67Protein SPATIAL OS=Crassostrea gigas OX=29159 GN=C... [more]
A0A1I8H1861.566e-1038.98Uncharacterized protein OS=Macrostomum lignano OX=... [more]
A0A1I8JKL91.624e-1038.98Uncharacterized protein OS=Macrostomum lignano OX=... [more]
A0A267H1S71.657e-1038.98Uncharacterized protein OS=Macrostomum lignano OX=... [more]
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BLAST of Protein TBATA 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 Protein TBATA 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 Protein TBATA 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 Protein TBATA vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 1
Match NameE-valueIdentityDescription
EDO465459.592e-1442.72Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7... [more]
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BLAST of Protein TBATA 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 Protein TBATA vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 1
Match NameE-valueIdentityDescription
SMESG000022377.11.327e-18098.08SMESG000022377.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30027244 ID=SMED30027244|Name=Protein TBATA|organism=Schmidtea mediterranea sexual|type=transcript|length=1224bp
TAGTAGTTCAATTGTCTCAACATATCTAATGATTGAGCAACCGTTTACTT
TCAGACTGTGCAACAACCGTCCTAGGAATAGGCTTAATGTATCTCAACCG
AAAAAACAAACGAGGACTATAAGATGGAATTTGACAGCCAGGCATAATCC
ACACCCAAGACGAGTCAATCACTTCTATGGACTTCAAAATATGCCAATAT
GCCATGTGGTAGATCCACCCTTACTAACATCAATAAAATGTGTGGATCCA
TCTGTGGATATTGATCCAGTGCTTGTGCCATCTAATACACTCAATGGTCT
GCCGATTTTTCGATTTCGTAATATTCCCATCAAAGAAAAGGCCATTCCAC
AGCTAGGCATTGTACCTATTCAGGAAAATTGGAGGAGAGAGTTGCGAGCT
TTGACTGAATCAATTATTGTACCAATATCAGAAGAAATTGGAATTACACA
GACGTTGATTGAATACCACCCATATCCAATATGCCGTCCGATCACTTCAA
TAATACAGAGAACGTTTGTGCCTAAAATGAATCAAGATTTTATCATGGAA
AGAGAAAAATTAAAAACCTCAACACCGAAATTTCCTCCGATTAAACCGCT
GAGTTCGGATAAATTTCTGTGGGATGAAAGTCAAGAAGGTTTTTGCTTTA
CTTGGCCAAATTTTACAAACTTCTGACGTGGATTACGTGAAAACCTGGCT
CACCGTGGCAAGTGATCGAGAAAAAGCCACTGTCATGGGCATGCTACAGT
CTGCTGTTGAATCAAAATTCAGTTCAGAAGATAAAAGGGAAATTAAAAGT
GAAAATTTAAACAAAGAAGAAAATAAATTGGAACTGCCCGGCGAGTCTGA
AGAACGAACTGAAAATCTTGATAGGTTGATAATAGACTCTTATTTCGACA
AAAGGGCGTCCACTTGTTTGTCTCGTCCAAAAACAATGGCTTCTAAAATT
CGGCCTCAAACAGCAGACAGTTCATTTTCTGATAATAATTGTAATAATAA
TAACAACAACATAATAAATTCAAAACCACAAACAGCTCCGGTGATTTTAC
GATACAGAACAGCACCGAAATATAGAGTAGAAGTACTTACAGCCGATAGC
ATTCCTGAAGAAAATGCAAAATTAGAATAACAAAAACAAATTACATCGAT
TTCATGGAAATCTGAGTGTTCTAGATTAGATTCCACTATTTTTAATATTT
ATATTAATAAACCTTAAAATTTTC
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protein sequence of SMED30027244-orf-1

>SMED30027244-orf-1 ID=SMED30027244-orf-1|Name=SMED30027244-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=169bp
MKVKKVFALLGQILQTSDVDYVKTWLTVASDREKATVMGMLQSAVESKFS
SEDKREIKSENLNKEENKLELPGESEERTENLDRLIIDSYFDKRASTCLS
RPKTMASKIRPQTADSSFSDNNCNNNNNNIINSKPQTAPVILRYRTAPKY
RVEVLTADSIPEENAKLE*
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protein sequence of SMED30027244-orf-2

>SMED30027244-orf-2 ID=SMED30027244-orf-2|Name=SMED30027244-orf-2|organism=Schmidtea mediterranea sexual|type=polypeptide|length=225bp
SSSIVSTYLMIEQPFTFRLCNNRPRNRLNVSQPKKQTRTIRWNLTARHNP
HPRRVNHFYGLQNMPICHVVDPPLLTSIKCVDPSVDIDPVLVPSNTLNGL
PIFRFRNIPIKEKAIPQLGIVPIQENWRRELRALTESIIVPISEEIGITQ
TLIEYHPYPICRPITSIIQRTFVPKMNQDFIMEREKLKTSTPKFPPIKPL
SSDKFLWDESQEGFCFTWPNFTNF*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000016pharynx
PLANA:0000034epidermis
PLANA:0000054dorsal region of the epidermis
PLANA:0000096ventral epidermis
PLANA:0000418head
PLANA:0002032epidermal cell
Vocabulary: INTERPRO
TermDefinition
IPR037394TBATA-like
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR037394Protein TBATA-likePFAMPF15256SPATIALcoord: 46..141
e-value: 3.9E-14
score: 53.4
IPR037394Protein TBATA-likePANTHERPTHR33772FAMILY NOT NAMEDcoord: 46..140
NoneNo IPR availablePANTHERPTHR33772:SF1THYMUS, BRAIN AND TESTES-ASSOCIATEDcoord: 46..140