testis-expressed protein 43

Overview
Nametestis-expressed protein 43
Smed IDSMED30000048
Length (bp)539
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 testis-expressed protein 43 (SMED30000048) t-SNE clustered cells

Violin plots show distribution of expression levels for testis-expressed protein 43 (SMED30000048) 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 testis-expressed protein 43 (SMED30000048) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for testis-expressed protein 43 (SMED30000048) 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



SMED30000048

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



PAGE Curations: 6

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
pharynxSMED30000048SMESG000012601.1 dd_Smed_v4_9820_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30000048SMESG000012601.1 dd_Smed_v4_9820_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
head regionSMED30000048SMESG000012601.1 dd_Smed_v6_9820_0_1dd_Smed_v6PMID:28171748
Stückemann et al., 2017		whole organism asexual adult RNA-sequencing evidence
reproductive organSMED30000048SMESG000020039.1 Contig2485GPL15192PMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
reproductive organSMED30000048SMESG000012601.1 Contig2485GPL15192PMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
epidermisSMED30000048SMESG000012601.1 dd_Smed_v4_9820_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
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BLAST of testis-expressed protein 43 vs. Ensembl Xenopus
Match: ENSXETT00000048141.1 (testis expressed 43 [Source:NCBI gene;Acc:100379848])

HSP 1 Score: 67.0106 bits (162), Expect = 1.062e-13
Identity = 34/100 (34.00%), Postives = 60/100 (60.00%), Query Frame = 1 
Query:  109 VPDFSQSHPIIPVHYIMEWKRDIKNRDLIIKNADMGEIPAFPHDETLFLQKREQLYYNVESRERIDSKYNIQNELERRLGKRHDPIYRYRSSLMKYLKRK 408
            VP+ S+ HP+IP  Y+M WK D+ NR LI+K+A +  +   PH++TLFL+ +E+L +  ES   +  K  + ++ +      + P+ +Y+  L+K   R+
Sbjct:   56 VPELSRRHPLIPKLYVMPWKHDMVNRKLILKHAGLAGVYKGPHEDTLFLENKERLCHGEES-NIVTQKMKLPSQKQITNFPSYSPLSKYQGYLIKQKSRQ 154
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BLAST of testis-expressed protein 43 vs. Ensembl Mouse
Match: Tex43 (testis expressed 43 [Source:MGI Symbol;Acc:MGI:1914593])

HSP 1 Score: 44.2838 bits (103), Expect = 9.439e-6
Identity = 29/100 (29.00%), Postives = 55/100 (55.00%), Query Frame = 1 
Query:  109 VPDFSQSHPIIPVHYIMEWKRDIKNRDLIIKNADMGEIPAFPHDETLFLQKREQLYYNVESRERIDSKYNIQNELERRLGKRHDPIYRYRSSLMKYLKRK 408
            +P FS    +IP  Y+M WK ++K R++ ++ A+   I A P +++LF    E+L +  E R+ +  K     E++      H P+ RY+S+++ +  R+
Sbjct:   42 LPRFSLKQGMIPTRYVMPWKENMKFRNVNLQQAEACGIYAGPLEDSLFWGYSERLCHG-EDRKAVLKKG--LPEIKITDMPLHSPLSRYQSTVISHGFRR 138
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BLAST of testis-expressed protein 43 vs. UniProt/SwissProt
Match: sp|A8SMG2|TEX43_BOVIN (Testis-expressed protein 43 OS=Bos taurus OX=9913 GN=TEX43 PE=2 SV=2)

HSP 1 Score: 51.9878 bits (123), Expect = 9.701e-8
Identity = 31/96 (32.29%), Postives = 57/96 (59.38%), Query Frame = 1 
Query:  109 VPDFSQSHPIIPVHYIMEWKRDIKNRDLIIKNADMGEIPAFPHDETLFLQKREQLYYNVESRERIDSKYNIQNELERRLGKRHDPIYRYRSSLMKY 396
            +P FS    +IP HY+M WK+++K R++ +K+A+   I A P +++LFL   E+L +  E R+ +  K     E++      H P+ RY+S+++ +
Sbjct:   34 LPRFSLKQGMIPRHYVMPWKQNMKFRNVNLKHAEACGIHAGPLEDSLFLDHSERLCHG-EDRKVVLKKG--PPEIKIADMPLHSPLSRYQSTVISH 126
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BLAST of testis-expressed protein 43 vs. TrEMBL
Match: V3ZRB3 (Uncharacterized protein OS=Lottia gigantea OX=225164 GN=LOTGIDRAFT_235241 PE=4 SV=1)

HSP 1 Score: 100.523 bits (249), Expect = 6.086e-24
Identity = 48/94 (51.06%), Postives = 66/94 (70.21%), Query Frame = 1 
Query:  109 VPDFSQSHPIIPVHYIMEWKRDIKNRDLIIKNADMGEIPAFPHDETLFLQKREQLYYNVESRERIDSKYNIQNELERRLGKRHDPIYRYRSSLM 390
            VP +S++HP+IP  Y+ EWK D++NR+LI KNA++G IP + HDE LFL KREQ+ YNVE R R+DSKY + +  +      H    +Y+SSLM
Sbjct:   22 VPSYSRNHPMIPRLYVQEWKTDMRNRELINKNAELGRIPHYEHDENLFLDKREQMSYNVEDRHRVDSKYKMPSRSKLLRPNFHHETSKYQSSLM 115
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BLAST of testis-expressed protein 43 vs. TrEMBL
Match: A0A210PU60 (Uncharacterized protein OS=Mizuhopecten yessoensis OX=6573 GN=KP79_PYT22662 PE=4 SV=1)

HSP 1 Score: 99.3673 bits (246), Expect = 1.473e-23
Identity = 48/111 (43.24%), Postives = 73/111 (65.77%), Query Frame = 1 
Query:   61 NVFQQMNRYLTEYFKT-VPDFSQSHPIIPVHYIMEWKRDIKNRDLIIKNADMGEIPAFPHDETLFLQKREQLYYNVESRERIDSKYNIQNELERRLGKRHDPIYRYRSSLM 390
            N+ Q+    L +Y +  +P++S+ HP++P  Y+ EWK D+KNR+LI+KNA++G IP   HDE LFL+KREQ++YNVE R R++ KY + +         H    +Y+S LM
Sbjct:    9 NINQKFAESLYKYSRPRIPEYSRMHPVVPRLYVQEWKTDMKNRELIVKNAELGGIPHVEHDENLFLEKREQMHYNVEDRNRVEGKYRMPSRATLLQPDFHHETSKYQSELM 119
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BLAST of testis-expressed protein 43 vs. TrEMBL
Match: A0A1S3JIQ1 (testis-expressed protein 43 OS=Lingula unguis OX=7574 GN=LOC106173640 PE=4 SV=1)

HSP 1 Score: 98.5969 bits (244), Expect = 2.804e-23
Identity = 49/105 (46.67%), Postives = 68/105 (64.76%), Query Frame = 1 
Query:   76 MNRYLTEYFKTVPDFSQSHPIIPVHYIMEWKRDIKNRDLIIKNADMGEIPAFPHDETLFLQKREQLYYNVESRERIDSKYNIQNELERRLGKRHDPIYRYRSSLM 390
            M+R+       VP +S+SHPIIP  Y+ EWK D+KNR LII+NA++G +P   HDE L+L+KREQ+ YNVE R RI+ +Y + +  +      H    RY+S LM
Sbjct:    1 MDRFGRSQVTRVPAYSRSHPIIPRLYVPEWKTDMKNRKLIIQNAELGGVPHHEHDENLYLEKREQMSYNVEPRHRINQRYQLPSRAQLLRPDFHHETSRYQSELM 105
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BLAST of testis-expressed protein 43 vs. TrEMBL
Match: A0A1S3HL44 (testis-expressed protein 43-like OS=Lingula unguis OX=7574 GN=LOC106155748 PE=4 SV=1)

HSP 1 Score: 97.0561 bits (240), Expect = 1.131e-22
Identity = 48/105 (45.71%), Postives = 68/105 (64.76%), Query Frame = 1 
Query:   76 MNRYLTEYFKTVPDFSQSHPIIPVHYIMEWKRDIKNRDLIIKNADMGEIPAFPHDETLFLQKREQLYYNVESRERIDSKYNIQNELERRLGKRHDPIYRYRSSLM 390
            M+R+       VP +S++HPIIP  Y+ EWK D+KNR LII+NA++G +P   HDE L+L+KREQ+ YNVE R RI+ +Y + +  +      H    RY+S LM
Sbjct:    1 MDRFGRSQVTRVPAYSRNHPIIPRLYVPEWKTDMKNRKLIIQNAELGGVPHHEHDENLYLEKREQMSYNVEPRHRINQRYQLPSRAQLLRPDFHHETSRYQSELM 105
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BLAST of testis-expressed protein 43 vs. TrEMBL
Match: K1Q8J5 (Uncharacterized protein C5orf48-like protein OS=Crassostrea gigas OX=29159 GN=CGI_10014873 PE=4 SV=1)

HSP 1 Score: 96.6709 bits (239), Expect = 2.510e-22
Identity = 47/94 (50.00%), Postives = 63/94 (67.02%), Query Frame = 1 
Query:  109 VPDFSQSHPIIPVHYIMEWKRDIKNRDLIIKNADMGEIPAFPHDETLFLQKREQLYYNVESRERIDSKYNIQNELERRLGKRHDPIYRYRSSLM 390
            VP++S+ HP++P  Y  EWK D+KNR+LI KNA++G IP + HDE LFL KREQ++YNVE R RI+SKY   +         H    +Y+S LM
Sbjct:   34 VPEYSRLHPVVPRLYTQEWKTDMKNRNLITKNAELGGIPHYEHDENLFLDKREQMHYNVEDRTRIESKYPHMDRATLLRPNFHHETSKYQSELM 127
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BLAST of testis-expressed protein 43 vs. Planmine SMEST
Match: SMESG000012601.1 (SMESG000012601.1)

HSP 1 Score: 162.155 bits (409), Expect = 2.792e-52
Identity = 76/78 (97.44%), Postives = 78/78 (100.00%), Query Frame = 1 
Query:   76 MNRYLTEYFKTVPDFSQSHPIIPVHYIMEWKRDIKNRDLIIKNADMGEIPAFPHDETLFLQKREQLYYNVESRERIDS 309
            MN+YLTEYFKTVPD+SQSHPIIPVHYIMEWKRDIKNRDLIIKNADMGEIPAFPHDETLFLQKREQLYYNVESRERIDS
Sbjct:    1 MNQYLTEYFKTVPDYSQSHPIIPVHYIMEWKRDIKNRDLIIKNADMGEIPAFPHDETLFLQKREQLYYNVESRERIDS 78
The following BLAST results are available for this feature:
BLAST of testis-expressed protein 43 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 testis-expressed protein 43 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 testis-expressed protein 43 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 testis-expressed protein 43 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 testis-expressed protein 43 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 1
Match NameE-valueIdentityDescription
ENSXETT00000048141.11.062e-1334.00testis expressed 43 [Source:NCBI gene;Acc:10037984... [more]
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BLAST of testis-expressed protein 43 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 1
Match NameE-valueIdentityDescription
Tex439.439e-629.00testis expressed 43 [Source:MGI Symbol;Acc:MGI:191... [more]
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BLAST of testis-expressed protein 43 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 1
Match NameE-valueIdentityDescription
sp|A8SMG2|TEX43_BOVIN9.701e-832.29Testis-expressed protein 43 OS=Bos taurus OX=9913 ... [more]
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BLAST of testis-expressed protein 43 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
V3ZRB36.086e-2451.06Uncharacterized protein OS=Lottia gigantea OX=2251... [more]
A0A210PU601.473e-2343.24Uncharacterized protein OS=Mizuhopecten yessoensis... [more]
A0A1S3JIQ12.804e-2346.67testis-expressed protein 43 OS=Lingula unguis OX=7... [more]
A0A1S3HL441.131e-2245.71testis-expressed protein 43-like OS=Lingula unguis... [more]
K1Q8J52.510e-2250.00Uncharacterized protein C5orf48-like protein OS=Cr... [more]
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BLAST of testis-expressed protein 43 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 testis-expressed protein 43 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 testis-expressed protein 43 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 testis-expressed protein 43 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 testis-expressed protein 43 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 testis-expressed protein 43 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 1
Match NameE-valueIdentityDescription
SMESG000012601.12.792e-5297.44SMESG000012601.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30000048 ID=SMED30000048|Name=testis-expressed protein 43|organism=Schmidtea mediterranea sexual|type=transcript|length=539bp
CTAATGGCTACGTTATTTGACGTGTCTAACTAAACTTTCATTATTTTATT
TTATTGTTTTAACGTATTTCAGCAAATGAATCGATATTTAACAGAATATT
TCAAAACTGTACCTGATTTCTCCCAGTCTCATCCGATAATTCCCGTTCAT
TATATAATGGAATGGAAGAGAGATATAAAAAATAGAGATTTAATTATAAA
AAACGCTGATATGGGAGAAATCCCAGCCTTTCCTCATGATGAAACATTAT
TTCTACAGAAAAGAGAACAGTTATATTATAATGTTGAAAGCCGTGAAAGA
ATAGATTCCAAGTACAACATTCAAAATGAATTAGAAAGACGATTGGGTAA
AAGGCATGATCCGATTTACAGATATCGAAGCTCTTTGATGAAATATTTAA
AAAGAAAATAGTTCGATAAATATTAAAAACTATTGTTTATAAAGTTGAAT
TTAAAACATTTAATATATATAAAGATATAAATTTCATTCACTCACAAAAG
ACATGATTTACTGCATTAAATGAGCGGGAAAAATGTTGC
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protein sequence of SMED30000048-orf-1

>SMED30000048-orf-1 ID=SMED30000048-orf-1|Name=SMED30000048-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=112bp
MNRYLTEYFKTVPDFSQSHPIIPVHYIMEWKRDIKNRDLIIKNADMGEIP
AFPHDETLFLQKREQLYYNVESRERIDSKYNIQNELERRLGKRHDPIYRY
RSSLMKYLKRK*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000016pharynx
PLANA:0000034epidermis
PLANA:0000418head
PLANA:0002089reproductive organ
Vocabulary: INTERPRO
TermDefinition
IPR027965DUF4513