Testis-specific expressed protein 55

Overview
NameTestis-specific expressed protein 55
Smed IDSMED30031571
Length (bp)411
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-specific expressed protein 55 (SMED30031571) t-SNE clustered cells

Violin plots show distribution of expression levels for Testis-specific expressed protein 55 (SMED30031571) 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-specific expressed protein 55 (SMED30031571) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for Testis-specific expressed protein 55 (SMED30031571) 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



SMED30031571

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
head regionSMED30031571 SmedASXL_007015SmedAsxl_ww_GCZZ01PMID:27034770
Currie et al., 2016		whole organism asexual adult RNA-sequencing evidence
pharynxSMED30031571 dd_Smed_v4_5969_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30031571 dd_Smed_v4_5969_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30031571 dd_Smed_v4_5969_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30031571 dd_Smed_v4_5969_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
head regionSMED30031571 dd_Smed_v6_5969_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 Testis-specific expressed protein 55 vs. Ensembl Human
Match: TEX55 (testis expressed 55 [Source:HGNC Symbol;Acc:HGNC:26553])

HSP 1 Score: 46.9802 bits (110), Expect = 2.738e-6
Identity = 19/42 (45.24%), Postives = 34/42 (80.95%), Query Frame = 1 
Query:  193 VSKNPYKSALEYMERHSILYLFQKMTADLLLDKPEDAVEYMI 318
            V ++PY+ +L+YME+H IL +FQ++T +L+ +KPED + +M+
Sbjct:  492 VYEDPYQVSLQYMEKHHILQIFQQITENLVYEKPEDPLNFML 533
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BLAST of Testis-specific expressed protein 55 vs. Ensembl Zebrafish
Match: si:dkey-70b23.2 (si:dkey-70b23.2 [Source:ZFIN;Acc:ZDB-GENE-100922-241])

HSP 1 Score: 48.521 bits (114), Expect = 3.972e-8
Identity = 17/45 (37.78%), Postives = 35/45 (77.78%), Query Frame = 1 
Query:  196 SKNPYKSALEYMERHSILYLFQKMTADLLLDKPEDAVEYMIQFVE 330
            + +PY+ +++YME H+IL +FQ +T  L+ D+P+D +++M++ V+
Sbjct:   21 TTDPYERSVDYMETHNILQIFQDITEKLVFDRPDDPLQFMLEQVQ 65
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BLAST of Testis-specific expressed protein 55 vs. Ensembl Zebrafish
Match: si:dkey-70b23.2 (si:dkey-70b23.2 [Source:ZFIN;Acc:ZDB-GENE-100922-241])

HSP 1 Score: 47.7506 bits (112), Expect = 6.088e-8
Identity = 16/42 (38.10%), Postives = 33/42 (78.57%), Query Frame = 1 
Query:  196 SKNPYKSALEYMERHSILYLFQKMTADLLLDKPEDAVEYMIQ 321
            + +PY+ +++YME H+IL +FQ +T  L+ D+P+D +++M++
Sbjct:   21 TTDPYERSVDYMETHNILQIFQDITEKLVFDRPDDPLQFMLE 62
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BLAST of Testis-specific expressed protein 55 vs. Ensembl Mouse
Match: Tex55 (testis expressed 55 [Source:MGI Symbol;Acc:MGI:1921913])

HSP 1 Score: 46.2098 bits (108), Expect = 2.507e-6
Identity = 18/46 (39.13%), Postives = 36/46 (78.26%), Query Frame = 1 
Query:  193 VSKNPYKSALEYMERHSILYLFQKMTADLLLDKPEDAVEYMIQFVE 330
            V ++PY  AL Y+E+H+IL++FQ++T +L+ ++P+D + +M+  V+
Sbjct:  324 VFEDPYHVALRYVEKHNILHIFQQITENLVYERPDDPLYFMLDQVQ 369
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BLAST of Testis-specific expressed protein 55 vs. TrEMBL
Match: A0A5J4NNA9 (Uncharacterized protein OS=Paragonimus westermani OX=34504 GN=DEA37_0000319 PE=4 SV=1)

HSP 1 Score: 53.9138 bits (128), Expect = 7.242e-7
Identity = 26/67 (38.81%), Postives = 40/67 (59.70%), Query Frame = 1 
Query:  148 PEHNTENYEFISHEKVS---KNPYKSALEYMERHSILYLFQKMTADLLLDKPEDAVEYMIQFVEKNY 339
            PE      + I    ++   ++P  +A  Y+E+H IL LFQK+T+D+ L +PED ++YMI  VE  Y
Sbjct:    8 PEPELTTGDLIGPSDIAPTCRDPKSTAAVYLEKHGILRLFQKLTSDVALYRPEDPIQYMIDNVENIY 74
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BLAST of Testis-specific expressed protein 55 vs. TrEMBL
Match: A0A194ALX7 (Uncharacterized protein OS=Pinctada fucata OX=50426 PE=4 SV=1)

HSP 1 Score: 53.1434 bits (126), Expect = 1.677e-6
Identity = 21/45 (46.67%), Postives = 36/45 (80.00%), Query Frame = 1 
Query:  199 KNPYKSALEYMERHSILYLFQKMTADLLLDKPEDAVEYMIQFVEK 333
            ++PY  A++Y+E+H+IL LFQ +T D++ +KPED + YM++ +EK
Sbjct:   46 QDPYGKAIKYLEQHNILQLFQSLTTDIVYNKPEDPLGYMLKEIEK 90
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BLAST of Testis-specific expressed protein 55 vs. TrEMBL
Match: A0A0B6Y2F2 (Uncharacterized protein (Fragment) OS=Arion vulgaris OX=1028688 GN=ORF10361 PE=4 SV=1)

HSP 1 Score: 53.1434 bits (126), Expect = 1.709e-6
Identity = 21/57 (36.84%), Postives = 42/57 (73.68%), Query Frame = 1 
Query:  163 ENYEFISHEKVSKNPYKSALEYMERHSILYLFQKMTADLLLDKPEDAVEYMIQFVEK 333
            EN +  ++ +  ++PYK ++ Y+ERH+IL LFQ +T D++ ++P D ++Y+I+ V++
Sbjct:   20 ENIKTKTYVEPGEDPYKKSISYLERHNILQLFQNLTTDVIYNRPSDPLDYLIKEVQQ 76
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BLAST of Testis-specific expressed protein 55 vs. TrEMBL
Match: C3XR38 (Uncharacterized protein OS=Branchiostoma floridae OX=7739 GN=BRAFLDRAFT_120244 PE=4 SV=1)

HSP 1 Score: 53.5286 bits (127), Expect = 4.128e-6
Identity = 26/89 (29.21%), Postives = 50/89 (56.18%), Query Frame = 1 
Query:   70 ESEYAQRCVDVAINAGLNSLKSKNENPEHNTENY--EFISHEKVSKNPYKSALEYMERHSILYLFQKMTADLLLDKPEDAVEYMIQFVE 330
            E+   Q+  D  I   L S  +    P+   E    E   ++   ++PY  AL+Y+E+H ++ LF+ +TA+++ D+P D +++M++ VE
Sbjct:   43 EATAEQQAADQEIRRELTSAGADQGGPDIWDEELRDELFGYQSPMEDPYTRALKYLEKHQVMELFKGLTANIVYDRPADPLQFMLEKVE 131
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BLAST of Testis-specific expressed protein 55 vs. TrEMBL
Match: A0A1L8H5J7 (Uncharacterized protein OS=Xenopus laevis OX=8355 GN=XELAEV_18014416mg PE=4 SV=1)

HSP 1 Score: 51.6026 bits (122), Expect = 8.508e-6
Identity = 30/101 (29.70%), Postives = 59/101 (58.42%), Query Frame = 1 
Query:   76 EYAQRCVDVAINA-------GLNSLKSKNENPEHNTENYEFISHEK----VSKNPYKSALEYMERHSILYLFQKMTADLLLDKPEDAVEYMIQFVEKNYSA 345
            EY + C++            G+ S K+   N    TE  +   H++    + ++P++ +L+YME+H+IL +FQ+MT +L+ +KPE+ +++M+Q V+   S+
Sbjct:    2 EYTEDCLEPETGGVGNDVPEGVLSQKAVANNNVLITEVSQATRHQQPAPPIYEDPFERSLKYMEKHNILQIFQEMTENLVYEKPEEPLQFMLQKVQSMISS 102
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BLAST of Testis-specific expressed protein 55 vs. Ensembl Cavefish
Match: si:dkey-70b23.2 (si:dkey-70b23.2 [Source:ZFIN;Acc:ZDB-GENE-100922-241])

HSP 1 Score: 46.595 bits (109), Expect = 1.260e-7
Identity = 16/40 (40.00%), Postives = 32/40 (80.00%), Query Frame = 1 
Query:  202 NPYKSALEYMERHSILYLFQKMTADLLLDKPEDAVEYMIQ 321
            +PY+S++ Y+E H+IL +FQ +T  L+ D+P+D +++++Q
Sbjct:   21 DPYQSSVRYLESHNILQIFQDITERLVYDRPDDPLQFLLQ 60
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BLAST of Testis-specific expressed protein 55 vs. Planmine SMEST
Match: SMESG000033391.1 (SMESG000033391.1)

HSP 1 Score: 209.92 bits (533), Expect = 1.176e-71
Identity = 102/102 (100.00%), Postives = 102/102 (100.00%), Query Frame = 1 
Query:   46 MSSVTSENESEYAQRCVDVAINAGLNSLKSKNENPEHNTENYEFISHEKVSKNPYKSALEYMERHSILYLFQKMTADLLLDKPEDAVEYMIQFVEKNYSANC 351
            MSSVTSENESEYAQRCVDVAINAGLNSLKSKNENPEHNTENYEFISHEKVSKNPYKSALEYMERHSILYLFQKMTADLLLDKPEDAVEYMIQFVEKNYSANC
Sbjct:    1 MSSVTSENESEYAQRCVDVAINAGLNSLKSKNENPEHNTENYEFISHEKVSKNPYKSALEYMERHSILYLFQKMTADLLLDKPEDAVEYMIQFVEKNYSANC 102
The following BLAST results are available for this feature:
BLAST of Testis-specific expressed protein 55 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 1
Match NameE-valueIdentityDescription
TEX552.738e-645.24testis expressed 55 [Source:HGNC Symbol;Acc:HGNC:2... [more]
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BLAST of Testis-specific expressed protein 55 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-specific expressed protein 55 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-specific expressed protein 55 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 2
Match NameE-valueIdentityDescription
si:dkey-70b23.23.972e-837.78si:dkey-70b23.2 [Source:ZFIN;Acc:ZDB-GENE-100922-2... [more]
si:dkey-70b23.26.088e-838.10si:dkey-70b23.2 [Source:ZFIN;Acc:ZDB-GENE-100922-2... [more]
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BLAST of Testis-specific expressed protein 55 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 Testis-specific expressed protein 55 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 1
Match NameE-valueIdentityDescription
Tex552.507e-639.13testis expressed 55 [Source:MGI Symbol;Acc:MGI:192... [more]
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BLAST of Testis-specific expressed protein 55 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 Testis-specific expressed protein 55 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A5J4NNA97.242e-738.81Uncharacterized protein OS=Paragonimus westermani ... [more]
A0A194ALX71.677e-646.67Uncharacterized protein OS=Pinctada fucata OX=5042... [more]
A0A0B6Y2F21.709e-636.84Uncharacterized protein (Fragment) OS=Arion vulgar... [more]
C3XR384.128e-629.21Uncharacterized protein OS=Branchiostoma floridae ... [more]
A0A1L8H5J78.508e-629.70Uncharacterized protein OS=Xenopus laevis OX=8355 ... [more]
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BLAST of Testis-specific expressed protein 55 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 1
Match NameE-valueIdentityDescription
si:dkey-70b23.21.260e-740.00si:dkey-70b23.2 [Source:ZFIN;Acc:ZDB-GENE-100922-2... [more]
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BLAST of Testis-specific expressed protein 55 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-specific expressed protein 55 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-specific expressed protein 55 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-specific expressed protein 55 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-specific expressed protein 55 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 1
Match NameE-valueIdentityDescription
SMESG000033391.11.176e-71100.00SMESG000033391.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30031571 ID=SMED30031571|Name=Testis-specific expressed protein 55|organism=Schmidtea mediterranea sexual|type=transcript|length=411bp
ATTTATTGTTGCTAAGATAACAATATTAAATTTAAAAAATAATTAATGTC
GAGTGTTACTAGTGAGAATGAAAGTGAATATGCACAGAGATGTGTAGATG
TTGCTATAAATGCAGGTTTAAATAGTCTAAAATCCAAAAATGAAAATCCG
GAACATAATACAGAAAACTATGAATTTATTAGTCATGAAAAAGTGTCTAA
AAATCCTTACAAATCAGCTTTAGAATACATGGAAAGACATTCTATATTGT
ATTTATTTCAGAAAATGACAGCAGATTTGTTGTTAGATAAACCTGAGGAT
GCAGTTGAATACATGATTCAATTTGTTGAAAAAAATTATTCTGCAAATTG
TTAAATGCAAATTTTTCAAAAAGATTTTATTTAATATATTAATATTTTTG
TGAAAAAAAAA
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protein sequence of SMED30031571-orf-1

>SMED30031571-orf-1 ID=SMED30031571-orf-1|Name=SMED30031571-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=103bp
MSSVTSENESEYAQRCVDVAINAGLNSLKSKNENPEHNTENYEFISHEKV
SKNPYKSALEYMERHSILYLFQKMTADLLLDKPEDAVEYMIQFVEKNYSA
NC*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000016pharynx
PLANA:0000099neuron
PLANA:0000418head
Vocabulary: INTERPRO
TermDefinition
IPR003117cAMP_dep_PK_reg_su_I/II_a/b