MARVEL domain-containing protein

Overview
NameMARVEL domain-containing protein
Smed IDSMED30018243
Length (bp)1207
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 MARVEL domain-containing protein (SMED30018243) t-SNE clustered cells

Violin plots show distribution of expression levels for MARVEL domain-containing protein (SMED30018243) 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 MARVEL domain-containing protein (SMED30018243) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for MARVEL domain-containing protein (SMED30018243) 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



SMED30018243

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



PAGE Curations: 3

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
nervous systemSMED30018243h1SMcG0020703 dd_Smed_v4_2540_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
gutSMED30018243h1SMcG0020703 dd_Smed_v4_2540_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymal cellSMED30018243h1SMcG0020703 dd_Smed_v4_2540_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
[Close]
BLAST of MARVEL domain-containing protein vs. TrEMBL
Match: G4VKT0 (Putative marvel-containing potential lipid raft-associated protein OS=Schistosoma mansoni OX=6183 GN=Smp_046290 PE=4 SV=1)

HSP 1 Score: 73.9442 bits (180), Expect = 1.786e-11
Identity = 49/133 (36.84%), Postives = 66/133 (49.62%), Query Frame = 2 
Query:  362 LYLSNIIYRLPGPWILIECVSILLSVFFLTIAILVGAFSHKYGGGAIAATVFCALNDVVYGVEMFLRFRITRSG-GWTFTATAIDGDIATK-------------HATTVTSEVTMTQEKAPGQNAYGDSYAVP 718
             YL N+I +LPGPWI+IE   +L+  FF  I ++V A  H  G GAIAA VF A+   VY  E+  RFR  R G G+  T T +    AT               A +V   +  +   APG+ A  + Y +P
Sbjct:   84 FYLFNLIRKLPGPWIIIEFSVLLICTFFWFITLIVAAAHHSKGAGAIAAAVFSAIALAVYITELATRFRCERRGNGFIITMTGVMTTHATHGPPTFAQPAPGHMQAESVDPHIGFSGAYAPGERA-DEGYIMP 215
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BLAST of MARVEL domain-containing protein vs. TrEMBL
Match: A0A183PFN8 (MARVEL domain-containing protein OS=Schistosoma mattheei OX=31246 GN=SMTD_LOCUS13174 PE=4 SV=1)

HSP 1 Score: 72.7886 bits (177), Expect = 5.147e-11
Identity = 46/120 (38.33%), Postives = 61/120 (50.83%), Query Frame = 2 
Query:  362 LYLSNIIYRLPGPWILIECVSILLSVFFLTIAILVGAFSHKYGGGAIAATVFCALNDVVYGVEMFLRFRITRSG-GWTFTATAIDGDIATKHATTVTSEVT--MTQEKAPGQNAYGDSYA 712
             YL N+I +LPGPWI+IE   +L+  FF  I ++V A  H  G GAIAA VF A+   VY  E+  RFR  R G G+  T T +    AT+   T        M  + A     +  +YA
Sbjct:   84 FYLFNLIRKLPGPWIIIEFSVLLICTFFWFITLIVAAAHHSKGSGAIAAAVFSAIALAVYITELATRFRCERRGNGFIITMTGVMTTHATRGPPTFAQPAPGHMPADSADPHIGFSGAYA 203
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BLAST of MARVEL domain-containing protein vs. TrEMBL
Match: A0A094ZXH3 (MARVEL domain-containing protein OS=Schistosoma haematobium OX=6185 GN=MS3_07473 PE=4 SV=1)

HSP 1 Score: 72.7886 bits (177), Expect = 5.297e-11
Identity = 46/120 (38.33%), Postives = 61/120 (50.83%), Query Frame = 2 
Query:  362 LYLSNIIYRLPGPWILIECVSILLSVFFLTIAILVGAFSHKYGGGAIAATVFCALNDVVYGVEMFLRFRITRSG-GWTFTATAIDGDIATKHATTVTSEVT--MTQEKAPGQNAYGDSYA 712
             YL N+I +LPGPWI+IE   +L+  FF  I ++V A  H  G GAIAA VF A+   VY  E+  RFR  R G G+  T T +    AT+   T        M  + A     +  +YA
Sbjct:   84 FYLFNLIRKLPGPWIIIEFSVLLICTFFWFITLIVAAAHHSKGSGAIAAAVFSAIALAVYITELATRFRCERRGNGFIITMTGVMTTHATRGPPTFAQPAPGHMPADSADPHIGFSGAYA 203
[Close]
BLAST of MARVEL domain-containing protein vs. TrEMBL
Match: A0A4E0RCG1 (Marvel-containing potential lipid raft-associated protein OS=Fasciola hepatica OX=6192 GN=D915_004090 PE=4 SV=1)

HSP 1 Score: 71.2478 bits (173), Expect = 1.324e-10
Identity = 47/124 (37.90%), Postives = 67/124 (54.03%), Query Frame = 2 
Query:  362 LYLSNIIYRLPGPWILIECVSILLSVFFLTIAILVGAFSHKYGGGAIAATVFCALNDVVYGVEMFLRFRITR-SGGWTFTATAIDGDIATKHATTVTSEVTMTQEKAPGQN------AYGDSYA 712
             YL N+I RL GPWI+IE  ++++SV F  IA +V A   ++G GAIAA VF      VY  E+  RFR+++ +GG+  T T +    A   A     ++T      PG N      A+G +YA
Sbjct:   81 FYLFNLIRRLRGPWIIIEFATLVVSVVFWFIAFIVAASMSRFGPGAIAAAVFSVAAMSVYIAELVTRFRVSKQAGGFRITMTGVKTVTAPVSA---HPQMTPAPTHEPGYNPNETRIAFGGAYA 201
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BLAST of MARVEL domain-containing protein vs. TrEMBL
Match: A0A0X3P3X6 (MARVEL domain-containing protein OS=Schistocephalus solidus OX=70667 GN=TR118534 PE=4 SV=1)

HSP 1 Score: 70.8626 bits (172), Expect = 1.527e-10
Identity = 41/113 (36.28%), Postives = 59/113 (52.21%), Query Frame = 2 
Query:  383 YRLPGPWILIECVSILLSVFFLTIAILVGAFSHKYGGGAIAATVFCALNDVVYGVEMFLRFRITRSGGWTFTATAIDGDIATKHATTVTSEVTMTQEKAPGQNAYG-DSYAVP 718
            +RLPGPW+LI+ V   +  F +TI+++V A S  YGG AI+A +FCA+  V Y VE  +RF I R       +T   G  +T              +  PG + Y  D+Y +P
Sbjct:   90 HRLPGPWVLIDFVVQAVLCFLMTISLIVAAASSHYGGSAISAAIFCAILAVTYAVECAIRFSIYRQNNQLIVST--KGVTSTGPNFQAAGADHTVPQTGPGMSPYPTDTYGMP 200
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BLAST of MARVEL domain-containing protein vs. Planmine SMEST
Match: SMESG000017269.1 (SMESG000017269.1)

HSP 1 Score: 241.506 bits (615), Expect = 1.120e-78
Identity = 192/201 (95.52%), Postives = 196/201 (97.51%), Query Frame = 2 
Query:  116 MSYNPXXXXXXXXXXXXXXXXXXLNKLFITSLPGXXXXXXXXXXXXXXXCVGSTPXXXXXXXXXXXXXXXXXXXXXXXXXXXLYLSNIIYRLPGPWILIECVSILLSVFFLTIAILVGAFSHKYGGGAIAATVFCALNDVVYGVEMFLRFRITRSGGWTFTATAIDGDIATKHATTVTSEVTMTQEKAPGQNAYGDSYAVP 718
            MSYNPTSTTEHVATTTT+++   LNKLFI SLPGILKIIELVVDIIIWICVGSTPFFGYGGNGGYINFAATITFIFTIVFFILYLSNIIYRLPGPWILIECVSILLSVFFLTIAILVGAFSHK+GGGAIAATVFCALNDVVYGVEMFLRFRITRSGGWTFTATAIDGDIATKHATTVTSEVT TQEKAPGQNAYGDSYAVP
Sbjct:    1 MSYNPTSTTEHVATTTTSASIS-LNKLFIISLPGILKIIELVVDIIIWICVGSTPFFGYGGNGGYINFAATITFIFTIVFFILYLSNIIYRLPGPWILIECVSILLSVFFLTIAILVGAFSHKFGGGAIAATVFCALNDVVYGVEMFLRFRITRSGGWTFTATAIDGDIATKHATTVTSEVTTTQEKAPGQNAYGDSYAVP 200
[Close]
BLAST of MARVEL domain-containing protein vs. Planmine SMEST
Match: SMESG000001041.1 (SMESG000001041.1)

HSP 1 Score: 72.0182 bits (175), Expect = 1.004e-14
Identity = 40/107 (37.38%), Postives = 57/107 (53.27%), Query Frame = 2 
Query:  362 LYLSNIIYRLPGPWILIECVSILLSVFFLTIAILVGAFSHKYGGGAIAATVFCALNDVVYGVEMFLRFRITRSGGWTFTATAIDGDIATKHATTVTSEVTMTQEKAP 682
            LYL   I  +PGPW+LIE ++IL S+    + +LV A S  YG GAIA  +   +  V+Y VE  LRF++ R+ G+ F+A     D       T T + T+     P
Sbjct:   64 LYLFAKIQVIPGPWVLIEVITILSSIVLFLVCLLVAAISTDYGSGAIATAIISGIEMVIYIVEFVLRFKVMRTTGFRFSAHMKSTD------NTETGQNTVNNPSGP 164
The following BLAST results are available for this feature:
BLAST of MARVEL 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 MARVEL 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 MARVEL 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 MARVEL 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 MARVEL 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 MARVEL 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 MARVEL 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 MARVEL domain-containing protein vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
G4VKT01.786e-1136.84Putative marvel-containing potential lipid raft-as... [more]
A0A183PFN85.147e-1138.33MARVEL domain-containing protein OS=Schistosoma ma... [more]
A0A094ZXH35.297e-1138.33MARVEL domain-containing protein OS=Schistosoma ha... [more]
A0A4E0RCG11.324e-1037.90Marvel-containing potential lipid raft-associated ... [more]
A0A0X3P3X61.527e-1036.28MARVEL domain-containing protein OS=Schistocephalu... [more]
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BLAST of MARVEL 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 MARVEL 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 MARVEL 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 MARVEL 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 MARVEL 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 MARVEL domain-containing protein vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 2
Match NameE-valueIdentityDescription
SMESG000017269.11.120e-7895.52SMESG000017269.1[more]
SMESG000001041.11.004e-1437.38SMESG000001041.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30018243 ID=SMED30018243|Name=MARVEL domain-containing protein|organism=Schmidtea mediterranea sexual|type=transcript|length=1207bp
TAATAACATAATATTTTCGTCAATACACAAAATTCTTTTGTATTTCTAAA
TTGTTTTTAATAAACATCATTCCGAGAAATTCAAATTAAGCAACAGTCAA
GCCAGTTTAAATTAAATGTCTTATAATCCTACAAGTACTACAGAGCATGT
TGCTACTACTACTACTACATCGGCATCTATATCATTGAATAAGCTGTTTA
TTACATCGCTCCCAGGGATTTTAAAAATAATTGAATTAGTCGTTGACATA
ATTATCTGGATTTGTGTGGGTTCCACTCCGTTTTTTGGATACGGTGGCAA
TGGTGGATACATTAATTTTGCGGCAACGATAACTTTCATATTTACAATAG
TATTTTTCATTTTATACTTGTCCAACATCATTTATCGTTTACCTGGACCG
TGGATTTTAATTGAATGTGTATCAATATTGCTGTCTGTTTTCTTTCTGAC
CATTGCCATATTAGTTGGTGCTTTTTCTCATAAATACGGAGGAGGTGCGA
TAGCGGCAACGGTATTCTGCGCACTGAATGATGTTGTCTATGGTGTGGAA
ATGTTTCTCAGGTTCAGGATCACCCGATCCGGTGGCTGGACCTTCACTGC
GACCGCCATTGACGGCGACATCGCTACCAAGCACGCCACTACTGTCACTA
GCGAGGTCACTATGACCCAAGAGAAAGCTCCTGGACAAAACGCTTACGGA
GATTCCTATGCAGTTCCATAATCAATCGATATTGCCCCCCCCCTCTGCAA
TCTATCTGATCAATTGCATATTTATAGATGTTTAGAAATTATTGCAAAAT
TTTATTATCGATGTTGTCAGCCATTTTTATTCGGGCGATTAGATCTAATT
AATTTTTGATTAATATTCAATATTGGATTAATATTATTATTATTATTGAT
GTATTTGAATATAAATCTATATCTTTGTTATTTTTATTGATTATTATTGT
TATTATCCACTATTGATTTATAATTTGATGCTGACAGTGCTGATCTGTGT
GTGTGTGTCACTGATCGGATCAATTTATATTTGAGTGTGCATTTCACACC
GCAATTTATATTTTATGGATAATTTATTGATTACTCATTGATCGAATGTC
CTTGATAAATGTCCTTGAGATAGTGCTATTGGCACATTTGTTGCTATGCG
ATATCTGATTTTGTTATTGAATATTATTAATAAATATTGATTTGTTTTGA
AAAAAAA
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protein sequence of SMED30018243-orf-1

>SMED30018243-orf-1 ID=SMED30018243-orf-1|Name=SMED30018243-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=202bp
MSYNPTSTTEHVATTTTTSASISLNKLFITSLPGILKIIELVVDIIIWIC
VGSTPFFGYGGNGGYINFAATITFIFTIVFFILYLSNIIYRLPGPWILIE
CVSILLSVFFLTIAILVGAFSHKYGGGAIAATVFCALNDVVYGVEMFLRF
RITRSGGWTFTATAIDGDIATKHATTVTSEVTMTQEKAPGQNAYGDSYAV
P*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000099neuron
PLANA:0003116parenchymal cell
Vocabulary: INTERPRO
TermDefinition
IPR008253Marvel
Vocabulary: cellular component
TermDefinition
GO:0016020membrane
GO:0016021integral component of membrane
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR008253Marvel domainPFAMPF01284MARVELcoord: 27..147
e-value: 3.0E-9
score: 37.1
IPR008253Marvel domainPROSITEPS51225MARVELcoord: 27..153
score: 13.894
NoneNo IPR availablePANTHERPTHR22776MARVEL-CONTAINING POTENTIAL LIPID RAFT-ASSOCIATED PROTEINcoord: 4..154
NoneNo IPR availableTMHMMTMhelixcoord: 63..85
NoneNo IPR availableTMHMMTMhelixcoord: 26..48
NoneNo IPR availableTMHMMTMhelixcoord: 97..119
NoneNo IPR availableTMHMMTMhelixcoord: 124..143