MAM domain-containing protein

Overview
NameMAM domain-containing protein
Smed IDSMED30027452
Length (bp)1802
Neoblast Clusters

Zeng et. al., 2018



▻ Overview

▻ Neoblast 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 MAM domain-containing protein (SMED30027452) t-SNE clustered cells

Violin plots show distribution of expression levels for MAM domain-containing protein (SMED30027452) in cells (dots) of each of the 12 neoblast clusters.

 

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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



SMED30027452

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
X1 cellSMED30027452h1SMcG0012633 SmedASXL_013789SmedAsxl_ww_GCZZ01PMID:26114597
Zhu et al., 2015		FACS sorted cell population asexual adult RNA-sequencing evidence
Smed sexual biotypeSMED30027452h1SMcG0012633 Contig35256newmark_estsPMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30027452h1SMcG0012633 Contig17456uc_Smed_v2PMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30027452h1SMcG0012633 Contig17456newmark_estsPMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
parenchymal cellSMED30027452h1SMcG0012633 dd_Smed_v4_1725_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
head regionSMED30027452h1SMcG0012633 dd_Smed_v6_22965_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
[Close]
BLAST of MAM domain-containing protein vs. TrEMBL
Match: A0A5K4FBY4 (Uncharacterized protein OS=Schistosoma mansoni OX=6183 PE=4 SV=1)

HSP 1 Score: 78.9518 bits (193), Expect = 1.796e-11
Identity = 49/166 (29.52%), Postives = 86/166 (51.81%), Query Frame = 3 
Query: 1164 NKLNCNFEENDMCDWMFDPRDTTVKWK-ITMDGNRNRILCMNLVN----IENGIESSISG--RLWSDLIKVTNAKQIKCLSFQY------RKPRGSSVSILRHSLGSCKQVMDPNTGKPTVTCSSDPIWKSSE----LHPAKQWNFVMLTLENLASDYKVSIDNSI 1610
            + ++C+FEE + C W  DPRD    W+ I +        C++L      +E+G +  + G  RLWS  ++     +I+CL F+Y      R P    +++++HS GSCK  +DP T +  V C +  +W SS     +H   +W  V++ L +   D+K+ ++ +I
Sbjct:   30 DPVSCSFEEGNFCGWNDDPRDVLAWWQVIHLPEFHTHAACLHLSTSPFFVESGDKLIVEGSARLWSGQVRSHPTNKIQCLGFKYIVLFNKRLPH-IRLNLMKHSTGSCKPSLDPETRQFGVFCGNAQLWSSSNDKQFMHTTTKWLTVVVNLNSTDQDFKLILEGTI 194
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BLAST of MAM domain-containing protein vs. TrEMBL
Match: A0A5K4F7Q4 (Uncharacterized protein OS=Schistosoma mansoni OX=6183 PE=4 SV=1)

HSP 1 Score: 78.1814 bits (191), Expect = 3.674e-11
Identity = 61/202 (30.20%), Postives = 97/202 (48.02%), Query Frame = 3 
Query: 1095 LFEFVSRCIKSVFGILF*NSVVGNKLNCNFEENDMCDWMFDPRDTTVKWKIT-MDGNRNRILCMNLVNIENGI---------ESSISGRLWSDLIKVTNA---KQIKCLSFQYRKPRGSS----VSILRHSLGSCKQVMDPNTGKPTVTCSSDPIWK---SSELHPAKQ--WNFVMLTL--------ENLASDYKVSIDNSI 1610
            LF FV   +K    I    + + N LNC +E+  +C W  DPRD    W++  +   + + LC+ L N +  +         E++IS RLWS  ++V       +I+CL F Y  P  ++    ++I+RHS  +C +V     G P V C++ PIW    S+ L    Q  W  V + L        E+  SDYK+ ++ +I
Sbjct:    8 LFLFV-LSVKVALLIRPKFNYIRNPLNCTYEDGTLCGWNMDPRDVLALWQVVDIPSFKTKALCL-LPNPDLSLYQDVSDLKFETNISARLWSGHVRVKKQLKDHEIRCLQFTYFIPSKTALKSRLTIMRHSDRACDRVT--YRGDPAVVCANKPIWSSVNSNSLPDFNQSIWQIVFIQLDQQITNQSESTLSDYKLILEGTI 205

HSP 2 Score: 66.2402 bits (160), Expect = 1.834e-7
Identity = 39/113 (34.51%), Postives = 63/113 (55.75%), Query Frame = 3 
Query:  120 INCRFENGEEFCRWNIDPRDQTAIWESMNYGSKVGDAACMSP-----IGENGESVKH----SARLWSPWLRFNKQMNEKAIIKCLKFVYRIDNINKSTSRNRLKANLSLLKHS 431
            +NC +E+G   C WN+DPRD  A+W+ ++  S    A C+ P     + ++   +K     SARLWS  +R  KQ+ +   I+CL+F Y I       S+  LK+ L++++HS
Sbjct:   32 LNCTYEDGT-LCGWNMDPRDVLALWQVVDIPSFKTKALCLLPNPDLSLYQDVSDLKFETNISARLWSGHVRVKKQLKDHE-IRCLQFTYFIP------SKTALKSRLTIMRHS 136
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BLAST of MAM domain-containing protein vs. TrEMBL
Match: A0A4V3SFB4 (MAM domain-containing protein OS=Opisthorchis felineus OX=147828 GN=CRM22_004594 PE=4 SV=1)

HSP 1 Score: 71.633 bits (174), Expect = 1.952e-10
Identity = 47/172 (27.33%), Postives = 81/172 (47.09%), Query Frame = 3 
Query: 1176 CNFEENDMCDWMFDPRDTTVKW--KITMDGNRNRILCMNLVNIENGIESS----------------------ISGRLWSDLIKVTNAKQIKCLSFQYR--------KPRGSSVSILRHSLGSCKQVMDPNTGKPTVTCSSDPIWKSSELHPAKQWNFVMLTLE-NLASDYKV 1592
            C F  +D C W+ DP     +W  +I+     +  LC+++ +  +    +                      +  RLWS    V +  ++ CL+F YR           G  +++L    GSC+QV+D  +G P+V C++ PIW+S++  PA QW   +++LE +  SDYK+
Sbjct:   28 CTFS-SDTCGWINDPNSWKYRWIREISEPYQEDHALCLSVSSHASSDAPARLISQFSSRTSSSFLRKVNIGPVQARLWSP--PVLSDDRLGCLTFLYRVGGITRKSSDFGPLLAVLLRQEGSCRQVLDSESGMPSVLCANQPIWRSADGPPATQWQTALISLETSHQSDYKI 196
[Close]
BLAST of MAM domain-containing protein vs. TrEMBL
Match: A0A5K4F7P9 (Uncharacterized protein OS=Schistosoma mansoni OX=6183 PE=4 SV=1)

HSP 1 Score: 74.7146 bits (182), Expect = 2.470e-10
Identity = 46/160 (28.75%), Postives = 83/160 (51.88%), Query Frame = 3 
Query: 1170 LNCNFEENDMCDWMFDPRDTTVKWK-ITMDGNRNRILCMNLVN----IENGIESSISG--RLWSDLIKVTNAKQIKCLSFQY------RKPRGSSVSILRHSLGSCKQVMDPNTGKPTVTCSSDPIWKSSELHPAKQWNFVMLTLENLASDYKVSIDNSI 1610
            ++C+FEE + C W  DPRD    W+ I +        C++L      +E+G +  + G  RLWS  ++     +I+CL F+Y      R P    +++++HS GSC  V    +G  ++TC +  ++KS     + +W  +M+ L    +DYK+ ++ +I
Sbjct:   32 VSCSFEEGNFCGWNDDPRDVLAWWQVIHLPEFHTHAACLHLSTSPFFVESGDKLIVEGSARLWSGQVRSHPTNKIQCLGFKYIVLFNKRLPH-IRLNLMKHSTGSCITVQKGLSGDTSLTCDNKGLFKSGNQLSSDEWLKIMVDLPPTNTDYKLILEGTI 190
[Close]
BLAST of MAM domain-containing protein vs. TrEMBL
Match: A0A183R944 (Uncharacterized protein OS=Schistosoma rodhaini OX=6188 PE=4 SV=1)

HSP 1 Score: 58.151 bits (139), Expect = 9.295e-10
Identity = 35/110 (31.82%), Postives = 56/110 (50.91%), Query Frame = 3 
Query: 1158 VGNKLNCNFEENDMCDWMFDPRDTTVKWKIT-MDGNRNRILCMNLVNIENGI---------ESSISGRLWSDLIKVTNA---KQIKCLSFQYRKPR----GSSVSILRHS 1436
            + N LNC +E+  +C W  DPRD    W++  +   + + LC+ L N +  +         E++IS RLWS  ++V       +I+CL F Y  P      S ++I+RHS
Sbjct:  963 IRNPLNCTYEDGTLCGWNMDPRDVLALWQVVDIPSFKTKALCL-LPNPDLSLYQDVSDLKFETNISARLWSGHVRVKKQLKDHEIRCLQFTYFIPSKIALKSRLTIMRHS 1071

HSP 2 Score: 35.8094 bits (81), Expect = 9.295e-10
Identity = 34/112 (30.36%), Postives = 48/112 (42.86%), Query Frame = 2 
Query:  743 NYCNSNVDSRDQTATWDSMNYGNEIKDAACMKPIGVGYFPKH--------TARLWSTWIHKLRTSAQVPLRPLQQPIRCLRFYYRIYSGVEFNEDSILFKNINLALLKHSSG 1054
            N+C  N D RD  A W  ++       AAC+      +F +         +ARLW         S QV   P  + I+CL F Y +     FN+      +I L L+KHS+G
Sbjct:  844 NFCGWNDDPRDVLAWWQVIHLPEFHTHAACLHLSTSPFFAESGDKLIVEGSARLW---------SGQVRSHPTNK-IQCLGFKYIVL----FNKR---LPHIRLNLMKHSTG 938

HSP 3 Score: 66.6254 bits (161), Expect = 1.417e-7
Identity = 41/120 (34.17%), Postives = 65/120 (54.17%), Query Frame = 3 
Query:  120 INCRFENGEEFCRWNIDPRDQTAIWESMNYGSKVGDAACMSP-----IGENGESVKH----SARLWSPWLRFNKQMNEKAIIKCLKFVYRIDNINKSTSRNRLKANLSLLKHSKGLESHY 452
            +NC +E+G   C WN+DPRD  A+W+ ++  S    A C+ P     + ++   +K     SARLWS  +R  KQ+ +   I+CL+F Y I       S+  LK+ L++++HS    S Y
Sbjct:  967 LNCTYEDGT-LCGWNMDPRDVLALWQVVDIPSFKTKALCLLPNPDLSLYQDVSDLKFETNISARLWSGHVRVKKQLKDHE-IRCLQFTYFI------PSKIALKSRLTIMRHSDSASSVY 1078
[Close]
BLAST of MAM domain-containing protein vs. Planmine SMEST
Match: SMESG000074173.1 (SMESG000074173.1)

HSP 1 Score: 49.6766 bits (117), Expect = 3.421e-7
Identity = 37/124 (29.84%), Postives = 64/124 (51.61%), Query Frame = 3 
Query: 1110 SRCIKSVFGILF*NSVVGNKL-NCNFEENDMCDWMFDPRDTTVKWKITMDGNRNRILCMNLVNIENGI----------ESSISGRLWSDLIKVTNAKQIKCLSFQYR--KPRGSSVSILRHSLG 1442
            S+CI  +   ++  +++G KL +CNFE N+ C W  D  +  + WK T       +  +N  N ENG           ES+++ RLWS   +V    ++ CL+FQYR    + + ++++R  +G
Sbjct:    4 SQCIDGLGNCVYCKNILGQKLLDCNFE-NEFCKWGNDFNNWKMNWKQTA---MYELGFINTQNTENGGACLIASEIADESALTARLWSP--EVMKNVKLGCLAFQYRIDGDKSTKLTLMRREMG 121
The following BLAST results are available for this feature:
BLAST of MAM 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 MAM 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 MAM 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 MAM 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 MAM 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 MAM 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 MAM 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 MAM domain-containing protein vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A5K4FBY41.796e-1129.52Uncharacterized protein OS=Schistosoma mansoni OX=... [more]
A0A5K4F7Q43.674e-1130.20Uncharacterized protein OS=Schistosoma mansoni OX=... [more]
A0A4V3SFB41.952e-1027.33MAM domain-containing protein OS=Opisthorchis feli... [more]
A0A5K4F7P92.470e-1028.75Uncharacterized protein OS=Schistosoma mansoni OX=... [more]
A0A183R9449.295e-1031.82Uncharacterized protein OS=Schistosoma rodhaini OX... [more]
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BLAST of MAM 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 MAM 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 MAM 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 MAM 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 MAM 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 MAM domain-containing protein vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 1
Match NameE-valueIdentityDescription
SMESG000074173.13.421e-729.84SMESG000074173.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30027452 ID=SMED30027452|Name=MAM domain-containing protein|organism=Schmidtea mediterranea sexual|type=transcript|length=1802bp
CTTTAAAATATATTACTCATTTTAAAATATTTAAAATATTGCCTTTGTTA
ACTATGACATTGAAAACGATTTTACTACTGTGCATTATGGGATATGCCGC
AGGAAATGTAGGATCTTTGATAAATTGTCGATTTGAAAACGGAGAGGAAT
TCTGCCGGTGGAATATAGACCCACGGGATCAGACCGCTATTTGGGAATCA
ATGAATTATGGCTCCAAAGTCGGGGATGCAGCTTGTATGAGTCCCATTGG
GGAAAATGGGGAATCCGTTAAACATTCTGCTCGATTATGGAGCCCTTGGT
TGCGTTTCAATAAACAAATGAATGAAAAAGCAATAATTAAATGCTTAAAA
TTTGTTTATCGTATTGATAATATAAACAAATCAACATCTCGGAACCGCTT
GAAAGCAAATTTGTCTCTTTTGAAACATTCAAAAGGGTTAGAAAGTCATT
ATTAAATCGAGCATTGATATTCTGAAGTGACAATAAATCTCTAAATTTTT
TAAAGTGTTAAGTTAAAAATTCGTTAAATAGATATCTTAATTATTCGAGG
AAATATTTATTTATAAAGTGACGTTTCGGTATGAGGTTCAATCATATCTG
TTCTATGTCACTGAGATTTGATTAATTATTGTACAATAATCCACTGATTT
TATAAATAAACGAGCCTTGTTCAAGAAACCTGAACCGGATAATAGAGTTT
TGATTTTAGTGGAGAAGCTAATTAAAAATAAATAATGGGGAAAATTATTG
CAATTCGAATGTAGATTCTCGAGATCAAACAGCGACTTGGGATTCAATGA
ATTATGGCAATGAAATAAAAGATGCTGCCTGCATGAAACCTATTGGGGTG
GGGTATTTTCCAAAACATACTGCTCGACTTTGGAGTACATGGATCCATAA
ATTGCGAACCAGCGCTCAAGTTCCTTTACGTCCTCTCCAACAACCAATTC
GTTGTTTAAGATTTTATTATAGAATTTACAGCGGTGTTGAATTCAACGAA
GATTCTATATTGTTTAAAAATATTAATTTAGCTCTTCTGAAACATTCTTC
CGGGTGAGAAAAATTATTACTCAGTTTTTTGTTGTCATTAAAATTTGTTT
GAGTTTGTTTCTCGGTGCATAAAATCTGTGTTTGGAATTTTATTTTAAAA
TTCGGTTGTAGGAAATAAGTTAAATTGTAATTTTGAAGAAAATGATATGT
GCGACTGGATGTTTGATCCGAGGGATACAACGGTTAAATGGAAAATTACT
ATGGATGGAAATCGCAATAGGATTCTTTGCATGAACTTGGTCAATATCGA
AAACGGAATAGAAAGTTCAATAAGTGGAAGACTTTGGAGTGATTTAATAA
AAGTCACAAATGCCAAACAGATAAAATGTTTAAGTTTTCAATATAGGAAA
CCACGGGGCTCTTCAGTGTCTATACTTAGACATTCATTGGGATCTTGCAA
GCAAGTAATGGATCCAAATACAGGCAAACCTACGGTCACTTGTTCAAGTG
ATCCTATATGGAAGAGTAGTGAGCTTCATCCTGCAAAGCAATGGAATTTT
GTAATGTTAACGCTGGAAAATCTGGCGTCAGATTATAAAGTTAGCATTGA
TAATTCTATCAATCTTCATGTTAATATGATGGTCATGGTTTTCAATTAAT
GCTGCTTTTAAATTTGTTCCTTTTTATAATCAAGTGCTTTTTGCATCATT
TCTCCCCTAAATTAAATATTAAAACAGTGACTTCATTTGCCAGTATTAAA
CGCTTTTTTATTTCAATCATATATTTGTCGTAACTTATCGTCGTTTGTAT
TT
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protein sequence of SMED30027452-orf-1

>SMED30027452-orf-1 ID=SMED30027452-orf-1|Name=SMED30027452-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=151bp
MCDWMFDPRDTTVKWKITMDGNRNRILCMNLVNIENGIESSISGRLWSDL
IKVTNAKQIKCLSFQYRKPRGSSVSILRHSLGSCKQVMDPNTGKPTVTCS
SDPIWKSSELHPAKQWNFVMLTLENLASDYKVSIDNSINLHVNMMVMVFN
*
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protein sequence of SMED30027452-orf-2

>SMED30027452-orf-2 ID=SMED30027452-orf-2|Name=SMED30027452-orf-2|organism=Schmidtea mediterranea sexual|type=polypeptide|length=151bp
LKYITHFKIFKILPLLTMTLKTILLLCIMGYAAGNVGSLINCRFENGEEF
CRWNIDPRDQTAIWESMNYGSKVGDAACMSPIGENGESVKHSARLWSPWL
RFNKQMNEKAIIKCLKFVYRIDNINKSTSRNRLKANLSLLKHSKGLESHY
*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0003116parenchymal cell
Vocabulary: INTERPRO
TermDefinition
IPR000998MAM_dom
Vocabulary: cellular component
TermDefinition
GO:0016020membrane
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availableTMHMMTMhelixcoord: 12..34