Transmembrane protein 72

Overview
NameTransmembrane protein 72
Smed IDSMED30022955
Length (bp)905
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 Transmembrane protein 72 (SMED30022955) t-SNE clustered cells

Violin plots show distribution of expression levels for Transmembrane protein 72 (SMED30022955) in cells (dots) of each of the 12 neoblast clusters.

 

back to top

 

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 Transmembrane protein 72 (SMED30022955) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for Transmembrane protein 72 (SMED30022955) in cells (dots) of each of the 10 clusters of sub-leathally irradiated X1 and X2 cells.

 

back to top

 

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

 

back to top
Anatomical Expression

PAGE et. al., 2020



SMED30022955

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



PAGE Curations: 4

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
nervous systemSMED30022955h1SMcG0004547 dd_Smed_v4_6789_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
gutSMED30022955h1SMcG0004547 dd_Smed_v4_6789_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30022955h1SMcG0004547 dd_Smed_v4_6789_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
non-ciliated neuronSMED30022955h1SMcG0004547 dd_Smed_v4_6789_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 Transmembrane protein 72 vs. TrEMBL
Match: A0A2C9KNM1 (Uncharacterized protein OS=Biomphalaria glabrata OX=6526 GN=106071161 PE=4 SV=1)

HSP 1 Score: 82.0333 bits (201), Expect = 6.921e-15
Identity = 36/92 (39.13%), Postives = 58/92 (63.04%), Query Frame = 1 
Query:  148 IVVICRAFGIIVCISIWGISVNHLYANKFESFAGWYLMAVAFVLTFFEIIWIIDQAPCVSDSDCCRNFWKCLLWVEDWRKTILYTLLTIPLF 423
            I  I R FG+I    +W +S   +  +   S+ G+YL+ V+ ++TFFE+ WI+D++ C     CC   W  ++WV++WRK ILY L+++PLF
Sbjct:   26 IKTIARCFGLITIAVLW-VSTVLIIKDHNNSYVGYYLIGVSTLVTFFELTWIVDKSACCVRQGCCCRVWSAIMWVDNWRKFILYLLMSVPLF 116
[Close]
BLAST of Transmembrane protein 72 vs. TrEMBL
Match: V4AKU1 (Uncharacterized protein OS=Lottia gigantea OX=225164 GN=LOTGIDRAFT_232459 PE=4 SV=1)

HSP 1 Score: 81.2629 bits (199), Expect = 1.659e-14
Identity = 38/98 (38.78%), Postives = 57/98 (58.16%), Query Frame = 1 
Query:  136 FFRYIVVICRAFGIIVCISIWGISVNHLYANKFESFAGWYLMAVAFVLTFFEIIWIIDQAPCVSDSDCCRNFWKCLLWVEDWRKTILYTLLTIPLFWN 429
            F + I +I R  G  V I IW  +V  ++      + GWYL+A   ++TFFE +WI+D+  C +   CC   W  +LWV+ W+K +LY  L+IP+F N
Sbjct:   24 FIKNITIIARMCGFGVVILIWSAAVLCIHRYPDVPYLGWYLVASGLLITFFETVWIMDKCVCCARVGCCCTLWSVILWVDCWKKGVLYISLSIPMFLN 121
[Close]
BLAST of Transmembrane protein 72 vs. TrEMBL
Match: A0A1I8H305 (Uncharacterized protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig004556g1 PE=4 SV=1)

HSP 1 Score: 81.2629 bits (199), Expect = 2.118e-14
Identity = 39/101 (38.61%), Postives = 62/101 (61.39%), Query Frame = 1 
Query:  133 CFFRYIVVICRAFGIIVCISIWGISVNHLYANKFESFAGWYLMAVAFVLTFFEIIWIIDQAPCVSDSDCCRNFWKCLLWVEDWRKTILYTLLTIPLFWNLN 435
            C F+YI ++CR  G++V + ++ + ++ L   K+ +  GWYL+ +  +LTF E +W+ D+  C  D  CC   W+ + W++ WRKTILY  L IPLF   N
Sbjct:   12 CCFKYITMLCRMAGLVVVVCLYIMMISILTVEKYHTINGWYLLGITVLLTFLESVWLFDKCNCCDDMSCCCMIWRAIKWIDCWRKTILYIALPIPLFLRNN 112
[Close]
BLAST of Transmembrane protein 72 vs. TrEMBL
Match: A0A210QM84 (Transmembrane protein 72 OS=Mizuhopecten yessoensis OX=6573 GN=KP79_PYT05763 PE=4 SV=1)

HSP 1 Score: 77.7962 bits (190), Expect = 1.788e-13
Identity = 53/182 (29.12%), Postives = 92/182 (50.55%), Query Frame = 1 
Query:  100 MSNMPGNCCPDCFFRYIVVICRAFGIIVCISIWGISVNHLYANKFESFAGWYLMAVAFVLTFFEIIWIIDQAPCV----------SDSDCCRNFWKCLLWVEDWRKTILYTLLTIPLFWNLNISHSVXXXXXXXXXXXXXFYSIKSFDQREPSPKRIDRRNSETTEILSKPYTKLNEDPDDD 615
            M N  G C   C + +   +CR +GII CI +WGI V   +  ++    G+ L+A A ++TF E+++ +D   CV            + CC   W C+LW++ W+K +LY LL +P F   +    + +I+ +++++  IFY IK+F        +  +   ETT      +  + ED +D+
Sbjct:    1 MGNRDGKC-TYCLWEFYFWLCRFWGIITCIVLWGIGVEEAFYGRY---VGFILLAEAVIVTFLEVVFFVD--FCVKILKSGDDEEESASCCLKMWACVLWIDHWKKGVLYLLLAVPCFIEPH-DAWLAIISGVMLMMSAIFYIIKTFGSMNEETHQ--KLPQETT---YDRFDDIQEDLEDN 170
[Close]
BLAST of Transmembrane protein 72 vs. TrEMBL
Match: A0A3S1CD69 (Uncharacterized protein OS=Elysia chlorotica OX=188477 GN=EGW08_002705 PE=4 SV=1)

HSP 1 Score: 75.485 bits (184), Expect = 3.197e-12
Identity = 36/95 (37.89%), Postives = 57/95 (60.00%), Query Frame = 1 
Query:  139 FRYIVVICRAFGIIVCISIWGISVNHLYANKFESFAGWYLMAVAFVLTFFEIIWIIDQAPCVSDSDCCRNFWKCLLWVEDWRKTILYTLLTIPLF 423
             R I +  R  G+I    +W IS   +  +   S+ G+YL+ ++ ++TFFEI WI+D+A C     CC + W  +L+V+ W K ++YT L+IPLF
Sbjct:   19 LRNIKIFSRTLGLITLAVLW-ISCVFIIRDHSHSYVGFYLIPISVIVTFFEITWILDKAACCVREGCCCHVWTGILFVDTWVKFLMYTGLSIPLF 112
[Close]
BLAST of Transmembrane protein 72 vs. Ensembl Nematostella
Match: EDO38310 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7SDD8])

HSP 1 Score: 49.6766 bits (117), Expect = 1.183e-7
Identity = 26/92 (28.26%), Postives = 49/92 (53.26%), Query Frame = 1 
Query:  136 FFRYIVVICRAFGIIVCISIWGISVNHLYANKFESFAGWYLMAVAFVLTFFEIIWIIDQAPCVSDSDCCRNFWKCLLWVEDWRKTILYTLLT 411
            F+R+     R  G+  C+++W + +  L  +K +     YL+     ++F EII+IID+  C  +     + WK L   ++W+K +LY +L+
Sbjct:   12 FWRHFTTFTRILGLATCVAMWWVGI--LLIDKPDKRIAVYLLITGASISFLEIIFIIDKCACCKEGSFGFSLWKFLRAFDNWKKFLLYVVLS 101
[Close]
BLAST of Transmembrane protein 72 vs. Planmine SMEST
Match: SMESG000039568.1 (SMESG000039568.1)

HSP 1 Score: 187.963 bits (476), Expect = 2.625e-60
Identity = 94/117 (80.34%), Postives = 95/117 (81.20%), Query Frame = 1 
Query:  100 MSNMPGNCCPDCFFRYIVVICRAFGIIVCISIWGISVNHLYANKFESFAGWYLMAVAFVLTFFEIIWIIDQAPCVSDSDCCRNFWKCLLWVEDWRKTILYTLLTIPLFWNLNISHSV 450
            MSNMPGNCCPDCFFRYIVVICRAFGIIVCISIWGISVNHLYANKFESFAGWYL+                      DSDCCRNFWKCLLWVEDWRKTILYTLLTIPLFWNLNISHSV
Sbjct:    1 MSNMPGNCCPDCFFRYIVVICRAFGIIVCISIWGISVNHLYANKFESFAGWYLI----------------------DSDCCRNFWKCLLWVEDWRKTILYTLLTIPLFWNLNISHSV 95
[Close]
BLAST of Transmembrane protein 72 vs. Planmine SMEST
Match: SMESG000039568.1 (SMESG000039568.1)

HSP 1 Score: 117.087 bits (292), Expect = 4.968e-33
Identity = 53/54 (98.15%), Postives = 54/54 (100.00%), Query Frame = 1 
Query:  100 MSNMPGNCCPDCFFRYIVVICRAFGIIVCISIWGISVNHLYANKFESFAGWYLM 261
            MSNMPGNCCPDCFFRYIVVICRAFGIIVCISIWGISVNHLYANKFESFAGWYL+
Sbjct:    1 MSNMPGNCCPDCFFRYIVVICRAFGIIVCISIWGISVNHLYANKFESFAGWYLI 54
The following BLAST results are available for this feature:
BLAST of Transmembrane protein 72 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of Transmembrane protein 72 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of Transmembrane protein 72 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of Transmembrane protein 72 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of Transmembrane protein 72 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of Transmembrane protein 72 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of Transmembrane protein 72 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of Transmembrane protein 72 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A2C9KNM16.921e-1539.13Uncharacterized protein OS=Biomphalaria glabrata O... [more]
V4AKU11.659e-1438.78Uncharacterized protein OS=Lottia gigantea OX=2251... [more]
A0A1I8H3052.118e-1438.61Uncharacterized protein OS=Macrostomum lignano OX=... [more]
A0A210QM841.788e-1329.12Transmembrane protein 72 OS=Mizuhopecten yessoensi... [more]
A0A3S1CD693.197e-1237.89Uncharacterized protein OS=Elysia chlorotica OX=18... [more]
back to top
BLAST of Transmembrane protein 72 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of Transmembrane protein 72 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of Transmembrane protein 72 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of Transmembrane protein 72 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 1
Match NameE-valueIdentityDescription
EDO383101.183e-728.26Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7... [more]
back to top
BLAST of Transmembrane protein 72 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of Transmembrane protein 72 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 2
Match NameE-valueIdentityDescription
SMESG000039568.12.625e-6080.34SMESG000039568.1[more]
SMESG000039568.14.968e-3398.15SMESG000039568.1[more]
back to top
Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30022955 ID=SMED30022955|Name=Transmembrane protein 72|organism=Schmidtea mediterranea sexual|type=transcript|length=905bp
TAGCACAATGCAATACACACATGCACACACACATGTAAATGCACACACAC
ACAAACTCTTGTGTTAAAAACTTTTCATTTAAAATTTAAATCAATTACAA
TGAGCAACATGCCGGGAAACTGTTGTCCAGATTGCTTTTTCAGGTACATT
GTTGTCATTTGTCGAGCGTTTGGAATTATCGTATGCATAAGTATTTGGGG
CATTTCAGTGAATCATTTATATGCAAATAAGTTCGAATCCTTTGCCGGAT
GGTATCTAATGGCTGTTGCATTTGTGTTGACCTTTTTTGAGATAATTTGG
ATAATTGATCAAGCCCCATGTGTTTCAGACAGTGATTGTTGTCGAAATTT
TTGGAAGTGTTTGTTATGGGTTGAAGATTGGAGAAAGACTATACTTTACA
CTTTGCTAACTATTCCGTTATTTTGGAATCTTAATATTTCTCATTCAGTA
ATTTTGATTGCCGTTATTTTGATAATTTTGCTTGGCATATTCTATTCAAT
AAAATCATTCGACCAAAGAGAACCATCACCTAAACGCATAGATAGACGTA
ACAGTGAAACTACAGAAATTCTATCCAAGCCCTACACGAAATTAAACGAA
GATCCTGATGATGACAAAGTGGTAGCAATTTATAAAGTCGATGAGCAGGT
AATAATGGCCGACCCTGGACCTAAAAAATAAAACAAATCTTGTTTCTTGA
CACTTATTAAGATTTTCGGTGGTTTATATGTAACTTTGGTATAATAAATA
AGTGTTGGTTACTGCATGTCCTTACATAATTTCCTTCTTGGATTAGAAAC
GAAAGGTTCTATGTGATTGACTGTATATTGCTTTAAGACATTCTTTGCAA
CACAATCAAAAATATTTTGGATTTAGTTGAAATTTTATTTGAATTTGGAT
TTGGA
back to top

protein sequence of SMED30022955-orf-1

>SMED30022955-orf-1 ID=SMED30022955-orf-1|Name=SMED30022955-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=194bp
MSNMPGNCCPDCFFRYIVVICRAFGIIVCISIWGISVNHLYANKFESFAG
WYLMAVAFVLTFFEIIWIIDQAPCVSDSDCCRNFWKCLLWVEDWRKTILY
TLLTIPLFWNLNISHSVILIAVILIILLGIFYSIKSFDQREPSPKRIDRR
NSETTEILSKPYTKLNEDPDDDKVVAIYKVDEQVIMADPGPKK*
back to top
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: cellular component
TermDefinition
GO:0016020membrane
GO:0016021integral component of membrane
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000026gut
PLANA:0000099neuron
Vocabulary: INTERPRO
TermDefinition
IPR032055TMEM72
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR032055Transmembrane protein 72PFAMPF16054TMEM72coord: 13..142
e-value: 1.7E-18
score: 67.0
IPR032055Transmembrane protein 72PANTHERPTHR28474FAMILY NOT NAMEDcoord: 12..157
NoneNo IPR availableTMHMMTMhelixcoord: 47..69
NoneNo IPR availableTMHMMTMhelixcoord: 13..35
NoneNo IPR availableTMHMMTMhelixcoord: 111..133