SMED30035169

Overview
NameSMED30035169
Smed IDSMED30035169
Length (bp)672
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 SMED30035169 (SMED30035169) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30035169 (SMED30035169) 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 SMED30035169 (SMED30035169) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for SMED30035169 (SMED30035169) 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



SMED30035169

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



PAGE Curations: 1

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
muscle cellSMED30035169h1SMcG0013444 dd_Smed_v4_4356_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
Alignments
SMED30035169 aligns in the following genomic locations:
Alignment LocationAlignment Score
v31.001754:6723..7561 +3270
Homology
[Close]
BLAST of SMED30035169 vs. Ensembl Human
Match: LSM12 (LSM12 homolog [Source:HGNC Symbol;Acc:HGNC:26407])

HSP 1 Score: 47.7506 bits (112), Expect = 2.889e-6
Identity = 38/168 (22.62%), Postives = 76/168 (45.24%), Query Frame = 2 
Query:   44 VNTNVEMILKDGNRLLGDVIHYDKSYGFIFLKNLLDKN-----DVNMIHEKYIKDILSVKKSDLVQEDLLALSTQKILEKTQANE---VRRANIINLKVSPETQSLYNYLLKMLQDNIKWDKDNICIMNKYLLKSPYKENDLSPIDTEKEVNNDTLSTVKKMVSRFYK 523
            V + V        RL G+V+ +D     + LK           D+ +I+ +Y+ ++  +         L +L+  K+  K +  +   + +A  I+  VS E Q L+  + K ++D  KW + NI +M + ++  PY+      ++  K      LS V+K+V + ++
Sbjct:   11 VGSQVSCRTCQEQRLQGEVVAFDYQSKMLALKCPSSSGKPNHADILLINLQYVSEVEIINDRTETPPPLASLNVSKLASKARTEKEEKLSQAYAISAGVSLEGQQLFQTIHKTIKD-CKWQEKNIVVMEEVVITPPYQ------VENCKGKEGSALSHVRKIVEKHFR 171
[Close]
BLAST of SMED30035169 vs. Ensembl Human
Match: LSM12 (LSM12 homolog [Source:HGNC Symbol;Acc:HGNC:26407])

HSP 1 Score: 47.7506 bits (112), Expect = 2.889e-6
Identity = 38/168 (22.62%), Postives = 76/168 (45.24%), Query Frame = 2 
Query:   44 VNTNVEMILKDGNRLLGDVIHYDKSYGFIFLKNLLDKN-----DVNMIHEKYIKDILSVKKSDLVQEDLLALSTQKILEKTQANE---VRRANIINLKVSPETQSLYNYLLKMLQDNIKWDKDNICIMNKYLLKSPYKENDLSPIDTEKEVNNDTLSTVKKMVSRFYK 523
            V + V        RL G+V+ +D     + LK           D+ +I+ +Y+ ++  +         L +L+  K+  K +  +   + +A  I+  VS E Q L+  + K ++D  KW + NI +M + ++  PY+      ++  K      LS V+K+V + ++
Sbjct:   11 VGSQVSCRTCQEQRLQGEVVAFDYQSKMLALKCPSSSGKPNHADILLINLQYVSEVEIINDRTETPPPLASLNVSKLASKARTEKEEKLSQAYAISAGVSLEGQQLFQTIHKTIKD-CKWQEKNIVVMEEVVITPPYQ------VENCKGKEGSALSHVRKIVEKHFR 171
[Close]
BLAST of SMED30035169 vs. Ensembl Zebrafish
Match: lsm12a (LSM12 homolog a [Source:NCBI gene;Acc:407986])

HSP 1 Score: 50.8322 bits (120), Expect = 1.496e-7
Identity = 38/168 (22.62%), Postives = 80/168 (47.62%), Query Frame = 2 
Query:   44 VNTNVEMILKDGNRLLGDVIHYDKSYGFIFLKNLLDKN-----DVNMIHEKYIKDILSVKKSDLVQEDLLALSTQKILEKTQA---NEVRRANIINLKVSPETQSLYNYLLKMLQDNIKWDKDNICIMNKYLLKSPYKENDLSPIDTEKEVNNDTLSTVKKMVSRFYK 523
            V ++V  +   G RL G+V+ +D     + LK           DV +++  Y+ ++  +         L +L+  K++ + +A   +++  A  ++  VS E Q L+  + K +++  KW + NI +M+  ++  PY+      +D  K      LS V+K+V + ++
Sbjct:   12 VGSHVSCLTCLGQRLQGEVVAFDYPSKMLTLKCAPSSGKPNLSDVMLVNLAYVSEVDIITDRAETPPPLASLNFNKLVNRARAEKEDKLSLAYAVSAGVSVEGQQLFQTIHKTIKE-CKWQEKNIIVMDDVVISPPYQ------VDNCKGKEGSALSHVRKIVEKHFR 172
[Close]
BLAST of SMED30035169 vs. Ensembl Zebrafish
Match: lsm12a (LSM12 homolog a [Source:NCBI gene;Acc:407986])

HSP 1 Score: 50.8322 bits (120), Expect = 1.496e-7
Identity = 38/168 (22.62%), Postives = 80/168 (47.62%), Query Frame = 2 
Query:   44 VNTNVEMILKDGNRLLGDVIHYDKSYGFIFLKNLLDKN-----DVNMIHEKYIKDILSVKKSDLVQEDLLALSTQKILEKTQA---NEVRRANIINLKVSPETQSLYNYLLKMLQDNIKWDKDNICIMNKYLLKSPYKENDLSPIDTEKEVNNDTLSTVKKMVSRFYK 523
            V ++V  +   G RL G+V+ +D     + LK           DV +++  Y+ ++  +         L +L+  K++ + +A   +++  A  ++  VS E Q L+  + K +++  KW + NI +M+  ++  PY+      +D  K      LS V+K+V + ++
Sbjct:   12 VGSHVSCLTCLGQRLQGEVVAFDYPSKMLTLKCAPSSGKPNLSDVMLVNLAYVSEVDIITDRAETPPPLASLNFNKLVNRARAEKEDKLSLAYAVSAGVSVEGQQLFQTIHKTIKE-CKWQEKNIIVMDDVVISPPYQ------VDNCKGKEGSALSHVRKIVEKHFR 172
[Close]
BLAST of SMED30035169 vs. Ensembl Zebrafish
Match: lsm12b (LSM12 homolog b [Source:NCBI gene;Acc:406422])

HSP 1 Score: 50.447 bits (119), Expect = 2.481e-7
Identity = 42/184 (22.83%), Postives = 86/184 (46.74%), Query Frame = 2 
Query:   44 VNTNVEMILKDGNRLLGDVIHYDKSYGFIFLKNLLDKN-----DVNMIHEKYIKDILSVKKSDLVQEDLLALSTQKILEKTQA---NEVRRANIINLKVSPETQSLYNYLLKMLQDNIKWDKDNICIMNKYLLKSPYKENDLSPIDTEKEVNNDTLSTVKKMVSRFYK---LQEDMDENQVK*T 562
            V ++V  +   G RL G+V+ +D     + LK           DV +I+  Y+ ++  +         L +L+  K+  + +    +++ +A  I+  VS E Q L+  + K ++D  KW + NI +M+  ++  PY+      ++  K      LS ++K+V + ++    Q+ M  +Q + T
Sbjct:   12 VGSHVSCLTCLGQRLQGEVVAFDYPSKMLTLKCPSSSGKPNLSDVILINLAYVSEVDIINDRTETPPPLASLNISKLANRARTEKEDKLSQAYAISAGVSIEGQQLFQTIHKTIKD-CKWQEKNIIVMDDVVISPPYQ------VENCKGKEGSALSHIRKIVEKHFRDVESQKTMQRSQAQQT 188
[Close]
BLAST of SMED30035169 vs. Ensembl Mouse
Match: Lsm12 (LSM12 homolog [Source:MGI Symbol;Acc:MGI:1919592])

HSP 1 Score: 47.7506 bits (112), Expect = 1.983e-6
Identity = 38/168 (22.62%), Postives = 76/168 (45.24%), Query Frame = 2 
Query:   44 VNTNVEMILKDGNRLLGDVIHYDKSYGFIFLKNLLDKN-----DVNMIHEKYIKDILSVKKSDLVQEDLLALSTQKILEKTQANE---VRRANIINLKVSPETQSLYNYLLKMLQDNIKWDKDNICIMNKYLLKSPYKENDLSPIDTEKEVNNDTLSTVKKMVSRFYK 523
            V + V        RL G+V+ +D     + LK           D+ +I+ +Y+ ++  +         L +L+  K+  K +  +   + +A  I+  VS E Q L+  + K ++D  KW + NI +M + ++  PY+      ++  K      LS V+K+V + ++
Sbjct:   11 VGSQVSCRTCQEQRLQGEVVAFDYQSKMLALKCPSSSGKPNHADILLINLQYVSEVEIINDRTETPPPLASLNVSKLASKARTEKEEKLSQAYAISAGVSLEGQQLFQTIHKTIKD-CKWQEKNIVVMEEVVITPPYQ------VENCKGKEGSALSHVRKIVEKHFR 171
[Close]
BLAST of SMED30035169 vs. UniProt/SwissProt
Match: sp|Q6NSN1|LS12B_DANRE (Protein LSM12 homolog B OS=Danio rerio OX=7955 GN=lsm12b PE=2 SV=1)

HSP 1 Score: 50.8322 bits (120), Expect = 1.130e-6
Identity = 38/168 (22.62%), Postives = 80/168 (47.62%), Query Frame = 2 
Query:   44 VNTNVEMILKDGNRLLGDVIHYDKSYGFIFLKNLLDKN-----DVNMIHEKYIKDILSVKKSDLVQEDLLALSTQKILEKTQA---NEVRRANIINLKVSPETQSLYNYLLKMLQDNIKWDKDNICIMNKYLLKSPYKENDLSPIDTEKEVNNDTLSTVKKMVSRFYK 523
            V ++V  +   G RL G+V+ +D     + LK           DV +++  Y+ ++  +         L +L+  K++ + +A   +++  A  ++  VS E Q L+  + K +++  KW + NI +M+  ++  PY+      +D  K      LS V+K+V + ++
Sbjct:   12 VGSHVSCLTCLGQRLQGEVVAFDYPSKMLTLKCAPSSGKPNLSDVMLVNLAYVSEVDIITDRAETPPPLASLNFNKLVNRARAEKEDKLSLAYAVSAGVSVEGQQLFQTIHKTIKE-CKWQEKNIIVMDDVVISPPYQ------VDNCKGKEGSALSHVRKIVEKHFR 172
[Close]
BLAST of SMED30035169 vs. UniProt/SwissProt
Match: sp|Q6PBA2|LS12A_DANRE (Protein LSM12 homolog A OS=Danio rerio OX=7955 GN=lsm12a PE=2 SV=1)

HSP 1 Score: 50.447 bits (119), Expect = 1.873e-6
Identity = 42/184 (22.83%), Postives = 86/184 (46.74%), Query Frame = 2 
Query:   44 VNTNVEMILKDGNRLLGDVIHYDKSYGFIFLKNLLDKN-----DVNMIHEKYIKDILSVKKSDLVQEDLLALSTQKILEKTQA---NEVRRANIINLKVSPETQSLYNYLLKMLQDNIKWDKDNICIMNKYLLKSPYKENDLSPIDTEKEVNNDTLSTVKKMVSRFYK---LQEDMDENQVK*T 562
            V ++V  +   G RL G+V+ +D     + LK           DV +I+  Y+ ++  +         L +L+  K+  + +    +++ +A  I+  VS E Q L+  + K ++D  KW + NI +M+  ++  PY+      ++  K      LS ++K+V + ++    Q+ M  +Q + T
Sbjct:   12 VGSHVSCLTCLGQRLQGEVVAFDYPSKMLTLKCPSSSGKPNLSDVILINLAYVSEVDIINDRTETPPPLASLNISKLANRARTEKEDKLSQAYAISAGVSIEGQQLFQTIHKTIKD-CKWQEKNIIVMDDVVISPPYQ------VENCKGKEGSALSHIRKIVEKHFRDVESQKTMQRSQAQQT 188
[Close]
BLAST of SMED30035169 vs. TrEMBL
Match: A0A210QQK4 (Protein LSM12-like OS=Mizuhopecten yessoensis OX=6573 GN=KP79_PYT19591 PE=4 SV=1)

HSP 1 Score: 61.2326 bits (147), Expect = 7.209e-8
Identity = 40/159 (25.16%), Postives = 85/159 (53.46%), Query Frame = 2 
Query:   83 RLLGDVIHYDKSYGFIFLKNLL-----DKNDVNMIHEKYIKDILSVKKSDLVQEDLLALSTQKILEKTQAN---EVRRANIINLKVSPETQSLYNYLLKMLQDNIKWDKDNICIMNKYLLKSPYKENDLSPIDTEKEVNNDTLSTVKKMVSRFYKLQED 535
            ++ G+V+ +D+    + +K+L      +K+D+ M++  Y+ D+  +++SD     L +L+ QKI  + + N   + ++ N I + VS + Q ++N ++K L D+ +W+  NI +M +  ++ PY   D       +      LS V+K+V + +  +E 
Sbjct:   27 KIQGEVLAFDEETKMLAIKSLAASAKHNKHDIRMLNLAYVSDLKVIQESDEPAPALTSLNLQKITARLRENLDAKKQQVNYIGIGVSADGQKVFNSIVKTLNDS-RWEGKNIIVMEEVSIRPPYSVEDC------RGREGQLLSHVRKIVHKHHITEEG 178
[Close]
BLAST of SMED30035169 vs. TrEMBL
Match: V9L120 (Protein LSM12-like protein OS=Callorhinchus milii OX=7868 PE=2 SV=1)

HSP 1 Score: 59.6918 bits (143), Expect = 2.735e-7
Identity = 42/168 (25.00%), Postives = 81/168 (48.21%), Query Frame = 2 
Query:   44 VNTNVEMILKDGNRLLGDVIHYDKSYGFIFLK-----NLLDKNDVNMIHEKYIKDILSVKKSDLVQEDLLALSTQKILEKTQANE---VRRANIINLKVSPETQSLYNYLLKMLQDNIKWDKDNICIMNKYLLKSPYKENDLSPIDTEKEVNNDTLSTVKKMVSRFYK 523
            V + V  +   G +LLG+V+ +D     I LK        + NDV +I+  Y+ D+ ++         L +L+  K+  + +  +   + +A  I+  VSPE Q L+  + K L D  KW + +I +M + ++  PY+      ++  +      LS V+K+V + ++
Sbjct:   10 VGSQVSCLTCLGQQLLGEVVAFDYQSKMITLKCPSSSGKPNHNDVLLINLAYVSDVKTINDRTETPPPLASLNVNKLASRARTEKEEKLSQAYAISAGVSPEGQQLFQTIHKTLND-CKWQEKSILVMEEVVIVPPYQ------VENCRGKEGSALSHVRKIVEKHFR 170
[Close]
BLAST of SMED30035169 vs. TrEMBL
Match: R7UVK0 (AD domain-containing protein OS=Capitella teleta OX=283909 GN=CAPTEDRAFT_176694 PE=4 SV=1)

HSP 1 Score: 59.3066 bits (142), Expect = 3.155e-7
Identity = 50/175 (28.57%), Postives = 92/175 (52.57%), Query Frame = 2 
Query:   53 NVEMILK----DGNRLLGDVIHYDKSYGFIFLKNLLDK-----NDVNMIHEKYIKDILSVKKSD------LVQEDLLALSTQKILEKTQANEVRRANIINLKVSPETQSLYNYLLKMLQDNIKWDKDNICIMNKYLLKSPYKENDLSPIDTEKEVNNDTLSTVKKMVSRFYKLQE 532
            N+ MIL      G ++ G+V+ +D     + LK+         ND+ +++ K + DI   KK+       L   +L  L+T+  L +   +++R+ N   + V+P+ Q L+  + K + + +KWD  +I I++   +K PY+  + S     KE +N TL+ V+K+V +FY+ QE
Sbjct:    8 NIGMILTCTTCRGQKINGEVVAFDYDARLLILKSPSSSGKPSLNDIQLVNLKCVTDITEDKKAPEKEIPPLSNLNLNKLTTR--LRQATDDKLRQVNYKGIGVTPQAQKLFLVITKTINE-VKWDGQDIVILDTVTIKPPYEVGNCS----GKEGDN-TLTHVRKIVDKFYRDQE 174
[Close]
BLAST of SMED30035169 vs. TrEMBL
Match: A0A401PDX7 (AD domain-containing protein OS=Scyliorhinus torazame OX=75743 GN=scyTo_0001528 PE=4 SV=1)

HSP 1 Score: 59.3066 bits (142), Expect = 3.692e-7
Identity = 41/168 (24.40%), Postives = 81/168 (48.21%), Query Frame = 2 
Query:   44 VNTNVEMILKDGNRLLGDVIHYDKSYGFIFLK-----NLLDKNDVNMIHEKYIKDILSVKKSDLVQEDLLALSTQKILEKTQANE---VRRANIINLKVSPETQSLYNYLLKMLQDNIKWDKDNICIMNKYLLKSPYKENDLSPIDTEKEVNNDTLSTVKKMVSRFYK 523
            V + +  +   G RL G+V+ +D     + LK        + NDV +I+  Y+ D+ ++         L +L+  K+  + +  +   + +A  I+  VSPE Q L+  + K ++D  KW + NI +M + ++  PY+      ++  K      LS V+K+V + ++
Sbjct:   10 VGSQISCLTCLGQRLHGEVVAFDYQSKMLTLKCPSSSGKPNHNDVLLINLAYVSDVKTINDRTETPPPLASLNVNKLANRARTEKEEKLSQAYAISAGVSPEGQQLFQTIHKTIKD-CKWQEKNIIVMEEVVIVPPYQ------VENCKGKEGSALSHVRKIVEKHFR 170
[Close]
BLAST of SMED30035169 vs. TrEMBL
Match: A0A3P8VKS3 (LSM12 homolog b OS=Cynoglossus semilaevis OX=244447 PE=4 SV=1)

HSP 1 Score: 58.151 bits (139), Expect = 8.915e-7
Identity = 47/186 (25.27%), Postives = 87/186 (46.77%), Query Frame = 2 
Query:   38 IEVNTNVEMILKDGNRLLGDVIHYDKSYGFIFLKNLLDK-----NDVNMIHEKYIKDILSVKKSDLVQEDLLALSTQKILEKTQA---NEVRRANIINLKVSPETQSLYNYLLKMLQDNIKWDKDNICIMNKYLLKSPYKENDLSPIDTEKEVNNDTLSTVKKMVSRFYK---LQEDMDENQVK*T 562
              V ++V  I   G RL G+V+ +D     + LK          NDV +I+  Y+ D+  +         L +L+  K+  + +    +++ +A  I+  VS E Q L+  + K ++D  KW + NI +M+  ++  PY+      +D  K      LS V+K+V + ++    Q+ M  +Q + T
Sbjct:   10 FSVGSHVSCITCLGQRLQGEVVAFDYQSKMLTLKCASSSGKPNLNDVILINLAYVSDVDIINDRTETPPPLASLNVSKLANRARTEKEDKLSQAYAISAGVSVEGQQLFQTIHKTIKD-CKWQEKNIIVMDDVVISPPYQ------VDNCKGKEGSALSHVRKIVEKHFRDLESQKSMQRSQAQQT 188
[Close]
BLAST of SMED30035169 vs. Ensembl Cavefish
Match: lsm12b (LSM12 homolog [Source:NCBI gene;Acc:103024508])

HSP 1 Score: 52.373 bits (124), Expect = 3.601e-8
Identity = 42/184 (22.83%), Postives = 86/184 (46.74%), Query Frame = 2 
Query:   44 VNTNVEMILKDGNRLLGDVIHYDKSYGFIFLKNLLDKN-----DVNMIHEKYIKDILSVKKSDLVQEDLLALSTQKILEKTQA---NEVRRANIINLKVSPETQSLYNYLLKMLQDNIKWDKDNICIMNKYLLKSPYKENDLSPIDTEKEVNNDTLSTVKKMVSRFYK---LQEDMDENQVK*T 562
            V ++V  +   G RL G+V+ +D     + LK           DV +++  Y+ ++  +         L +L+  K+  + +    +++ +A  I+  VS E Q L+  + K ++D  KW + NI +M+  ++  PY+      ++  K      LS ++K+V + +K    Q+ M  +Q + T
Sbjct:   12 VGSSVSCLTCLGQRLQGEVVAFDYQTKMLTLKCASSSGKPNLSDVILVNLAYVSEVEIINDRTETPPPLASLNVGKLASRARTEKEDKLSQAYAISAGVSVEGQQLFQTIHKTIKD-CKWQEKNIIVMDDVVISPPYQ------VENCKGKEGSALSHIRKIVEKHFKDVESQKSMQRSQAQQT 188
[Close]
BLAST of SMED30035169 vs. Ensembl Cavefish
Match: lsm12a (LSM12 homolog a [Source:NCBI gene;Acc:407986])

HSP 1 Score: 51.2174 bits (121), Expect = 1.157e-7
Identity = 38/168 (22.62%), Postives = 78/168 (46.43%), Query Frame = 2 
Query:   44 VNTNVEMILKDGNRLLGDVIHYDKSYGFIFLKNLLDKN-----DVNMIHEKYIKDILSVKKSDLVQEDLLALSTQKILEKTQANE---VRRANIINLKVSPETQSLYNYLLKMLQDNIKWDKDNICIMNKYLLKSPYKENDLSPIDTEKEVNNDTLSTVKKMVSRFYK 523
            +  +V  +   G RL G+V+ +D     + LK           DV +I+  Y+ D+  +         L +L+  K+  + +A +   + +A  I+  VS E Q L+  + K ++D  KW + NI +M+  ++  PY+      +D  +      ++ V+K+V + ++
Sbjct:   31 IGGSVSCLTCLGQRLQGEVVAFDYHTKMLTLKCAPSSGKPNVSDVVLINLAYVSDVDIINDRTGTPPPLASLNFNKLANRARAEKEEKLSQAYAISAGVSVEGQQLFQTIHKTIKD-CKWQEKNIVVMDDVIITPPYR------VDNCRGKEGSAVAHVRKIVEKHFR 191
[Close]
BLAST of SMED30035169 vs. Ensembl Sea Lamprey
Match: lsm12a (LSM12 homolog a [Source:NCBI gene;Acc:407986])

HSP 1 Score: 44.669 bits (104), Expect = 3.598e-6
Identity = 36/176 (20.45%), Postives = 86/176 (48.86%), Query Frame = 2 
Query:   44 VNTNVEMILKDGNRLLGDVIHYDKSYGFIFLKNLLDKNDVNMIHEKYIKDILSVKKSDLVQED------LLALSTQKILEKTQAN---EVRRANIINLKVSPETQSLYNYLLKMLQDNIKWDKDNICIMNKYLLKSPYKENDLSPIDTEKEVNNDTLSTVKKMVSRFYKLQEDMDE 544
            V + V  +   G ++ G+V+ +D     + LK       V +  +  + ++  V + D++ E       L +L+T+++  +  +    ++  A+ +++ VSPE   L+  + K +++  KW++ NI ++   ++  PY+      ++  K      L+ V+K+V + +K   D+D+
Sbjct:   10 VGSQVACVTCLGQKIHGEVLAFDYHSKMLTLKCPSSSGKVGVC-DVLLLNLALVSEVDILAESSEPPPVLTSLNTKQLSSRVHSEVEEKLSHAHAVSMGVSPEGILLFQTIQKTIKE-CKWNEKNIIVLEDVVISPPYR------VENCKGREGSALTHVRKIVEKHFK---DVDQ 174
[Close]
BLAST of SMED30035169 vs. Ensembl Nematostella
Match: EDO48931 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7RHX7])

HSP 1 Score: 57.7658 bits (138), Expect = 1.426e-10
Identity = 41/181 (22.65%), Postives = 86/181 (47.51%), Query Frame = 2 
Query:   35 NIEVNTNVEMILKDGNRLLGDVIHYDKSYGFIFLKNLLDK-------NDVNMIHEKYIKDILSVKKSDLVQEDLLALSTQKILEKTQANEVRRANIIN---LKVSPETQSLYNYLLKMLQDNIKWDKDNICIMNKYLLKSPYKENDLSPIDTEKEVNNDTLSTVKKMVSRFYKLQEDMDEN 547
            +I   + V  + + G ++ G+V+ +D +  FI +K   +         DV M++   ++    +      Q  L  L   KI ++ +AN++ ++  I    + V+PE Q L++ + K   + I W   +I +M++  +  PYK  ++S  D        + + +K++V + Y+ QE  D +
Sbjct:   15 DIPPGSLVACVTRFGEKIEGEVVAFDYASKFIVIKTPTETKGARKGNQDVRMLNMTCLQKFNIIDMGSATQNPLPPLDLDKIDKRIKANKLEKSQAIGRVGVGVTPEGQKLFDTIAKTFSE-ISWKDKDIVVMDRVTIVPPYKVGNMSGHDER------SFTYIKEIVKKHYEQQEQTDSS 188
[Close]
BLAST of SMED30035169 vs. Ensembl Medaka
Match: lsm12b (protein LSM12 homolog A [Source:NCBI gene;Acc:101162877])

HSP 1 Score: 52.373 bits (124), Expect = 4.104e-8
Identity = 43/184 (23.37%), Postives = 87/184 (47.28%), Query Frame = 2 
Query:   44 VNTNVEMILKDGNRLLGDVIHYDKSYGFIFLKNLLDK-----NDVNMIHEKYIKDILSVKKSDLVQEDLLALSTQKILEKTQA---NEVRRANIINLKVSPETQSLYNYLLKMLQDNIKWDKDNICIMNKYLLKSPYKENDLSPIDTEKEVNNDTLSTVKKMVSRFYK---LQEDMDENQVK*T 562
            V ++V  +   G RL G+V+ +D     + LK          +DV +I+  Y+ ++  +         L +L+  K+  + +    +++ +A  I+  VS E Q L+  + K ++D  KW + NI +M+  ++  PY+      ++  K      LS V+K+V + ++    Q+ M  +Q + T
Sbjct:   12 VGSHVSCLTCLGQRLQGEVVAFDYQSKMLTLKCASSSGKPNLHDVILINLAYVSEVDIINDRTETPPPLASLNVSKLANRARTEKEDKLSQAYAISAGVSVEGQQLFQTIHKTIKD-CKWQEKNIIVMDDVIISPPYQ------VENCKGKEGSALSHVRKIVEKHFRDLESQKSMQRSQAQQT 188
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BLAST of SMED30035169 vs. Planmine SMEST
Match: SMESG000011389.1 (SMESG000011389.1)

HSP 1 Score: 351.288 bits (900), Expect = 5.674e-125
Identity = 177/177 (100.00%), Postives = 177/177 (100.00%), Query Frame = 2 
Query:   26 MSLNIEVNTNVEMILKDGNRLLGDVIHYDKSYGFIFLKNLLDKNDVNMIHEKYIKDILSVKKSDLVQEDLLALSTQKILEKTQANEVRRANIINLKVSPETQSLYNYLLKMLQDNIKWDKDNICIMNKYLLKSPYKENDLSPIDTEKEVNNDTLSTVKKMVSRFYKLQEDMDENQVK 556
            MSLNIEVNTNVEMILKDGNRLLGDVIHYDKSYGFIFLKNLLDKNDVNMIHEKYIKDILSVKKSDLVQEDLLALSTQKILEKTQANEVRRANIINLKVSPETQSLYNYLLKMLQDNIKWDKDNICIMNKYLLKSPYKENDLSPIDTEKEVNNDTLSTVKKMVSRFYKLQEDMDENQVK
Sbjct:    1 MSLNIEVNTNVEMILKDGNRLLGDVIHYDKSYGFIFLKNLLDKNDVNMIHEKYIKDILSVKKSDLVQEDLLALSTQKILEKTQANEVRRANIINLKVSPETQSLYNYLLKMLQDNIKWDKDNICIMNKYLLKSPYKENDLSPIDTEKEVNNDTLSTVKKMVSRFYKLQEDMDENQVK 177
The following BLAST results are available for this feature:
BLAST of SMED30035169 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 2
Match NameE-valueIdentityDescription
LSM122.889e-622.62LSM12 homolog [Source:HGNC Symbol;Acc:HGNC:26407][more]
LSM122.889e-622.62LSM12 homolog [Source:HGNC Symbol;Acc:HGNC:26407][more]
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BLAST of SMED30035169 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 SMED30035169 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 SMED30035169 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 3
Match NameE-valueIdentityDescription
lsm12a1.496e-722.62LSM12 homolog a [Source:NCBI gene;Acc:407986][more]
lsm12a1.496e-722.62LSM12 homolog a [Source:NCBI gene;Acc:407986][more]
lsm12b2.481e-722.83LSM12 homolog b [Source:NCBI gene;Acc:406422][more]
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BLAST of SMED30035169 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 SMED30035169 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 1
Match NameE-valueIdentityDescription
Lsm121.983e-622.62LSM12 homolog [Source:MGI Symbol;Acc:MGI:1919592][more]
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BLAST of SMED30035169 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 2
Match NameE-valueIdentityDescription
sp|Q6NSN1|LS12B_DANRE1.130e-622.62Protein LSM12 homolog B OS=Danio rerio OX=7955 GN=... [more]
sp|Q6PBA2|LS12A_DANRE1.873e-622.83Protein LSM12 homolog A OS=Danio rerio OX=7955 GN=... [more]
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BLAST of SMED30035169 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A210QQK47.209e-825.16Protein LSM12-like OS=Mizuhopecten yessoensis OX=6... [more]
V9L1202.735e-725.00Protein LSM12-like protein OS=Callorhinchus milii ... [more]
R7UVK03.155e-728.57AD domain-containing protein OS=Capitella teleta O... [more]
A0A401PDX73.692e-724.40AD domain-containing protein OS=Scyliorhinus toraz... [more]
A0A3P8VKS38.915e-725.27LSM12 homolog b OS=Cynoglossus semilaevis OX=24444... [more]
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BLAST of SMED30035169 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 2
Match NameE-valueIdentityDescription
lsm12b3.601e-822.83LSM12 homolog [Source:NCBI gene;Acc:103024508][more]
lsm12a1.157e-722.62LSM12 homolog a [Source:NCBI gene;Acc:407986][more]
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BLAST of SMED30035169 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99)
Total hits: 1
Match NameE-valueIdentityDescription
lsm12a3.598e-620.45LSM12 homolog a [Source:NCBI gene;Acc:407986][more]
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BLAST of SMED30035169 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 SMED30035169 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 1
Match NameE-valueIdentityDescription
EDO489311.426e-1022.65Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7... [more]
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BLAST of SMED30035169 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 1
Match NameE-valueIdentityDescription
lsm12b4.104e-823.37protein LSM12 homolog A [Source:NCBI gene;Acc:1011... [more]
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BLAST of SMED30035169 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 1
Match NameE-valueIdentityDescription
SMESG000011389.15.674e-125100.00SMESG000011389.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30035169 ID=SMED30035169|Name=SMED30035169|organism=Schmidtea mediterranea sexual|type=transcript|length=672bp
TTCTTTTAAATTATTATAATTTGTTATGTCTTTAAATATTGAAGTAAATA
CTAATGTTGAAATGATTTTGAAAGATGGAAATCGTTTATTGGGCGATGTT
ATCCATTACGATAAGTCTTATGGATTTATTTTTCTAAAAAATTTGCTTGA
TAAAAATGATGTAAACATGATTCATGAAAAATATATTAAAGATATTTTAA
GTGTTAAAAAAAGTGATCTAGTTCAAGAAGATCTACTTGCACTTTCAACT
CAAAAAATATTGGAAAAAACTCAAGCAAATGAAGTTCGACGGGCCAACAT
AATTAACTTAAAAGTTTCTCCTGAAACCCAATCACTATACAATTATCTTT
TGAAAATGTTGCAAGATAATATTAAATGGGATAAAGATAATATTTGTATT
ATGAATAAATATCTTCTTAAGTCTCCATATAAAGAAAACGATCTTTCACC
TATTGATACCGAAAAAGAAGTTAATAATGATACTTTGTCTACGGTTAAAA
AAATGGTTTCTCGGTTCTATAAGCTTCAAGAAGATATGGATGAAAATCAA
GTCAAATAAACAATATAATATTGCGTTTTATAATCTATTTTGCGTTATCT
TGGTGCTTTATAAATTCTTTTTGGTTTTAGTTTACAGTGCCAAAATTGAA
TTTTAACATCAGTATCTTTTTC
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protein sequence of SMED30035169-orf-1

>SMED30035169-orf-1 ID=SMED30035169-orf-1|Name=SMED30035169-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=178bp
MSLNIEVNTNVEMILKDGNRLLGDVIHYDKSYGFIFLKNLLDKNDVNMIH
EKYIKDILSVKKSDLVQEDLLALSTQKILEKTQANEVRRANIINLKVSPE
TQSLYNYLLKMLQDNIKWDKDNICIMNKYLLKSPYKENDLSPIDTEKEVN
NDTLSTVKKMVSRFYKLQEDMDENQVK*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: INTERPRO
TermDefinition
IPR039683Lsm12-like
IPR019181Anticodon-binding_dom
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR019181Anticodon-binding domainPFAMPF09793ADcoord: 75..159
e-value: 1.4E-12
score: 47.6
IPR039683Protein Lsm12-likePANTHERPTHR13542LSM12 HOMOLOGcoord: 5..169