SMED30034012

Overview
NameSMED30034012
Smed IDSMED30034012
Length (bp)749
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 SMED30034012 (SMED30034012) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30034012 (SMED30034012) 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 SMED30034012 (SMED30034012) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for SMED30034012 (SMED30034012) 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



SMED30034012

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
posterior sideSMED30034012h1SMcG0010965 dd_Smed_v4_2856_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
posterior muscle cellSMED30034012h1SMcG0010965 dd_Smed_v4_2856_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neoblastSMED30034012h1SMcG0010965 dd_Smed_v4_13631_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
SMED30034012 aligns in the following genomic locations:
Alignment LocationAlignment Score
v31.000719:42403..43237 -3628
Homology
[Close]
BLAST of SMED30034012 vs. Ensembl Celegans
Match: F53F4.11 (pep chromosome:WBcel235:V:13622182:13624521:-1 gene:WBGene00009993.1 transcript:F53F4.11.3 gene_biotype:protein_coding transcript_biotype:protein_coding gene_symbol:F53F4.11)

HSP 1 Score: 62.7734 bits (151), Expect = 3.661e-11
Identity = 54/187 (28.88%), Postives = 93/187 (49.73%), Query Frame = 3 
Query:  201 NNSICILIKDLDRDSELSIKKFQKILQKQS------IDVSN-------IRILPLKELTLM--QYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNHPIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKAVG--PTYPVY 710
            N S+C+++ DLD+ S+ + + F   ++KQS      I+V +        +IL  +E+  +   Y +KR LASTY  ++ D R+ +     L K   ++   P+   +QK  ++ AI      +   L+    +  V + +L  S   + EN ++ +E I    PG F NIRSIY+ A    P+ P+Y
Sbjct:  234 NTSVCVIMPDLDQ-SDAAKRDFD--VEKQSREWAEKIEVDHGLTSAHIAKILTKREVERIAHTYKDKRSLASTYDVFLSDGRVYNSVKSFLGKEFYRAHKCPLPFVYQK-PISTAIENALRTVVYPLRRYMVRSCVNVGHLGQSSADLKENIDTVLEKIASKCPGGFANIRSIYLGASDGKPSLPIY 416
[Close]
BLAST of SMED30034012 vs. Ensembl Celegans
Match: F53F4.11 (pep chromosome:WBcel235:V:13622107:13624525:-1 gene:WBGene00009993.1 transcript:F53F4.11.2 gene_biotype:protein_coding transcript_biotype:protein_coding gene_symbol:F53F4.11)

HSP 1 Score: 62.7734 bits (151), Expect = 3.661e-11
Identity = 54/187 (28.88%), Postives = 93/187 (49.73%), Query Frame = 3 
Query:  201 NNSICILIKDLDRDSELSIKKFQKILQKQS------IDVSN-------IRILPLKELTLM--QYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNHPIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKAVG--PTYPVY 710
            N S+C+++ DLD+ S+ + + F   ++KQS      I+V +        +IL  +E+  +   Y +KR LASTY  ++ D R+ +     L K   ++   P+   +QK  ++ AI      +   L+    +  V + +L  S   + EN ++ +E I    PG F NIRSIY+ A    P+ P+Y
Sbjct:  234 NTSVCVIMPDLDQ-SDAAKRDFD--VEKQSREWAEKIEVDHGLTSAHIAKILTKREVERIAHTYKDKRSLASTYDVFLSDGRVYNSVKSFLGKEFYRAHKCPLPFVYQK-PISTAIENALRTVVYPLRRYMVRSCVNVGHLGQSSADLKENIDTVLEKIASKCPGGFANIRSIYLGASDGKPSLPIY 416
[Close]
BLAST of SMED30034012 vs. Ensembl Celegans
Match: F53F4.11 (pep chromosome:WBcel235:V:13622107:13624521:-1 gene:WBGene00009993.1 transcript:F53F4.11.1 gene_biotype:protein_coding transcript_biotype:protein_coding gene_symbol:F53F4.11)

HSP 1 Score: 62.7734 bits (151), Expect = 3.661e-11
Identity = 54/187 (28.88%), Postives = 93/187 (49.73%), Query Frame = 3 
Query:  201 NNSICILIKDLDRDSELSIKKFQKILQKQS------IDVSN-------IRILPLKELTLM--QYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNHPIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKAVG--PTYPVY 710
            N S+C+++ DLD+ S+ + + F   ++KQS      I+V +        +IL  +E+  +   Y +KR LASTY  ++ D R+ +     L K   ++   P+   +QK  ++ AI      +   L+    +  V + +L  S   + EN ++ +E I    PG F NIRSIY+ A    P+ P+Y
Sbjct:  234 NTSVCVIMPDLDQ-SDAAKRDFD--VEKQSREWAEKIEVDHGLTSAHIAKILTKREVERIAHTYKDKRSLASTYDVFLSDGRVYNSVKSFLGKEFYRAHKCPLPFVYQK-PISTAIENALRTVVYPLRRYMVRSCVNVGHLGQSSADLKENIDTVLEKIASKCPGGFANIRSIYLGASDGKPSLPIY 416
[Close]
BLAST of SMED30034012 vs. Ensembl Zebrafish
Match: rsl1d1 (ribosomal L1 domain containing 1 [Source:ZFIN;Acc:ZDB-GENE-130603-67])

HSP 1 Score: 51.2174 bits (121), Expect = 3.958e-7
Identity = 44/187 (23.53%), Postives = 91/187 (48.66%), Query Frame = 3 
Query:  201 NNSICILIKD-LDRDSELSIKKFQKILQKQSIDVSNI-RILPLKELTL--MQYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNHPIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKA-VGPTYPVYHTVE*YILSLIE 746
            +  +C+  +D  +  +E + + ++K+L ++   V N+  ++P K L      +  KRKL   +  ++ D RI  R   ++ K   +    P+ VD +   +A+ +        + +  KGP     +A+ +M+ + IVEN  S++ +I        +NI+ I++K+      P+Y T +   L+L+E
Sbjct:   82 SGDVCLFTRDEPNMTAEQTERFYKKLLTERG--VKNVTEVIPFKALRTEYKPFEAKRKLLGNFDLFLSDARIRFRLPSQIGKHFYERKKAPLSVDLESKHLARDMERLIQGTTLTVSTKGPCCMARVAHSEMTADQIVENVISAVSTISAKLASTGKNIKIIHLKSQTSVALPIY-TSDLSHLALVE 265
[Close]
BLAST of SMED30034012 vs. Ensembl Zebrafish
Match: rsl1d1 (ribosomal L1 domain containing 1 [Source:ZFIN;Acc:ZDB-GENE-130603-67])

HSP 1 Score: 51.2174 bits (121), Expect = 3.958e-7
Identity = 44/187 (23.53%), Postives = 91/187 (48.66%), Query Frame = 3 
Query:  201 NNSICILIKD-LDRDSELSIKKFQKILQKQSIDVSNI-RILPLKELTL--MQYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNHPIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKA-VGPTYPVYHTVE*YILSLIE 746
            +  +C+  +D  +  +E + + ++K+L ++   V N+  ++P K L      +  KRKL   +  ++ D RI  R   ++ K   +    P+ VD +   +A+ +        + +  KGP     +A+ +M+ + IVEN  S++ +I        +NI+ I++K+      P+Y T +   L+L+E
Sbjct:   82 SGDVCLFTRDEPNMTAEQTERFYKKLLTERG--VKNVTEVIPFKALRTEYKPFEAKRKLLGNFDLFLSDARIRFRLPSQIGKHFYERKKAPLSVDLESKHLARDMERLIQGTTLTVSTKGPCCMARVAHSEMTADQIVENVISAVSTISAKLASTGKNIKIIHLKSQTSVALPIY-TSDLSHLALVE 265
[Close]
BLAST of SMED30034012 vs. TrEMBL
Match: A0A0R3WIY7 (Uncharacterized protein OS=Hydatigena taeniaeformis OX=6205 GN=TTAC_LOCUS599 PE=4 SV=1)

HSP 1 Score: 103.219 bits (256), Expect = 3.628e-22
Identity = 59/176 (33.52%), Postives = 96/176 (54.55%), Query Frame = 3 
Query:  210 ICILIKDL-----DRDSELSIKKFQKILQKQSIDVSNIRILPLKELTLM--QYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNH--PIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKAVGPTYPVY 710
            +C+++KDL     +  +++  +K+Q   +K S   + +  LPL+EL L    Y  +RKLA+T+  ++ D RI H     L K    ++    PI V   K G+ KAI+ G     + ++ +G  +SV I N  MS+E I EN  S I  ++  WPG  + +RSIY++  GP+ P+Y
Sbjct:   63 VCVIVKDLKATDYNASNDIWKRKWQASGEKCS--SATLTFLPLRELKLCYQSYESRRKLAATFDIFLADDRIVHHLSTNLGKAFYGNARDKVPIPVALDKKGLVKAIDEGLHSCLVLVRGRGTTDSVVIGNTSMSRECIKENIVSVIRGVMGKWPGGLKTLRSIYIRGAGPSVPLY 236
[Close]
BLAST of SMED30034012 vs. TrEMBL
Match: A0A0R3UI81 (Uncharacterized protein OS=Mesocestoides corti OX=53468 GN=MCOS_LOCUS7109 PE=4 SV=1)

HSP 1 Score: 100.523 bits (249), Expect = 4.196e-21
Identity = 55/176 (31.25%), Postives = 91/176 (51.70%), Query Frame = 3 
Query:  210 ICILIKDLDR-----DSELSIKKFQKILQKQSIDVSNIRILPLKELTLM--QYVEKRKLASTYKKYIVDKRIGHRGMGKLSK--FVLKSSNHPIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKAVGPTYPVY 710
            +CI++KD+ +      S +  +K+++   K S  + ++  LP+ EL L    Y  +RKLA+T+  ++ D+RI H     L K  +   +   P+ V   +  +   +N G     +    KG  ESV I N  M KE I EN  +++  ++  WPG    IRS+YV+ VGP+ P+Y
Sbjct:   62 VCIIVKDIKKTDYNASSNIWKQKWRRDAAKSSTTLPSVTFLPISELKLCYQSYESRRKLAATFDVFLADRRIVHHLPTNLGKAFYSHAAGKIPVPVSLGQKNLVDEVNKGLQTCLVFFSGKGTTESVVIGNTGMPKEHIRENIVAAVRGVVDKWPGGLMAIRSVYVRGVGPSVPIY 237
[Close]
BLAST of SMED30034012 vs. TrEMBL
Match: A0A068YDK9 (Cellular senescence inhibited locus tag OS=Echinococcus multilocularis OX=6211 GN=EmuJ_001036100 PE=4 SV=1)

HSP 1 Score: 96.2857 bits (238), Expect = 1.048e-19
Identity = 57/174 (32.76%), Postives = 89/174 (51.15%), Query Frame = 3 
Query:  210 ICILIKDL---DRDSELSIKKFQKILQKQSIDVSNIRILPLKELTLM--QYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNH--PIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKAVGPTYPVY 710
            +C+++KDL   D ++   I + +  +       + +  LPL EL L    Y  +RKLAST+  ++ D+RI H     L K    ++    PI V      + KA++ G     + +  KG  +SV + N  M KE I EN  S I  ++  WPG  + +RSIYV+ VGP+ P+Y
Sbjct:   62 VCVIVKDLKGTDYNASNDIWRRKWRVDGGKGSPTTVTFLPLSELKLCYQSYESRRKLASTFDVFLADERIVHHLPTNLGKAFYGNARDKVPIPVALDGKNLVKAVDQGLHSCLVLISGKGTTDSVVVGNTSMPKEHIKENVISVIRDVVDRWPGGLKTLRSIYVRGVGPSVPLY 235
[Close]
BLAST of SMED30034012 vs. TrEMBL
Match: A0A068WJ15 (Cellular senescence inhibited protein OS=Echinococcus granulosus OX=6210 GN=EgrG_001036100 PE=4 SV=1)

HSP 1 Score: 95.5153 bits (236), Expect = 2.096e-19
Identity = 58/173 (33.53%), Postives = 87/173 (50.29%), Query Frame = 3 
Query:  213 CILIKDL---DRDSELSIKKFQKILQKQSIDVSNIRILPLKELTLM--QYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNH--PIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKAVGPTYPVY 710
            C+++KDL   D ++   I + +  +       + +  LPL EL L    Y  +RKLAST+  ++ D+RI H     L K    ++    PI V      + KAI+ G     + +  KG  +SV + N  M KE I EN  S I  ++  WPG    +RSIYV+ VGP+ P+Y
Sbjct:   63 CVIVKDLKGTDYNASNDIWRRKWRVDGGKGSPTTVTFLPLSELKLCYQSYESRRKLASTFDVFLADERIVHHLPTNLGKAFYGNARDKVPIPVALDGKNLVKAIDQGLHSCLVLISGKGTTDSVVVGNTSMPKEHIKENVISVIRDVVDRWPGGLRTLRSIYVRGVGPSVPLY 235
[Close]
BLAST of SMED30034012 vs. TrEMBL
Match: W6ULX1 (Ribosomal L1 domain-containing protein OS=Echinococcus granulosus OX=6210 GN=EGR_02883 PE=4 SV=1)

HSP 1 Score: 95.5153 bits (236), Expect = 5.278e-19
Identity = 58/173 (33.53%), Postives = 87/173 (50.29%), Query Frame = 3 
Query:  213 CILIKDL---DRDSELSIKKFQKILQKQSIDVSNIRILPLKELTLM--QYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNH--PIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKAVGPTYPVY 710
            C+++KDL   D ++   I + +  +       + +  LPL EL L    Y  +RKLAST+  ++ D+RI H     L K    ++    PI V      + KAI+ G     + +  KG  +SV + N  M KE I EN  S I  ++  WPG    +RSIYV+ VGP+ P+Y
Sbjct:  133 CVIVKDLKGTDYNASNDIWRRKWRVDGGKGSPTTVTFLPLSELKLCYQSYESRRKLASTFDVFLADERIVHHLPTNLGKAFYGNARDKVPIPVALDGKNLVKAIDQGLHSCLVLISGKGTTDSVVVGNTSMPKEHIKENVISVIRDVVDRWPGGLRTLRSIYVRGVGPSVPLY 305
[Close]
BLAST of SMED30034012 vs. Planmine SMEST
Match: SMESG000057380.1 (SMESG000057380.1)

HSP 1 Score: 429.098 bits (1102), Expect = 1.885e-154
Identity = 228/228 (100.00%), Postives = 228/228 (100.00%), Query Frame = 3 
Query:   39 MDLIKENFNAIPQTAFTKSGDQEFENVKVMLNVLYKEXXXXXXXXXXXXXXNDFNNSICILIKDLDRDSELSIKKFQKILQKQSIDVSNIRILPLKELTLMQYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNHPIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKAVGPTYPVYHTVE 722
            MDLIKENFNAIPQTAFTKSGDQEFENVKVMLNVLYKEIPKKPSHIIIPIPHNDFNNSICILIKDLDRDSELSIKKFQKILQKQSIDVSNIRILPLKELTLMQYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNHPIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKAVGPTYPVYHTVE
Sbjct:    1 MDLIKENFNAIPQTAFTKSGDQEFENVKVMLNVLYKEIPKKPSHIIIPIPHNDFNNSICILIKDLDRDSELSIKKFQKILQKQSIDVSNIRILPLKELTLMQYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNHPIFVDFQKNGVAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIKNWPGKFENIRSIYVKAVGPTYPVYHTVE 228
The following BLAST results are available for this feature:
BLAST of SMED30034012 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 SMED30034012 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 3
Match NameE-valueIdentityDescription
F53F4.113.661e-1128.88pep chromosome:WBcel235:V:13622182:13624521:-1 gen... [more]
F53F4.113.661e-1128.88pep chromosome:WBcel235:V:13622107:13624525:-1 gen... [more]
F53F4.113.661e-1128.88pep chromosome:WBcel235:V:13622107:13624521:-1 gen... [more]
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BLAST of SMED30034012 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 SMED30034012 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 2
Match NameE-valueIdentityDescription
rsl1d13.958e-723.53ribosomal L1 domain containing 1 [Source:ZFIN;Acc:... [more]
rsl1d13.958e-723.53ribosomal L1 domain containing 1 [Source:ZFIN;Acc:... [more]
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BLAST of SMED30034012 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 SMED30034012 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 SMED30034012 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 SMED30034012 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A0R3WIY73.628e-2233.52Uncharacterized protein OS=Hydatigena taeniaeformi... [more]
A0A0R3UI814.196e-2131.25Uncharacterized protein OS=Mesocestoides corti OX=... [more]
A0A068YDK91.048e-1932.76Cellular senescence inhibited locus tag OS=Echinoc... [more]
A0A068WJ152.096e-1933.53Cellular senescence inhibited protein OS=Echinococ... [more]
W6ULX15.278e-1933.53Ribosomal L1 domain-containing protein OS=Echinoco... [more]
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BLAST of SMED30034012 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 SMED30034012 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 SMED30034012 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 SMED30034012 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 SMED30034012 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 SMED30034012 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 1
Match NameE-valueIdentityDescription
SMESG000057380.11.885e-154100.00SMESG000057380.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30034012 ID=SMED30034012|Name=SMED30034012|organism=Schmidtea mediterranea sexual|type=transcript|length=749bp
ATTTGTTTAAATATTAACATATATTTACAGGCGTGATAATGGACCTTATT
AAAGAAAATTTTAATGCTATACCTCAAACAGCTTTTACAAAATCTGGAGA
TCAAGAATTCGAAAACGTCAAAGTTATGTTAAATGTTCTTTATAAAGAAA
TCCCAAAGAAACCCTCCCATATTATCATTCCTATTCCCCACAATGATTTT
AATAATTCAATTTGTATTCTTATTAAGGATTTAGATAGAGATAGTGAATT
ATCTATTAAAAAATTTCAGAAAATTTTGCAAAAACAGTCCATTGACGTTT
CAAATATTAGAATCCTTCCTCTTAAAGAGCTAACTTTAATGCAGTATGTA
GAAAAACGCAAATTAGCTTCAACTTACAAAAAGTATATTGTTGATAAAAG
AATTGGCCATAGAGGTATGGGCAAATTGAGTAAATTTGTGCTTAAATCCA
GCAATCATCCAATATTTGTTGATTTCCAAAAAAATGGGGTTGCTAAAGCT
ATAAATTATGGTAAATCACATATTCGAATGGCCTTAAAAGCAAAGGGTCC
ACAAGAATCTGTCGAAATCGCCAATCTAGACATGAGCAAAGAAAGTATCG
TTGAAAACTTCAATTCTTCCATTGAATCCATTATTAAAAATTGGCCAGGA
AAATTTGAGAATATTAGGTCAATTTATGTGAAAGCAGTTGGACCAACTTA
TCCTGTTTACCACACAGTTGAATAATATATTTTAAGTCTTATTGAAAAA
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protein sequence of SMED30034012-orf-1

>SMED30034012-orf-1 ID=SMED30034012-orf-1|Name=SMED30034012-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=229bp
MDLIKENFNAIPQTAFTKSGDQEFENVKVMLNVLYKEIPKKPSHIIIPIP
HNDFNNSICILIKDLDRDSELSIKKFQKILQKQSIDVSNIRILPLKELTL
MQYVEKRKLASTYKKYIVDKRIGHRGMGKLSKFVLKSSNHPIFVDFQKNG
VAKAINYGKSHIRMALKAKGPQESVEIANLDMSKESIVENFNSSIESIIK
NWPGKFENIRSIYVKAVGPTYPVYHTVE*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000101muscle cell
PLANA:0000142posterior region of the whole animal
Vocabulary: INTERPRO
TermDefinition
IPR028364Ribosomal_L1/biogenesis
IPR016094Ribosomal_L1_2-a/b-sand
IPR023674Ribosomal_L1-like
Vocabulary: molecular function
TermDefinition
GO:0003723RNA binding
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR028364Ribosomal protein L1/ribosomal biogenesis proteinPFAMPF00687Ribosomal_L1coord: 23..216
e-value: 1.1E-19
score: 70.9
NoneNo IPR availableGENE3DG3DSA:3.30.190.20coord: 142..219
e-value: 1.4E-6
score: 30.3
NoneNo IPR availablePANTHERPTHR23105:SF31RIBOSOMAL L1 DOMAIN-CONTAINING PROTEIN 1coord: 23..225
NoneNo IPR availablePANTHERPTHR23105RIBOSOMAL PROTEIN L7AE FAMILY MEMBERcoord: 23..225
IPR023674Ribosomal protein L1-likeSUPERFAMILYSSF56808Ribosomal protein L1coord: 25..224