SMED30000943

Overview
NameSMED30000943
Smed IDSMED30000943
Length (bp)1925
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 SMED30000943 (SMED30000943) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30000943 (SMED30000943) 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 SMED30000943 (SMED30000943) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for SMED30000943 (SMED30000943) 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



SMED30000943

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 systemSMED30000943SMESG000049530.1 dd_Smed_v4_5878_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neoblastSMED30000943SMESG000049530.1 dd_Smed_v4_5878_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymal cellSMED30000943SMESG000049530.1 dd_Smed_v4_5878_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
muscle cellSMED30000943SMESG000049530.1 dd_Smed_v4_5878_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 SMED30000943 vs. TrEMBL
Match: A0A5J4NYQ5 (Uncharacterized protein OS=Paragonimus westermani OX=34504 GN=DEA37_0013730 PE=4 SV=1)

HSP 1 Score: 100.138 bits (248), Expect = 1.904e-18
Identity = 71/243 (29.22%), Postives = 107/243 (44.03%), Query Frame = 1 
Query:  148 VLLPYNSDLCNSSINGINKYQEFTINQQLNFETSSNTSDVLRSINDNINTTDMSSYLPWQQIEHENSQYYFCRVLVKPMGLKSQLHTEQGEYSFWDIRARINRLQPPVKCSDRLLLQFRHNQNLISTLDSHSARTVNITCKDSLPIIIPSSIRKLYITYF----STDPDSEGFM-INITTFIYFQGDFPISFQNETCRLQDGFWCGNKTNACIYRDMICDGLDSCFDGGSDENNCLYSSNNTV 861
            ++LP NS+ C+        ++ F++++Q++F T S  S                    W      N   Y C+V V P G   Q    QG  S+W  R R+      + C D L + F   +     L +      N+TC ++ P I  S  R + + +     S D  S   + + ++ ++ F+G F I+ +   C    GFWCGN+T  C+Y  M CD  D CFDGGSDE  C    N TV
Sbjct:   25 IILPENSEFCSE----YPVFRRFSLSRQMSFTTGSYNSS-------------------W------NHLLYVCKVRVHPNGRLLQYSYPQGHTSYWFHRLRVEIHF--ISCDDFLTVGFLPEEITQPALHT---EMRNLTCHETYPQIFDSKHRIVSLAWHTSSGSIDSASASQLDVQMSAYMRFEGTFGIADKILRCEAGSGFWCGNQTAVCVYGQMRCDQADGCFDGGSDEVGCPPPRNYTV 233
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BLAST of SMED30000943 vs. TrEMBL
Match: A0A4V3S7F8 (Uncharacterized protein OS=Opisthorchis felineus OX=147828 GN=CRM22_011354 PE=4 SV=1)

HSP 1 Score: 99.7525 bits (247), Expect = 4.000e-18
Identity = 67/243 (27.57%), Postives = 104/243 (42.80%), Query Frame = 1 
Query:  151 LLPYNSDLCNSSINGINKYQEFTINQQLNFETSSNTSDVLRSINDNINTTDMSSYLPWQQIEHENSQYYFCRVLVKPMGLKSQLHTEQGEYSFWDIRARIN-RLQPPVKCSDRLLLQFRHNQNLISTLDSHSARTVNITCKDSLPIIIPSSIRKLYITYF----STDPDSEGFMINITTFIYFQGDFPISFQNETCRLQDGFWCGNKTNACIYRDMICDGLDSCFDGGSDENNCLYSSNNTVP 864
            +LP NS  C         ++ F++++Q++F T    +                    W      N  +Y C+V + P G        QG  S+W  R R++ R      C D L + F   +     L       + +TC ++ P I  S  R + +++     STD  +    + ++ ++ F+G+F +  + + C    GFWCGN T  CIY  M CD  D CFDGGSDE  C    N T P
Sbjct:   28 ILPENSIYCKD----YQSFRRFSLSRQMSFTTGIYNAS-------------------W------NHLFYVCKVRIHPNGRLLHYSYPQGHTSYWYHRLRVDIRF---ASCGDVLTVGFIPEETTQQLLQPEE---LQLTCHEAFPKIFDSKHRIISLSWHTETGSTDLITSELDVQMSAYMRFEGNFGLVDKIQRCEAGSGFWCGNDTAVCIYGQMRCDQADGCFDGGSDEVGCPPPRNYTAP 235
[Close]
BLAST of SMED30000943 vs. TrEMBL
Match: A0A4S2JMJ1 (Uncharacterized protein OS=Opisthorchis felineus OX=147828 GN=CRM22_011354 PE=4 SV=1)

HSP 1 Score: 99.7525 bits (247), Expect = 4.247e-18
Identity = 67/243 (27.57%), Postives = 104/243 (42.80%), Query Frame = 1 
Query:  151 LLPYNSDLCNSSINGINKYQEFTINQQLNFETSSNTSDVLRSINDNINTTDMSSYLPWQQIEHENSQYYFCRVLVKPMGLKSQLHTEQGEYSFWDIRARIN-RLQPPVKCSDRLLLQFRHNQNLISTLDSHSARTVNITCKDSLPIIIPSSIRKLYITYF----STDPDSEGFMINITTFIYFQGDFPISFQNETCRLQDGFWCGNKTNACIYRDMICDGLDSCFDGGSDENNCLYSSNNTVP 864
            +LP NS  C         ++ F++++Q++F T    +                    W      N  +Y C+V + P G        QG  S+W  R R++ R      C D L + F   +     L       + +TC ++ P I  S  R + +++     STD  +    + ++ ++ F+G+F +  + + C    GFWCGN T  CIY  M CD  D CFDGGSDE  C    N T P
Sbjct:   28 ILPENSIYCKD----YQSFRRFSLSRQMSFTTGIYNAS-------------------W------NHLFYVCKVRIHPNGRLLHYSYPQGHTSYWYHRLRVDIRF---ASCGDVLTVGFIPEETTQQLLQPEE---LQLTCHEAFPKIFDSKHRIISLSWHTETGSTDLITSELDVQMSAYMRFEGNFGLVDKIQRCEAGSGFWCGNDTAVCIYGQMRCDQADGCFDGGSDEVGCPPPRNYTAP 235
[Close]
BLAST of SMED30000943 vs. TrEMBL
Match: G7YEA9 (Uncharacterized protein OS=Clonorchis sinensis OX=79923 GN=CLF_105851 PE=4 SV=1)

HSP 1 Score: 99.3673 bits (246), Expect = 5.101e-18
Identity = 57/179 (31.84%), Postives = 84/179 (46.93%), Query Frame = 1 
Query:  343 NSQYYFCRVLVKPMGLKSQLHTEQGEYSFWDIRARIN-RLQPPVKCSDRLLLQFRHNQNLISTLDSHSARTVNITCKDSLPIIIPSSIRKLYITY----FSTDPDSEGFMINITTFIYFQGDFPISFQNETCRLQDGFWCGNKTNACIYRDMICDGLDSCFDGGSDENNCLYSSNNTVP 864
            N  +Y C+V + P G        QG  S+W  R R++ R      C D L + F   +     L       + +TC ++ P I  S  R + +++     STD  +    + ++ ++ F+G+F +  + + C    GFWCGN T  CIY  M CD  D CFDGGSDE  C    N T P
Sbjct:   13 NHLFYVCKVRIHPNGRLLHYSYPQGHTSYWFHRLRVDIRF---ASCGDVLTIGFIPEETTQQLLQPEE---LQLTCHEAFPKIFDSKHRIISLSWRTETGSTDLITSELDVQMSAYMRFEGNFGLVDKIQRCEAGSGFWCGNDTAVCIYGQMRCDQADGCFDGGSDEVGCPPPRNYTAP 185
[Close]
BLAST of SMED30000943 vs. TrEMBL
Match: A0A419PUQ0 (Uncharacterized protein (Fragment) OS=Clonorchis sinensis OX=79923 GN=CSKR_2368s PE=4 SV=1)

HSP 1 Score: 98.2117 bits (243), Expect = 6.002e-18
Identity = 57/179 (31.84%), Postives = 84/179 (46.93%), Query Frame = 1 
Query:  343 NSQYYFCRVLVKPMGLKSQLHTEQGEYSFWDIRARIN-RLQPPVKCSDRLLLQFRHNQNLISTLDSHSARTVNITCKDSLPIIIPSSIRKLYITY----FSTDPDSEGFMINITTFIYFQGDFPISFQNETCRLQDGFWCGNKTNACIYRDMICDGLDSCFDGGSDENNCLYSSNNTVP 864
            N  +Y C+V + P G        QG  S+W  R R++ R      C D L + F   +     L       + +TC ++ P I  S  R + +++     STD  +    + ++ ++ F+G+F +  + + C    GFWCGN T  CIY  M CD  D CFDGGSDE  C    N T P
Sbjct:   13 NHLFYVCKVRIHPNGRLLHYSYPQGHTSYWFHRLRVDIRF---ASCGDVLTIGFIPEETTQQLLQPEE---LQLTCHEAFPKIFDSKHRIISLSWRTESGSTDLITSELDVQMSAYMRFEGNFGLVDKIQRCEAGSGFWCGNDTAVCIYGQMRCDQADGCFDGGSDEVGCPPPRNYTAP 185
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BLAST of SMED30000943 vs. Planmine SMEST
Match: SMESG000049530.1 (SMESG000049530.1)

HSP 1 Score: 950.658 bits (2456), Expect = 0.000e+0
Identity = 510/515 (99.03%), Postives = 511/515 (99.22%), Query Frame = 1 
Query:   76 MINRXXXXXXXXXXXXXQCLAKRLVLLPYNSDLCNSSINGINKYQEFTINQQLNFETSSNTSDVLRSINDNINTTDMSSYLPWQQIEHENSQYYFCRVLVKPMGLKSQLHTEQGEYSFWDIRARINRLQPPVKCSDRLLLQFRHNQNLISTLDSHSARTVNITCKDSLPIIIPSSIRKLYITYFSTDPDSEGFMINITTFIYFQGDFPISFQNETCRLQDGFWCGNKTNACIYRDMICDGLDSCFDGGSDENNCLYSSNNTVPFRNVTHLTRTKGAFIDYXXXXXXXXXXXXXXXXXVCICNQHRSEVFFDDEEDNLDVEKSQEENADHMWSSLDALDQLEKPENDKEDNGNYCEEDGRLMHLTGKEPLIGLQTINCPATIKAEITASCTGNSLNKXXXXXXXXXXXXAKGDRGSTNLPASNSLTDLEIKEKRPDLQQMDFLTNTTSNVMTISQITDDDYVLEDVGSLLRKVDKSKIPEELRISSMNSSPQPEGEKPNSSVQETAIDYRSDYILV 1620
            MINRKILILIFKFEIILQCL+KRLVLLPYNSDLCNSSINGINKYQEFTINQQLNFETSSNTSDVLRSINDNINTTDMSSYLPWQQIEHENSQYYFCRVLVKPMGLKSQLHTEQGEYSFWDIRARIN LQPPVKCS RLLLQFRHNQNLISTLDSHSARTVNITCKDSLPIIIPSSIRKLYITYFSTDPDSEGFMINITTFIYFQGDFPISFQNETCRLQDGFWCGNKTNACIYRDMICDGLDSCFDGGSDENNCLYSSNNTVPFRNVTHLTR KGAFIDYLPWLALAILPLILLMALVCICNQHRSEVFFDDEEDNLDVEKSQEENADHMWSSLDALDQLEKPENDKEDNGNYCEEDGRLMHLTGKEPLIGLQTINCPATIKAEITASCTGNSLNKDYEDIDEEPIIIAKGDRGSTNLPASNSLTDLEIKEKRPDL QMDFLTNTTSNVMTISQITDDDYVLEDVGSLLRKVDKSKIPEELRISSMNSSPQPEGEKPNSSVQETAIDYRSDYILV
Sbjct:    1 MINRKILILIFKFEIILQCLSKRLVLLPYNSDLCNSSINGINKYQEFTINQQLNFETSSNTSDVLRSINDNINTTDMSSYLPWQQIEHENSQYYFCRVLVKPMGLKSQLHTEQGEYSFWDIRARINHLQPPVKCSGRLLLQFRHNQNLISTLDSHSARTVNITCKDSLPIIIPSSIRKLYITYFSTDPDSEGFMINITTFIYFQGDFPISFQNETCRLQDGFWCGNKTNACIYRDMICDGLDSCFDGGSDENNCLYSSNNTVPFRNVTHLTRIKGAFIDYLPWLALAILPLILLMALVCICNQHRSEVFFDDEEDNLDVEKSQEENADHMWSSLDALDQLEKPENDKEDNGNYCEEDGRLMHLTGKEPLIGLQTINCPATIKAEITASCTGNSLNKDYEDIDEEPIIIAKGDRGSTNLPASNSLTDLEIKEKRPDLPQMDFLTNTTSNVMTISQITDDDYVLEDVGSLLRKVDKSKIPEELRISSMNSSPQPEGEKPNSSVQETAIDYRSDYILV 515
[Close]
BLAST of SMED30000943 vs. Planmine SMEST
Match: SMESG000002838.1 (SMESG000002838.1)

HSP 1 Score: 107.457 bits (267), Expect = 2.375e-24
Identity = 80/222 (36.04%), Postives = 123/222 (55.41%), Query Frame = 1 
Query:  343 NSQYYFCRVLVKPMGLKSQLHTEQGEYSFWDIRARINRLQPPVKCSDRLLLQF-RHNQNLISTLDSHSARTV--NITCKDSLPIIIPSSIRKLYITYFSTD-PDSEGFMINI--TTFIYFQGDFPISFQNETCRLQDGFWCGNKTNACIYRDMICDGLDSCFDGGSDENNCLYSSNNTVPFRNVTHLTRTKGAFIDYXXXXXXXXXXXXXXXXXVCICNQHR 990
            NS  + C V+VKP G         G  SFW +R +    +  + CS+ L++ F + ++   S  D    +++  N +C D  PI++ ++ RKL I+++S+D  D E  MI+I  +T++ F G+F  + +   C + +G+WC N    CIY  M CD  D CFDGGSDE  C    N T    N  +  + + ++  YLPW+ L +LPLIL+ +LV ICNQ R
Sbjct:   66 NSLRFVCSVIVKPFGKPITPPDVDGVLSFWKLRFKA---RTKLSCSNMLMMHFLKEDKTYDSPNDIIEEKSMMYNYSCNDKEPIMLNTNHRKLLISWYSSDNTDLEQQMIDIQLSTYMSFHGNFTKAQKESKCLMYNGYWCDNHVQVCIYAQMRCDQADGCFDGGSDEKGCPIPPNVTY---NGLNSRQRRDSWSGYLPWIVLGVLPLILIFSLVLICNQRR 281
The following BLAST results are available for this feature:
BLAST of SMED30000943 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 SMED30000943 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 SMED30000943 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 SMED30000943 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 SMED30000943 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 SMED30000943 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 SMED30000943 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 SMED30000943 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A5J4NYQ51.904e-1829.22Uncharacterized protein OS=Paragonimus westermani ... [more]
A0A4V3S7F84.000e-1827.57Uncharacterized protein OS=Opisthorchis felineus O... [more]
A0A4S2JMJ14.247e-1827.57Uncharacterized protein OS=Opisthorchis felineus O... [more]
G7YEA95.101e-1831.84Uncharacterized protein OS=Clonorchis sinensis OX=... [more]
A0A419PUQ06.002e-1831.84Uncharacterized protein (Fragment) OS=Clonorchis s... [more]
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BLAST of SMED30000943 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 SMED30000943 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 SMED30000943 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 SMED30000943 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 SMED30000943 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 SMED30000943 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 2
Match NameE-valueIdentityDescription
SMESG000049530.10.000e+099.03SMESG000049530.1[more]
SMESG000002838.12.375e-2436.04SMESG000002838.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30000943 ID=SMED30000943|Name=SMED30000943|organism=Schmidtea mediterranea sexual|type=transcript|length=1925bp
TATTTATACTGATTTGATCCAAATTAAAATGTAAATTTTTTGCATTTTCA
CCAAGTTTTTTATGAATAGAAAATTATGATTAATCGAAAAATATTAATTT
TAATTTTCAAATTTGAAATTATATTGCAATGTTTAGCGAAAAGATTAGTT
CTTTTACCATACAATTCTGATTTGTGTAACTCTTCAATCAATGGGATCAA
TAAGTACCAAGAATTTACCATTAATCAACAATTGAATTTTGAAACTTCAT
CTAACACTAGTGATGTGTTGAGGAGTATTAATGATAATATCAATACAACA
GATATGTCTTCATATCTACCATGGCAGCAAATTGAACATGAAAATTCACA
GTATTATTTCTGCCGTGTGCTTGTCAAACCAATGGGCCTAAAGTCGCAAT
TACATACTGAACAAGGTGAATATAGTTTTTGGGATATTAGGGCAAGAATA
AATCGCTTACAACCTCCTGTTAAATGCTCTGATAGGTTATTGTTACAATT
TAGACACAATCAAAATCTTATTTCAACTCTGGACAGTCATTCAGCGCGAA
CTGTAAATATAACCTGCAAAGACTCGTTGCCAATTATCATTCCATCCAGC
ATCCGGAAACTCTATATCACCTATTTTTCTACAGATCCTGATAGTGAAGG
ATTCATGATTAATATTACAACTTTCATTTATTTCCAAGGAGATTTTCCAA
TTTCCTTTCAAAATGAAACCTGCCGACTGCAGGATGGGTTCTGGTGCGGT
AACAAAACTAATGCTTGTATATATCGAGATATGATATGTGACGGATTGGA
TTCGTGTTTCGATGGTGGTTCCGATGAGAATAATTGCCTATATTCAAGCA
ATAATACCGTTCCCTTCAGAAATGTAACTCACCTTACAAGGACCAAAGGA
GCATTTATCGATTATCTACCTTGGCTTGCCTTAGCGATTCTGCCGCTGAT
TCTGCTCATGGCACTTGTATGCATTTGCAATCAGCATCGAAGCGAAGTTT
TCTTCGATGACGAAGAAGACAATTTAGACGTTGAAAAGAGTCAAGAAGAA
AATGCAGATCATATGTGGTCGAGTCTAGACGCGCTCGATCAGTTAGAGAA
ACCAGAAAACGACAAAGAAGACAATGGGAACTATTGTGAAGAAGATGGCC
GCTTAATGCATTTAACTGGGAAAGAACCGTTGATCGGTTTGCAGACTATT
AATTGCCCCGCCACAATCAAAGCAGAAATAACAGCAAGTTGCACTGGAAA
TTCCCTTAACAAAGACTATGAAGATATAGACGAGGAGCCGATCATTATAG
CCAAAGGAGATCGCGGTTCAACCAATCTTCCAGCATCCAATTCTCTAACA
GACCTCGAGATCAAGGAAAAGAGACCGGATTTACAACAAATGGATTTCCT
GACCAATACAACATCCAACGTAATGACCATATCTCAAATAACGGACGATG
ATTACGTTTTGGAAGATGTCGGTAGTCTTCTACGAAAAGTTGATAAGAGC
AAAATTCCGGAAGAGTTGCGTATCAGCAGTATGAATTCATCCCCACAGCC
TGAAGGTGAAAAACCGAATTCCTCTGTGCAAGAAACTGCCATTGATTATC
GGTCTGATTACATTCTAGTCTGAACGAGTTTTATTTTCCTGTTTCATTAT
TAATTTTTCATTATTTACCAATTGATTTTTTTAATTAGTTACGTTTTTCA
CACTGGCCCTCTCGAGACAATTAAAATGGCTTGACGCATGAAATATCCGT
TTTTCATTCCTTACCTAATTGCATCATTGTTAGTGAGAATCAAACTTTCA
AACGAGTACATTCGTCCCCAGTGGCGTAAGAAGGGGGTCCATGATTCCGC
AGTGATGAGAAGATTTTTAATTACTTATTTATAAGATTAAAATTTATTAC
AATTACTAAAGCTTTGTGTTGTATT
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protein sequence of SMED30000943-orf-1

>SMED30000943-orf-1 ID=SMED30000943-orf-1|Name=SMED30000943-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=516bp
MINRKILILIFKFEIILQCLAKRLVLLPYNSDLCNSSINGINKYQEFTIN
QQLNFETSSNTSDVLRSINDNINTTDMSSYLPWQQIEHENSQYYFCRVLV
KPMGLKSQLHTEQGEYSFWDIRARINRLQPPVKCSDRLLLQFRHNQNLIS
TLDSHSARTVNITCKDSLPIIIPSSIRKLYITYFSTDPDSEGFMINITTF
IYFQGDFPISFQNETCRLQDGFWCGNKTNACIYRDMICDGLDSCFDGGSD
ENNCLYSSNNTVPFRNVTHLTRTKGAFIDYLPWLALAILPLILLMALVCI
CNQHRSEVFFDDEEDNLDVEKSQEENADHMWSSLDALDQLEKPENDKEDN
GNYCEEDGRLMHLTGKEPLIGLQTINCPATIKAEITASCTGNSLNKDYED
IDEEPIIIAKGDRGSTNLPASNSLTDLEIKEKRPDLQQMDFLTNTTSNVM
TISQITDDDYVLEDVGSLLRKVDKSKIPEELRISSMNSSPQPEGEKPNSS
VQETAIDYRSDYILV*
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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
IPR036055LDL_receptor-like_sf
IPR002172LDrepeatLR_classA_rpt
Vocabulary: molecular function
TermDefinition
GO:0005515protein binding
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR036055LDL receptor-like superfamilyGENE3DG3DSA:4.10.400.10coord: 209..277
e-value: 4.5E-7
score: 31.5
IPR036055LDL receptor-like superfamilySUPERFAMILYSSF57424LDL receptor-like modulecoord: 218..255
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 481..503
NoneNo IPR availableSIGNALP_EUKSignalP-noTMSignalP-noTMcoord: 1..21
score: 0.623
NoneNo IPR availableTMHMMTMhelixcoord: 280..302
IPR002172Low-density lipoprotein (LDL) receptor class A repeatPROSITEPS50068LDLRA_2coord: 215..255
score: 9.788
IPR002172Low-density lipoprotein (LDL) receptor class A repeatCDDcd00112LDLacoord: 219..254
e-value: 1.84088E-5
score: 39.4974