SMED30009172

Overview
NameSMED30009172
Smed IDSMED30009172
Length (bp)601
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 SMED30009172 (SMED30009172) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30009172 (SMED30009172) 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 SMED30009172 (SMED30009172) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for SMED30009172 (SMED30009172) 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



SMED30009172

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



PAGE Curations: 16

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
head regionSMED30009172h1SMcG0010495 SmedASXL_006866SmedAsxl_ww_GCZZ01PMID:27034770
Currie et al., 2016		whole organism asexual adult RNA-sequencing evidence
pharynxSMED30009172h1SMcG0010495 dd_Smed_v4_8058_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30009172h1SMcG0010495 dd_Smed_v4_8058_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30009172h1SMcG0010495 dd_Smed_v4_8058_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neoblastSMED30009172h1SMcG0010495 dd_Smed_v4_8058_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymaSMED30009172h1SMcG0010495 dd_Smed_v4_8058_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
non-ciliated neuronSMED30009172h1SMcG0010495 dd_Smed_v4_8058_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cilated neuronSMED30009172h1SMcG0010495 dd_Smed_v4_8058_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30009172h1SMcG0010495 Contig37233newmark_estsPMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30009172h1SMcG0010495 Contig37233uc_Smed_v2PMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30009172h1SMcG0010495 Contig11063uc_Smed_v2PMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30009172h1SMcG0010495 Contig11063newmark_estsPMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30009172h1SMcG0010496 Contig11063uc_Smed_v2PMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30009172h1SMcG0010496 Contig11063newmark_estsPMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
head regionSMED30009172h1SMcG0010495 dd_Smed_v6_8058_0_1dd_Smed_v6PMID:28171748
Stückemann et al., 2017		whole organism asexual adult RNA-sequencing evidence
head regionSMED30009172h1SMcG0010495 OX_Smed_1.0.20366ox_Smed_v2PMID:24238224
Kao et al., 2013		whole organism asexual adult RNA-sequencing evidence
Note: Hover over icons to view figure legend
Alignments
SMED30009172 aligns in the following genomic locations:
Alignment LocationAlignment Score
v31.000109:135755..136330 +2814
Homology
[Close]
BLAST of SMED30009172 vs. Ensembl Fly
Match: nAChRalpha6 (gene:FBgn0032151 transcript:FBtr0079915)

HSP 1 Score: 46.2098 bits (108), Expect = 7.688e-6
Identity = 30/103 (29.13%), Postives = 50/103 (48.54%), Query Frame = -1 
Query:  215 KGSKSLLANVLDMENEIWARAAQSVSFXYPSANVNSEVPPYESQNNNGGIMGEGLLPEGRSQIKEILSHLRQVTSKLAETEIQELRANEWKFAARVMDRFCLV 523
            + SKSLLANVLD++++     + S +    SA+        E     G              +  IL  L+ +T+++ + + +     +WKFAA V+DRFCL+
Sbjct:  378 RSSKSLLANVLDIDDDFRHTISGSQTAIGSSASFGRPTTVEEHHTAIGC---------NHKDLHLILKELQFITARMRKADDEAELIGDWKFAAMVVDRFCLI 471
[Close]
BLAST of SMED30009172 vs. Ensembl Fly
Match: nAChRalpha6 (gene:FBgn0032151 transcript:FBtr0331284)

HSP 1 Score: 46.2098 bits (108), Expect = 7.760e-6
Identity = 30/103 (29.13%), Postives = 50/103 (48.54%), Query Frame = -1 
Query:  215 KGSKSLLANVLDMENEIWARAAQSVSFXYPSANVNSEVPPYESQNNNGGIMGEGLLPEGRSQIKEILSHLRQVTSKLAETEIQELRANEWKFAARVMDRFCLV 523
            + SKSLLANVLD++++     + S +    SA+        E     G              +  IL  L+ +T+++ + + +     +WKFAA V+DRFCL+
Sbjct:  378 RSSKSLLANVLDIDDDFRHTISGSQTAIGSSASFGRPTTVEEHHTAIGC---------NHKDLHLILKELQFITARMRKADDEAELIGDWKFAAMVVDRFCLI 471
[Close]
BLAST of SMED30009172 vs. Ensembl Fly
Match: nAChRalpha6 (gene:FBgn0032151 transcript:FBtr0303898)

HSP 1 Score: 46.2098 bits (108), Expect = 7.979e-6
Identity = 30/103 (29.13%), Postives = 50/103 (48.54%), Query Frame = -1 
Query:  215 KGSKSLLANVLDMENEIWARAAQSVSFXYPSANVNSEVPPYESQNNNGGIMGEGLLPEGRSQIKEILSHLRQVTSKLAETEIQELRANEWKFAARVMDRFCLV 523
            + SKSLLANVLD++++     + S +    SA+        E     G              +  IL  L+ +T+++ + + +     +WKFAA V+DRFCL+
Sbjct:  378 RSSKSLLANVLDIDDDFRHTISGSQTAIGSSASFGRPTTVEEHHTAIGC---------NHKDLHLILKELQFITARMRKADDEAELIGDWKFAAMVVDRFCLI 471
[Close]
BLAST of SMED30009172 vs. Ensembl Fly
Match: nAChRalpha6 (gene:FBgn0032151 transcript:FBtr0079916)

HSP 1 Score: 46.2098 bits (108), Expect = 7.979e-6
Identity = 30/103 (29.13%), Postives = 50/103 (48.54%), Query Frame = -1 
Query:  215 KGSKSLLANVLDMENEIWARAAQSVSFXYPSANVNSEVPPYESQNNNGGIMGEGLLPEGRSQIKEILSHLRQVTSKLAETEIQELRANEWKFAARVMDRFCLV 523
            + SKSLLANVLD++++     + S +    SA+        E     G              +  IL  L+ +T+++ + + +     +WKFAA V+DRFCL+
Sbjct:  378 RSSKSLLANVLDIDDDFRHTISGSQTAIGSSASFGRPTTVEEHHTAIGC---------NHKDLHLILKELQFITARMRKADDEAELIGDWKFAAMVVDRFCLI 471
[Close]
BLAST of SMED30009172 vs. Ensembl Fly
Match: nAChRalpha6 (gene:FBgn0032151 transcript:FBtr0079914)

HSP 1 Score: 46.2098 bits (108), Expect = 8.359e-6
Identity = 30/103 (29.13%), Postives = 50/103 (48.54%), Query Frame = -1 
Query:  215 KGSKSLLANVLDMENEIWARAAQSVSFXYPSANVNSEVPPYESQNNNGGIMGEGLLPEGRSQIKEILSHLRQVTSKLAETEIQELRANEWKFAARVMDRFCLV 523
            + SKSLLANVLD++++     + S +    SA+        E     G              +  IL  L+ +T+++ + + +     +WKFAA V+DRFCL+
Sbjct:  378 RSSKSLLANVLDIDDDFRHTISGSQTAIGSSASFGRPTTVEEHHTAIGC---------NHKDLHLILKELQFITARMRKADDEAELIGDWKFAAMVVDRFCLI 471
[Close]
BLAST of SMED30009172 vs. TrEMBL
Match: A0A1S8WR03 (Neur_chan_memb domain-containing protein (Fragment) OS=Opisthorchis viverrini OX=6198 GN=X801_07285 PE=4 SV=1)

HSP 1 Score: 61.6178 bits (148), Expect = 8.385e-8
Identity = 41/132 (31.06%), Postives = 68/132 (51.52%), Query Frame = -1 
Query:  215 KGSKSLLANVLDMENEIWARAAQSVSFXYP-SANVNSEVPPY---------------------ESQNNNGGIMGEG-------LLPEGRSQIKEILSHLRQVTSKLAETEIQELRANEWKFAARVMDRFCLV 523
            + S+SLLANVLD+E++    A  +    YP ++N+    P +                     ++Q ++   +  G       LL   R+ +++I++ LR +TSK+ + E + L   EWKFAARV+DRFCL+
Sbjct:  123 RSSRSLLANVLDIEDDFRVAALSASPPAYPMNSNMAGASPVHLNERNVPKTDIWPPDNLSQLSDNQRSDDSFVEAGKSPIPTALLNAYRTDLEQIVTELRFITSKMRDDEQEALVNLEWKFAARVIDRFCLI 254
[Close]
BLAST of SMED30009172 vs. TrEMBL
Match: A0A1B6DHM8 (Neur_chan_memb domain-containing protein (Fragment) OS=Clastoptera arizonana OX=38151 GN=g.2313 PE=4 SV=1)

HSP 1 Score: 59.3066 bits (142), Expect = 1.223e-7
Identity = 38/104 (36.54%), Postives = 54/104 (51.92%), Query Frame = -1 
Query:  215 KGSKSLLANVLDMENEIWARAAQSVSFXYPSANVNSEVPPYESQNNNGGIMGEGLLPEGRSQIKEILSHLRQVTSKL-AETEIQELRANEWKFAARVMDRFCLV 523
            + SKSLLANVLD++++      QS S  +                + GG++   L P    ++  IL  LR +T KL  E E  E+  N+WKFAA V+DR CL+
Sbjct:   62 RSSKSLLANVLDIDDDFRHGTLQSSSHTF-----------LRGHEDTGGVLHSCLGPH--RELTMILKELRVITDKLRKEDEASEV-TNDWKFAAMVVDRLCLI 151
[Close]
BLAST of SMED30009172 vs. TrEMBL
Match: A0A074ZND2 (Uncharacterized protein OS=Opisthorchis viverrini OX=6198 GN=T265_05667 PE=3 SV=1)

HSP 1 Score: 61.6178 bits (148), Expect = 1.570e-7
Identity = 41/132 (31.06%), Postives = 68/132 (51.52%), Query Frame = -1 
Query:  215 KGSKSLLANVLDMENEIWARAAQSVSFXYP-SANVNSEVPPY---------------------ESQNNNGGIMGEG-------LLPEGRSQIKEILSHLRQVTSKLAETEIQELRANEWKFAARVMDRFCLV 523
            + S+SLLANVLD+E++    A  +    YP ++N+    P +                     ++Q ++   +  G       LL   R+ +++I++ LR +TSK+ + E + L   EWKFAARV+DRFCL+
Sbjct:  475 RSSRSLLANVLDIEDDFRVAALSASPPAYPMNSNMAGASPVHLNERNVPKTDIWPPDNLSQLSDNQRSDDSFVEAGKSPIPTALLNAYRTDLEQIVTELRFITSKMRDDEQEALVNLEWKFAARVIDRFCLI 606
[Close]
BLAST of SMED30009172 vs. TrEMBL
Match: A0A2R7X2T3 (Neur_chan_memb domain-containing protein OS=Oncopeltus fasciatus OX=7536 GN=OFAS_OFAS016755 PE=4 SV=1)

HSP 1 Score: 58.151 bits (139), Expect = 2.470e-7
Identity = 36/103 (34.95%), Postives = 57/103 (55.34%), Query Frame = -1 
Query:  215 KGSKSLLANVLDMENEIWARAAQSVSFXYPSANVNSEVPPYESQNNNGGIMGEGLLPEGRSQIKEILSHLRQVTSKLAETEIQELRANEWKFAARVMDRFCLV 523
            + SKSLLANVLD++++      Q+ S  +  A+    V    S  ++ G++   L P    ++ +IL  LR +T KL + +      N+WKFAA V+DR CL+
Sbjct:   27 RSSKSLLANVLDIDDDFRHGPLQASSHTFIRAHEEGSVTG--SVIHSQGMVSSCLGPH--RELAQILKELRMITDKLRKEDEATDITNDWKFAAMVVDRLCLI 125
[Close]
BLAST of SMED30009172 vs. TrEMBL
Match: A0A2P2IA41 (Acetylcholine receptor subunit alpha-type acr-16-like (Fragment) OS=Hirondellea gigas OX=1518452 PE=2 SV=1)

HSP 1 Score: 57.3806 bits (137), Expect = 4.229e-7
Identity = 32/110 (29.09%), Postives = 58/110 (52.73%), Query Frame = -1 
Query:  215 KGSKSLLANVLDMENEIWARAAQSVSFXYPSANVNSE-VP------PYESQNNNGGIMGEGLLPEGRSQIKEILSHLRQVTSKLAETEIQELRANEWKFAARVMDRFCLV 523
            + SKSLLANVLD++++  A      +  +P  N NS  +P      P+   + +   +    + +   ++  IL  +R +T K+ + + +    N+W+FAA V+DR CL+
Sbjct:    2 RSSKSLLANVLDIDDDFRAH-----TLPHPGHNTNSSTLPGGIIRIPHSGHSVDDSHLVHTCMSQCTRELNLILKEIRVITDKMRKDDEEFEVTNDWRFAAMVVDRMCLI 106
[Close]
BLAST of SMED30009172 vs. Planmine SMEST
Match: SMESG000002905.1 (SMESG000002905.1)

HSP 1 Score: 288.115 bits (736), Expect = 1.422e-95
Identity = 154/155 (99.35%), Postives = 154/155 (99.35%), Query Frame = -1 
Query:  137 SGDLKQNTGQFKRNAIYNRAFQSGSMKGSKSLLANVLDMENEIWARAAQSVSFXYPSANVNSEVPPYESQNNNGGIMGEGLLPEGRSQIKEILSHLRQVTSKLAETEIQELRANEWKFAARVMDRFCLVXXXXXXXXXXXXILLQEVFNRRPVAH 601
            SGDLKQNTGQFKRNAIYNRAFQSGSMKGSKSLLANVLDMENEIWARAAQSVSF YPSANVNSEVPPYESQNNNGGIMGEGLLPEGRSQIKEILSHLRQVTSKLAETEIQELRANEWKFAARVMDRFCLVIFSIITIISSTAILLQEVFNRRPVAH
Sbjct:  372 SGDLKQNTGQFKRNAIYNRAFQSGSMKGSKSLLANVLDMENEIWARAAQSVSFSYPSANVNSEVPPYESQNNNGGIMGEGLLPEGRSQIKEILSHLRQVTSKLAETEIQELRANEWKFAARVMDRFCLVIFSIITIISSTAILLQEVFNRRPVAH 526
[Close]
BLAST of SMED30009172 vs. Planmine SMEST
Match: SMESG000011827.1 (SMESG000011827.1)

HSP 1 Score: 53.5286 bits (127), Expect = 1.283e-8
Identity = 19/43 (44.19%), Postives = 33/43 (76.74%), Query Frame = -1 
Query:  215 SQIKEILSHLRQVTSKLAETEIQELRANEWKFAARVMDRFCLV 343
            +++++++  L+Q+T K+ E      ++NEWKFAARV+DRFCL+
Sbjct:  202 TELQDVIHELKQITDKIQEEHFDFKKSNEWKFAARVIDRFCLI 244
[Close]
BLAST of SMED30009172 vs. Planmine SMEST
Match: SMESG000011827.1 (SMESG000011827.1)

HSP 1 Score: 53.5286 bits (127), Expect = 1.462e-8
Identity = 19/43 (44.19%), Postives = 33/43 (76.74%), Query Frame = -1 
Query:  215 SQIKEILSHLRQVTSKLAETEIQELRANEWKFAARVMDRFCLV 343
            +++++++  L+Q+T K+ E      ++NEWKFAARV+DRFCL+
Sbjct:  211 TELQDVIHELKQITDKIQEEHFDFKKSNEWKFAARVIDRFCLI 253
[Close]
BLAST of SMED30009172 vs. Planmine SMEST
Match: SMESG000011827.1 (SMESG000011827.1)

HSP 1 Score: 53.5286 bits (127), Expect = 1.614e-8
Identity = 19/43 (44.19%), Postives = 33/43 (76.74%), Query Frame = -1 
Query:  215 SQIKEILSHLRQVTSKLAETEIQELRANEWKFAARVMDRFCLV 343
            +++++++  L+Q+T K+ E      ++NEWKFAARV+DRFCL+
Sbjct:  223 TELQDVIHELKQITDKIQEEHFDFKKSNEWKFAARVIDRFCLI 265
[Close]
BLAST of SMED30009172 vs. Planmine SMEST
Match: SMESG000011827.1 (SMESG000011827.1)

HSP 1 Score: 53.9138 bits (128), Expect = 1.848e-8
Identity = 19/43 (44.19%), Postives = 33/43 (76.74%), Query Frame = -1 
Query:  215 SQIKEILSHLRQVTSKLAETEIQELRANEWKFAARVMDRFCLV 343
            +++++++  L+Q+T K+ E      ++NEWKFAARV+DRFCL+
Sbjct:  460 TELQDVIHELKQITDKIQEEHFDFKKSNEWKFAARVIDRFCLI 502
The following BLAST results are available for this feature:
BLAST of SMED30009172 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 SMED30009172 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 SMED30009172 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99)
Total hits: 5
Match NameE-valueIdentityDescription
nAChRalpha67.688e-629.13gene:FBgn0032151 transcript:FBtr0079915[more]
nAChRalpha67.760e-629.13gene:FBgn0032151 transcript:FBtr0331284[more]
nAChRalpha67.979e-629.13gene:FBgn0032151 transcript:FBtr0303898[more]
nAChRalpha67.979e-629.13gene:FBgn0032151 transcript:FBtr0079916[more]
nAChRalpha68.359e-629.13gene:FBgn0032151 transcript:FBtr0079914[more]
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BLAST of SMED30009172 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 SMED30009172 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 SMED30009172 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 SMED30009172 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 SMED30009172 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A1S8WR038.385e-831.06Neur_chan_memb domain-containing protein (Fragment... [more]
A0A1B6DHM81.223e-736.54Neur_chan_memb domain-containing protein (Fragment... [more]
A0A074ZND21.570e-731.06Uncharacterized protein OS=Opisthorchis viverrini ... [more]
A0A2R7X2T32.470e-734.95Neur_chan_memb domain-containing protein OS=Oncope... [more]
A0A2P2IA414.229e-729.09Acetylcholine receptor subunit alpha-type acr-16-l... [more]
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BLAST of SMED30009172 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 SMED30009172 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 SMED30009172 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 SMED30009172 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 SMED30009172 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 SMED30009172 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 5
Match NameE-valueIdentityDescription
SMESG000002905.11.422e-9599.35SMESG000002905.1[more]
SMESG000011827.11.283e-844.19SMESG000011827.1[more]
SMESG000011827.11.462e-844.19SMESG000011827.1[more]
SMESG000011827.11.614e-844.19SMESG000011827.1[more]
SMESG000011827.11.848e-844.19SMESG000011827.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30009172 ID=SMED30009172|Name=SMED30009172|organism=Schmidtea mediterranea sexual|type=transcript|length=601bp
TTTTTTTTTTTTTTTTTTANCANGAAATAATGCTANTTTATTATTGCAAA
TAATTATAACAAATATTTTTTACATTCGGTCCTCGAGGATATTGAGTCCA
CTACAGTTNTACTGGCAAAATTGACTAACGGCATTAATGCGCCACAGGTC
GACGATTGAAAACCTCTTGCAAGAGTATAGCCGTTGAAGAGATTATTGTT
ATAATGCTGAAAATTACCAAACAAAATCTGTCCATCACTCGAGCGGCAAA
CTTCCATTCATTCGCTCTCAATTCTTGAATTTCTGTTTCAGCTAATTTGC
TCGTAACTTGTCTCAAATGAGACAAAATTTCTTTGATTTGTGATCTACCT
TCAGGTAGTAAACCTTCACCCATTATTCCCCCGTTATTGTTTTGTGATTC
GTATGGAGGAACTTCAGAGTTAACATTAGCGCTTGGATAANAAAAGCTCA
CTGACTGAGCTGCTCTTGCCCATATTTCATTTTCCATATCAAGAACATTT
GCCAATAAACTTTTAGATCCTTTCATGGAGCCACTTTGAAATGCACGATT
ATAAATGGCGTTTCTTTTGAATTGACCAGTATTTTGCTTCAAATCTCCTG
A
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protein sequence of SMED30009172-orf-1

>SMED30009172-orf-1 ID=SMED30009172-orf-1|Name=SMED30009172-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=156bp
SGDLKQNTGQFKRNAIYNRAFQSGSMKGSKSLLANVLDMENEIWARAAQS
VSFXYPSANVNSEVPPYESQNNNGGIMGEGLLPEGRSQIKEILSHLRQVT
SKLAETEIQELRANEWKFAARVMDRFCLVIFSIITIISSTAILLQEVFNR
RPVAH*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000016pharynx
PLANA:0000099neuron
PLANA:0000418head
Vocabulary: INTERPRO
TermDefinition
IPR036719Neuro-gated_channel_TM_sf
IPR027361Acetylcholine_rcpt_TM
IPR006029Neurotrans-gated_channel_TM
Vocabulary: cellular component
TermDefinition
GO:0016021integral component of membrane
GO:0016020membrane
Vocabulary: biological process
TermDefinition
GO:0006811ion transport
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availableGENE3DG3DSA:1.20.58.390coord: 83..154
e-value: 4.7E-9
score: 38.1
NoneNo IPR availableTMHMMTMhelixcoord: 126..148
IPR036719Neurotransmitter-gated ion-channel transmembrane domain superfamilySUPERFAMILYSSF90112Neurotransmitter-gated ion-channel transmembrane porecoord: 25..148