SMED30000078

Overview
NameSMED30000078
Smed IDSMED30000078
Length (bp)833
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 SMED30000078 (SMED30000078) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30000078 (SMED30000078) 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 SMED30000078 (SMED30000078) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for SMED30000078 (SMED30000078) 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



SMED30000078

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
protonephridiaSMED30000078SMESG000009892.1 dd_Smed_v4_2418_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymaSMED30000078SMESG000009892.1 dd_Smed_v4_2418_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymal cellSMED30000078SMESG000009892.1 dd_Smed_v4_2418_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
head regionSMED30000078SMESG000046416.1 SMESG000037656.1 SMESG000009892.1 OX_Smed_1.0.18739ox_Smed_v2PMID:24238224
Kao et al., 2013		whole organism asexual adult RNA-sequencing evidence
Note: Hover over icons to view figure legend
Alignments
SMED30000078 aligns in the following genomic locations:
Alignment LocationAlignment Score
v31.003246:44009..46682 +4040
Homology
[Close]
BLAST of SMED30000078 vs. Ensembl Human
Match: CDC42SE2 (CDC42 small effector 2 [Source:HGNC Symbol;Acc:HGNC:18547])

HSP 1 Score: 53.1434 bits (126), Expect = 9.234e-9
Identity = 25/57 (43.86%), Postives = 37/57 (64.91%), Query Frame = 2 
Query:  125 VCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDT-SNYTSLSTLSHQMR 292
            +C  CCI   +P+  R+R+IDR  IG P +F H  H+GSGD  S   S+S++ +QM+
Sbjct:    6 LCFNCCIAE-QPQPKRRRRIDRSMIGEPTNFVHTAHVGSGDLFSGMNSVSSIQNQMQ 61
[Close]
BLAST of SMED30000078 vs. Ensembl Human
Match: CDC42SE2 (CDC42 small effector 2 [Source:HGNC Symbol;Acc:HGNC:18547])

HSP 1 Score: 53.1434 bits (126), Expect = 9.234e-9
Identity = 25/57 (43.86%), Postives = 37/57 (64.91%), Query Frame = 2 
Query:  125 VCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDT-SNYTSLSTLSHQMR 292
            +C  CCI   +P+  R+R+IDR  IG P +F H  H+GSGD  S   S+S++ +QM+
Sbjct:    6 LCFNCCIAE-QPQPKRRRRIDRSMIGEPTNFVHTAHVGSGDLFSGMNSVSSIQNQMQ 61
[Close]
BLAST of SMED30000078 vs. Ensembl Human
Match: CDC42SE2 (CDC42 small effector 2 [Source:HGNC Symbol;Acc:HGNC:18547])

HSP 1 Score: 53.1434 bits (126), Expect = 9.234e-9
Identity = 25/57 (43.86%), Postives = 37/57 (64.91%), Query Frame = 2 
Query:  125 VCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDT-SNYTSLSTLSHQMR 292
            +C  CCI   +P+  R+R+IDR  IG P +F H  H+GSGD  S   S+S++ +QM+
Sbjct:    6 LCFNCCIAE-QPQPKRRRRIDRSMIGEPTNFVHTAHVGSGDLFSGMNSVSSIQNQMQ 61
[Close]
BLAST of SMED30000078 vs. Ensembl Zebrafish
Match: cdc42se2 (CDC42 small effector 2 [Source:NCBI gene;Acc:794234])

HSP 1 Score: 50.447 bits (119), Expect = 4.483e-8
Identity = 23/57 (40.35%), Postives = 37/57 (64.91%), Query Frame = 2 
Query:  125 VCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDT-SNYTSLSTLSHQMR 292
            +C  CCI   +P+  R+R+IDR  IG P +F H  H+GSGD  +   S++++ +QM+
Sbjct:    6 LCFNCCIAE-QPQPKRRRRIDRSMIGEPTNFVHTAHVGSGDLFTGMNSVNSIQNQMQ 61
[Close]
BLAST of SMED30000078 vs. Ensembl Zebrafish
Match: cdc42se2 (CDC42 small effector 2 [Source:NCBI gene;Acc:794234])

HSP 1 Score: 50.447 bits (119), Expect = 4.483e-8
Identity = 23/57 (40.35%), Postives = 37/57 (64.91%), Query Frame = 2 
Query:  125 VCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDT-SNYTSLSTLSHQMR 292
            +C  CCI   +P+  R+R+IDR  IG P +F H  H+GSGD  +   S++++ +QM+
Sbjct:    6 LCFNCCIAE-QPQPKRRRRIDRSMIGEPTNFVHTAHVGSGDLFTGMNSVNSIQNQMQ 61
[Close]
BLAST of SMED30000078 vs. Ensembl Zebrafish
Match: cdc42se2 (CDC42 small effector 2 [Source:NCBI gene;Acc:794234])

HSP 1 Score: 50.447 bits (119), Expect = 4.483e-8
Identity = 23/57 (40.35%), Postives = 37/57 (64.91%), Query Frame = 2 
Query:  125 VCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDT-SNYTSLSTLSHQMR 292
            +C  CCI   +P+  R+R+IDR  IG P +F H  H+GSGD  +   S++++ +QM+
Sbjct:    6 LCFNCCIAE-QPQPKRRRRIDRSMIGEPTNFVHTAHVGSGDLFTGMNSVNSIQNQMQ 61
[Close]
BLAST of SMED30000078 vs. Ensembl Xenopus
Match: eif5 (eukaryotic translation initiation factor 5 [Source:Xenbase;Acc:XB-GENE-957969])

HSP 1 Score: 52.7582 bits (125), Expect = 1.186e-8
Identity = 25/57 (43.86%), Postives = 37/57 (64.91%), Query Frame = 2 
Query:  125 VCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDT-SNYTSLSTLSHQMR 292
            +C  CCI   +P+  R+R+IDR  IG P +F H  H+GSGD  S   S+S++ +QM+
Sbjct:    6 LCFNCCIAE-QPQPKRRRRIDRSMIGEPTNFVHTAHVGSGDLFSGMNSVSSIQNQMQ 61
[Close]
BLAST of SMED30000078 vs. Ensembl Xenopus
Match: cdc42se2 (CDC42 small effector 2 [Source:NCBI gene;Acc:594923])

HSP 1 Score: 51.2174 bits (121), Expect = 3.279e-8
Identity = 21/44 (47.73%), Postives = 29/44 (65.91%), Query Frame = 2 
Query:  122 MVCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDTS 253
            + C  CCI   +P+  R+R+IDR  IG P +F H  H+GSGDT+
Sbjct:    5 LFCFSCCI-GEQPQPKRRRRIDRSMIGEPMNFVHTAHVGSGDTN 47
[Close]
BLAST of SMED30000078 vs. Ensembl Mouse
Match: Cdc42se2 (CDC42 small effector 2 [Source:MGI Symbol;Acc:MGI:1919979])

HSP 1 Score: 53.1434 bits (126), Expect = 6.340e-9
Identity = 25/57 (43.86%), Postives = 37/57 (64.91%), Query Frame = 2 
Query:  125 VCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDT-SNYTSLSTLSHQMR 292
            +C  CCI   +P+  R+R+IDR  IG P +F H  H+GSGD  S   S+S++ +QM+
Sbjct:    6 LCFNCCIAE-QPQPKRRRRIDRSMIGEPTNFVHTAHVGSGDLFSGMNSVSSIQNQMQ 61
[Close]
BLAST of SMED30000078 vs. Ensembl Mouse
Match: Cdc42se2 (CDC42 small effector 2 [Source:MGI Symbol;Acc:MGI:1919979])

HSP 1 Score: 45.0542 bits (105), Expect = 2.187e-6
Identity = 20/41 (48.78%), Postives = 27/41 (65.85%), Query Frame = 2 
Query:  125 VCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGD 247
            +C  CCI   +P+  R+R+IDR  IG P +F H  H+GSGD
Sbjct:    6 LCFNCCIAE-QPQPKRRRRIDRSMIGEPTNFVHTAHVGSGD 45
[Close]
BLAST of SMED30000078 vs. Ensembl Mouse
Match: Cdc42se1 (CDC42 small effector 1 [Source:MGI Symbol;Acc:MGI:1889510])

HSP 1 Score: 43.8986 bits (102), Expect = 9.096e-6
Identity = 22/57 (38.60%), Postives = 31/57 (54.39%), Query Frame = 2 
Query:  131 LICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDTSNYTSLS---TLSHQMR 292
            L CC+      K ++R+IDR  IG P +F H+ HIGSG+      L+    +  QMR
Sbjct:    8 LGCCVVEKPQPKKKRRRIDRTMIGEPMNFVHLTHIGSGEMGAGDGLAMTGAVQEQMR 64
[Close]
BLAST of SMED30000078 vs. Ensembl Mouse
Match: Cdc42se1 (CDC42 small effector 1 [Source:MGI Symbol;Acc:MGI:1889510])

HSP 1 Score: 43.8986 bits (102), Expect = 9.096e-6
Identity = 22/57 (38.60%), Postives = 31/57 (54.39%), Query Frame = 2 
Query:  131 LICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDTSNYTSLS---TLSHQMR 292
            L CC+      K ++R+IDR  IG P +F H+ HIGSG+      L+    +  QMR
Sbjct:    8 LGCCVVEKPQPKKKRRRIDRTMIGEPMNFVHLTHIGSGEMGAGDGLAMTGAVQEQMR 64
[Close]
BLAST of SMED30000078 vs. UniProt/SwissProt
Match: sp|Q5R4F8|C42S2_PONAB (CDC42 small effector protein 2 OS=Pongo abelii OX=9601 GN=CDC42SE2 PE=3 SV=1)

HSP 1 Score: 54.299 bits (129), Expect = 1.540e-8
Identity = 25/57 (43.86%), Postives = 37/57 (64.91%), Query Frame = 2 
Query:  125 VCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDT-SNYTSLSTLSHQMR 292
            +C  CCI   +P+  R+R+IDR  IG P +F H  H+GSGD  S   S+S++ +QM+
Sbjct:    6 LCFSCCIAE-QPQPKRRRRIDRSMIGEPTNFAHTAHVGSGDLFSGMNSVSSIQNQMQ 61
[Close]
BLAST of SMED30000078 vs. UniProt/SwissProt
Match: sp|A6QLJ4|C42S2_BOVIN (CDC42 small effector protein 2 OS=Bos taurus OX=9913 GN=CDC42SE2 PE=3 SV=1)

HSP 1 Score: 53.9138 bits (128), Expect = 2.273e-8
Identity = 25/57 (43.86%), Postives = 37/57 (64.91%), Query Frame = 2 
Query:  125 VCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDT-SNYTSLSTLSHQMR 292
            +C  CCI   +P+  R+R+IDR  IG P +F H  H+GSGD  S   S+S++ +QM+
Sbjct:    6 LCFNCCIAE-QPQPKRRRRIDRSMIGEPTNFVHTAHVGSGDLFSGMNSVSSIQNQMQ 61
[Close]
BLAST of SMED30000078 vs. UniProt/SwissProt
Match: sp|Q8BGH7|C42S2_MOUSE (CDC42 small effector protein 2 OS=Mus musculus OX=10090 GN=Cdc42se2 PE=1 SV=1)

HSP 1 Score: 53.1434 bits (126), Expect = 4.435e-8
Identity = 25/57 (43.86%), Postives = 37/57 (64.91%), Query Frame = 2 
Query:  125 VCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDT-SNYTSLSTLSHQMR 292
            +C  CCI   +P+  R+R+IDR  IG P +F H  H+GSGD  S   S+S++ +QM+
Sbjct:    6 LCFNCCIAE-QPQPKRRRRIDRSMIGEPTNFVHTAHVGSGDLFSGMNSVSSIQNQMQ 61
[Close]
BLAST of SMED30000078 vs. UniProt/SwissProt
Match: sp|Q9NRR3|C42S2_HUMAN (CDC42 small effector protein 2 OS=Homo sapiens OX=9606 GN=CDC42SE2 PE=1 SV=1)

HSP 1 Score: 53.1434 bits (126), Expect = 4.435e-8
Identity = 25/57 (43.86%), Postives = 37/57 (64.91%), Query Frame = 2 
Query:  125 VCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDT-SNYTSLSTLSHQMR 292
            +C  CCI   +P+  R+R+IDR  IG P +F H  H+GSGD  S   S+S++ +QM+
Sbjct:    6 LCFNCCIAE-QPQPKRRRRIDRSMIGEPTNFVHTAHVGSGDLFSGMNSVSSIQNQMQ 61
[Close]
BLAST of SMED30000078 vs. UniProt/SwissProt
Match: sp|Q28EW5|C4S2A_XENTR (CDC42 small effector protein 2-A OS=Xenopus tropicalis OX=8364 GN=cdc42se2-A PE=3 SV=1)

HSP 1 Score: 52.7582 bits (125), Expect = 6.285e-8
Identity = 25/57 (43.86%), Postives = 37/57 (64.91%), Query Frame = 2 
Query:  125 VCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDT-SNYTSLSTLSHQMR 292
            +C  CCI   +P+  R+R+IDR  IG P +F H  H+GSGD  S   S+S++ +QM+
Sbjct:    6 LCFNCCIAE-QPQPKRRRRIDRSMIGEPTNFVHTAHVGSGDLFSGMNSVSSIQNQMQ 61
[Close]
BLAST of SMED30000078 vs. TrEMBL
Match: V3ZLB4 (CRIB domain-containing protein OS=Lottia gigantea OX=225164 GN=LOTGIDRAFT_131039 PE=4 SV=1)

HSP 1 Score: 60.077 bits (144), Expect = 3.763e-8
Identity = 32/84 (38.10%), Postives = 49/84 (58.33%), Query Frame = 2 
Query:  122 MVCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDTSNYTS-LSTLSHQM--RDADCDNVPVSQILVNCIDLTKKPN 364
            ++CL CCI      K ++R+IDR  IG P DFRH  H+GSGD SN +S L+++  QM  +    ++V    + +  +DL  + N
Sbjct:    5 LLCLNCCITEQPQPKRQRRRIDRSMIGAPTDFRHTAHVGSGDVSNNSSTLNSVQGQMSSKGGYSNHVSPGHLQLTVVDLPARNN 88
[Close]
BLAST of SMED30000078 vs. TrEMBL
Match: A0A1S3HCQ6 (CDC42 small effector protein 2-like isoform X2 OS=Lingula unguis OX=7574 GN=LOC106154102 PE=4 SV=1)

HSP 1 Score: 59.3066 bits (142), Expect = 1.906e-7
Identity = 24/48 (50.00%), Postives = 34/48 (70.83%), Query Frame = 2 
Query:  122 MVCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDTSNYTS 265
            +VC  CC+   +P+  R+R+IDR  IG P +F+H  HIGSGD SN++S
Sbjct:   36 LVCFRCCVAE-QPQPKRRRRIDRSMIGLPTNFQHTGHIGSGDVSNFSS 82
[Close]
BLAST of SMED30000078 vs. TrEMBL
Match: A0A1S3HCN4 (CDC42 small effector protein 2-like isoform X1 OS=Lingula unguis OX=7574 GN=LOC106154102 PE=4 SV=1)

HSP 1 Score: 58.9214 bits (141), Expect = 3.203e-7
Identity = 26/58 (44.83%), Postives = 40/58 (68.97%), Query Frame = 2 
Query:  122 MVCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDTSNYTS--LSTLSHQM 289
            +VC  CC+   +P+  R+R+IDR  IG P +F+H  HIGSGD SN++S  ++++  QM
Sbjct:   45 LVCFRCCVAE-QPQPKRRRRIDRSMIGLPTNFQHTGHIGSGDVSNFSSPGVNSIQGQM 101
[Close]
BLAST of SMED30000078 vs. TrEMBL
Match: A0A1S3KBW0 (CDC42 small effector protein 2 OS=Lingula unguis OX=7574 GN=LOC106180631 PE=4 SV=1)

HSP 1 Score: 58.5362 bits (140), Expect = 3.435e-7
Identity = 26/58 (44.83%), Postives = 40/58 (68.97%), Query Frame = 2 
Query:  122 MVCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDTSNYTS--LSTLSHQM 289
            +VC  CC+   +P+  R+R+IDR  IG P +F+H  HIGSGD SN++S  ++++  QM
Sbjct:   45 LVCFRCCVAE-QPQPKRRRRIDRSMIGLPTNFQHTGHIGSGDVSNFSSPGVNSIQGQM 101
[Close]
BLAST of SMED30000078 vs. TrEMBL
Match: X1ZAL8 (CRIB domain-containing protein OS=Capitella teleta OX=283909 PE=4 SV=1)

HSP 1 Score: 56.225 bits (134), Expect = 1.226e-6
Identity = 30/86 (34.88%), Postives = 47/86 (54.65%), Query Frame = 2 
Query:  122 MVCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDTSNYTS-------LSTLSHQMRD-ADCDNVPVSQILVNCIDLTK 355
            M+C  CC+   +P   R+R+IDR  IG P DFRH  HIGS D  N ++       L+++ +QM+     D+     + +N +D+ K
Sbjct:    5 MLCFTCCVTQ-QPTTQRRRRIDRSMIGGPTDFRHTGHIGSADVHNESTGSDDVDQLNSMHNQMQSKGGYDHASPVHVSLNVVDVCK 89
[Close]
BLAST of SMED30000078 vs. Ensembl Cavefish
Match: ENSAMXT00000034096.1 (pep primary_assembly:Astyanax_mexicanus-2.0:APWO02000962.1:2302010:2305745:1 gene:ENSAMXG00000035375.1 transcript:ENSAMXT00000034096.1 gene_biotype:protein_coding transcript_biotype:protein_coding)

HSP 1 Score: 53.5286 bits (127), Expect = 2.548e-9
Identity = 23/56 (41.07%), Postives = 36/56 (64.29%), Query Frame = 2 
Query:  125 VCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDTSNYTSLSTLSHQMR 292
            VC  CC+   +P+  R+R+IDR  IG P +F H+ H+GSGD     S++++  QM+
Sbjct:    6 VCFSCCVAE-QPQPKRRRRIDRTMIGEPTNFVHMTHVGSGDMGMGLSVNSVQAQMK 60
[Close]
BLAST of SMED30000078 vs. Ensembl Nematostella
Match: EDO49983 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7REW2])

HSP 1 Score: 46.595 bits (109), Expect = 3.485e-7
Identity = 25/59 (42.37%), Postives = 34/59 (57.63%), Query Frame = 2 
Query:  122 MVCLICCIPNAEPEKIRKRK--IDRLTIGFPQDFRHVNHIGSGDTSNYTSLSTLSHQMR 292
            +VC  CC+      + R  +  IDR  IG PQ+FRH  HIGSGD ++ T L  +  QM+
Sbjct:    5 LVCFPCCVTEQPRAQRRPARPRIDRSMIGEPQNFRHTGHIGSGDMASGTDLGLVQVQMQ 63
[Close]
BLAST of SMED30000078 vs. Ensembl Medaka
Match: cdc42se2 (CDC42 small effector 2 [Source:NCBI gene;Acc:101162586])

HSP 1 Score: 53.1434 bits (126), Expect = 3.994e-9
Identity = 25/57 (43.86%), Postives = 34/57 (59.65%), Query Frame = 2 
Query:  125 VCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDTS-NYTSLSTLSHQMR 292
            VC  CCI   +P+  R+R+IDR  IG P +F H  H+GSGD S    S+  +  QM+
Sbjct:    6 VCFSCCIAE-QPQPKRRRRIDRSMIGEPTNFVHTTHVGSGDMSLGLASVDLVQAQMK 61
[Close]
BLAST of SMED30000078 vs. Planmine SMEST
Match: SMESG000009892.1 (SMESG000009892.1)

HSP 1 Score: 206.838 bits (525), Expect = 6.262e-68
Identity = 99/99 (100.00%), Postives = 99/99 (100.00%), Query Frame = 2 
Query:  122 MVCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDTSNYTSLSTLSHQMRDADCDNVPVSQILVNCIDLTKKPNSKPIEFNPNRYSDNWTCV 418
            MVCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDTSNYTSLSTLSHQMRDADCDNVPVSQILVNCIDLTKKPNSKPIEFNPNRYSDNWTCV
Sbjct:    1 MVCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDTSNYTSLSTLSHQMRDADCDNVPVSQILVNCIDLTKKPNSKPIEFNPNRYSDNWTCV 99
[Close]
BLAST of SMED30000078 vs. Planmine SMEST
Match: SMESG000069507.1 (SMESG000069507.1)

HSP 1 Score: 46.2098 bits (108), Expect = 2.189e-6
Identity = 24/79 (30.38%), Postives = 42/79 (53.16%), Query Frame = 2 
Query:  122 MVCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDTSNYTSLSTLSHQMRDADCDNVPVSQILVNCIDLTKK 358
            M  LICC    + E   +++I+ ++IG+PQDFRH+ H G  +  NY   +++S +  +         +  + CIDL  +
Sbjct:    1 MPSLICC--RTQEESNPRKRINGISIGYPQDFRHICHYGDNEEQNYELPASMSSKCGEG----FYSERFHLECIDLKDR 73
[Close]
BLAST of SMED30000078 vs. Planmine SMEST
Match: SMESG000069507.1 (SMESG000069507.1)

HSP 1 Score: 45.4394 bits (106), Expect = 2.398e-6
Identity = 24/79 (30.38%), Postives = 42/79 (53.16%), Query Frame = 2 
Query:  122 MVCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDTSNYTSLSTLSHQMRDADCDNVPVSQILVNCIDLTKK 358
            M  LICC    + E   +++I+ ++IG+PQDFRH+ H G  +  NY   +++S +  +         +  + CIDL  +
Sbjct:    1 MPSLICC--RTQEESNPRKRINGISIGYPQDFRHICHYGDNEEQNYELPASMSSKCGEG----FYSERFHLECIDLKDR 73
The following BLAST results are available for this feature:
BLAST of SMED30000078 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 3
Match NameE-valueIdentityDescription
CDC42SE29.234e-943.86CDC42 small effector 2 [Source:HGNC Symbol;Acc:HGN... [more]
CDC42SE29.234e-943.86CDC42 small effector 2 [Source:HGNC Symbol;Acc:HGN... [more]
CDC42SE29.234e-943.86CDC42 small effector 2 [Source:HGNC Symbol;Acc:HGN... [more]
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BLAST of SMED30000078 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 SMED30000078 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 SMED30000078 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 3
Match NameE-valueIdentityDescription
cdc42se24.483e-840.35CDC42 small effector 2 [Source:NCBI gene;Acc:79423... [more]
cdc42se24.483e-840.35CDC42 small effector 2 [Source:NCBI gene;Acc:79423... [more]
cdc42se24.483e-840.35CDC42 small effector 2 [Source:NCBI gene;Acc:79423... [more]
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BLAST of SMED30000078 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 2
Match NameE-valueIdentityDescription
eif51.186e-843.86eukaryotic translation initiation factor 5 [Source... [more]
cdc42se23.279e-847.73CDC42 small effector 2 [Source:NCBI gene;Acc:59492... [more]
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BLAST of SMED30000078 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 4
Match NameE-valueIdentityDescription
Cdc42se26.340e-943.86CDC42 small effector 2 [Source:MGI Symbol;Acc:MGI:... [more]
Cdc42se22.187e-648.78CDC42 small effector 2 [Source:MGI Symbol;Acc:MGI:... [more]
Cdc42se19.096e-638.60CDC42 small effector 1 [Source:MGI Symbol;Acc:MGI:... [more]
Cdc42se19.096e-638.60CDC42 small effector 1 [Source:MGI Symbol;Acc:MGI:... [more]
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BLAST of SMED30000078 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 5
Match NameE-valueIdentityDescription
sp|Q5R4F8|C42S2_PONAB1.540e-843.86CDC42 small effector protein 2 OS=Pongo abelii OX=... [more]
sp|A6QLJ4|C42S2_BOVIN2.273e-843.86CDC42 small effector protein 2 OS=Bos taurus OX=99... [more]
sp|Q8BGH7|C42S2_MOUSE4.435e-843.86CDC42 small effector protein 2 OS=Mus musculus OX=... [more]
sp|Q9NRR3|C42S2_HUMAN4.435e-843.86CDC42 small effector protein 2 OS=Homo sapiens OX=... [more]
sp|Q28EW5|C4S2A_XENTR6.285e-843.86CDC42 small effector protein 2-A OS=Xenopus tropic... [more]
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BLAST of SMED30000078 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
V3ZLB43.763e-838.10CRIB domain-containing protein OS=Lottia gigantea ... [more]
A0A1S3HCQ61.906e-750.00CDC42 small effector protein 2-like isoform X2 OS=... [more]
A0A1S3HCN43.203e-744.83CDC42 small effector protein 2-like isoform X1 OS=... [more]
A0A1S3KBW03.435e-744.83CDC42 small effector protein 2 OS=Lingula unguis O... [more]
X1ZAL81.226e-634.88CRIB domain-containing protein OS=Capitella teleta... [more]
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BLAST of SMED30000078 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 1
Match NameE-valueIdentityDescription
ENSAMXT00000034096.12.548e-941.07pep primary_assembly:Astyanax_mexicanus-2.0:APWO02... [more]
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BLAST of SMED30000078 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 SMED30000078 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 SMED30000078 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 1
Match NameE-valueIdentityDescription
EDO499833.485e-742.37Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7... [more]
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BLAST of SMED30000078 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 1
Match NameE-valueIdentityDescription
cdc42se23.994e-943.86CDC42 small effector 2 [Source:NCBI gene;Acc:10116... [more]
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BLAST of SMED30000078 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 3
Match NameE-valueIdentityDescription
SMESG000009892.16.262e-68100.00SMESG000009892.1[more]
SMESG000069507.12.189e-630.38SMESG000069507.1[more]
SMESG000069507.12.398e-630.38SMESG000069507.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30000078 ID=SMED30000078|Name=SMED30000078|organism=Schmidtea mediterranea sexual|type=transcript|length=833bp
TTATAGTTTATTTTAAGGGAATTAATTCAAATCTGTTAACAAAAATATTT
TCGAAAATTCAATGTACATTTGTGTTGTGAAATTGTAAAGCTGTGAACGG
TTGAATTTTTGTCGCACGGAAATGGTCTGTTTGATATGCTGCATTCCGAA
TGCTGAGCCGGAGAAAATACGAAAAAGAAAAATCGACAGACTTACAATCG
GATTTCCGCAAGATTTCCGGCACGTCAACCATATCGGAAGTGGCGACACA
TCGAACTATACTTCGCTTTCGACTTTGTCCCATCAAATGCGCGACGCCGA
TTGCGACAATGTTCCAGTCAGCCAGATTCTCGTCAACTGCATTGACCTTA
CCAAAAAACCCAACTCAAAACCTATCGAATTCAACCCGAATCGCTACAGT
GATAATTGGACTTGCGTGTCTGACTTGCCGCCACCTCCGCTGCCCCCCAA
TCTTTCTGATGACGACGACGATGATGATGATTTAGATTGAAGCAACGCCA
AACTGATCAAAAAAGATCCAAATCTATGCATATTATTGATGCCATCCTGA
TTTGTGCTGTCAGCGGTTGAAAATTGCGCCTATATTGACAATAAATCTAC
AGATTCCATTGATTGAGCACCTGATATAGGGTGCAACTCACTGCAAACAC
ATTTCCATTGTGATCCGATCTCCTTGGCGCCCCCTAATTGGTCGCTGTAA
ATATGACCTGGCTAAATAATCGTGCTCTTGTTTCTGATTTGTATTATTCA
ATTTTTTATGAAACATTTTCAAATATGTATTTCGAAAAATTCGAATTATT
TTTAAATAAATCTTGTTTATTTTCATATCTTGC
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protein sequence of SMED30000078-orf-1

>SMED30000078-orf-1 ID=SMED30000078-orf-1|Name=SMED30000078-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=123bp
MVCLICCIPNAEPEKIRKRKIDRLTIGFPQDFRHVNHIGSGDTSNYTSLS
TLSHQMRDADCDNVPVSQILVNCIDLTKKPNSKPIEFNPNRYSDNWTCVS
DLPPPPLPPNLSDDDDDDDDLD*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000020protonephridia
PLANA:0000418head
PLANA:0003116parenchymal cell
Vocabulary: INTERPRO
TermDefinition
IPR036936CRIB_dom_sf
IPR039056SPEC
IPR000095CRIB_dom
Vocabulary: molecular function
TermDefinition
GO:0017048Rho GTPase binding
GO:0005198structural molecule activity
Vocabulary: biological process
TermDefinition
GO:0035023regulation of Rho protein signal transduction
GO:0006909phagocytosis
GO:0008360regulation of cell shape
GO:0009966regulation of signal transduction
Vocabulary: cellular component
TermDefinition
GO:0001891phagocytic cup
GO:0005737cytoplasm
GO:0005856cytoskeleton
GO:0005886plasma membrane
GO:0016020membrane
GO:0042995cell projection
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR036936CRIB domain superfamilyGENE3DG3DSA:3.90.810.10coord: 18..67
e-value: 4.1E-5
score: 25.5
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 100..122
IPR039056CDC42 small effector proteinPANTHERPTHR13502FAMILY NOT NAMEDcoord: 3..57
IPR000095CRIB domainPROSITEPS50108CRIBcoord: 26..39
score: 8.484