SMED30001366

Overview
NameSMED30001366
Smed IDSMED30001366
Length (bp)538
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 SMED30001366 (SMED30001366) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30001366 (SMED30001366) 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 SMED30001366 (SMED30001366) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for SMED30001366 (SMED30001366) 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




SMED30001366

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



PAGE Curations: 5

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
pharynxSMED30001366SMESG000014648.1 dd_Smed_v4_1227_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
gutSMED30001366SMESG000014648.1 dd_Smed_v4_1227_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30001366SMESG000014648.1 dd_Smed_v4_1227_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30001366SMESG000014648.1 dd_Smed_v4_1227_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30001366SMESG000014648.1 dd_Smed_v4_1227_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
Note: Hover over icons to view figure legend
Alignments
SMED30001366 aligns in the following genomic locations:
Alignment LocationAlignment Score
v31.001592:45205..45742 +2636
Homology
BLAST of SMED30001366 vs. UniProt/SwissProt
Match: sp|Q05120|UBIL_NPVOP (Ubiquitin-like protein OS=Orgyia pseudotsugata multicapsid polyhedrosis virus OX=262177 GN=V-UBI PE=3 SV=1)

HSP 1 Score: 48.1358 bits (113), Expect = 1.152e-6
Identity = 28/76 (36.84%), Postives = 39/76 (51.32%), Query Frame = 3
Query:  126 MKVFVK-FKNQNFTFEVTSETLTGDLKNQIAQKTGMASDQIELMYNVVYLLDDKPLKKYEIQSNANIVMISRLRGG 350
            M++FVK    +  T E       G +K +IA K G+  DQ  L+Y    L D + L  Y IQ  + + M+ RLRGG
Sbjct:    1 MQIFVKTLTGKTITVETEPGDTVGQVKQKIADKEGVPVDQQRLIYAGKQLEDAQTLADYNIQKESTLHMVLRLRGG 76          
BLAST of SMED30001366 vs. UniProt/SwissProt
Match: sp|P69326|UBIQ_WHEAT (Ubiquitin OS=Triticum aestivum OX=4565 PE=1 SV=2)

HSP 1 Score: 46.2098 bits (108), Expect = 4.775e-6
Identity = 26/77 (33.77%), Postives = 41/77 (53.25%), Query Frame = 3
Query:  126 MKVFVK-FKNQNFTFEVTSETLTGDLKNQIAQKTGMASDQIELMYNVVYLLDDKPLKKYEIQSNANIVMISRLRGGR 353
            M++FVK    +  T EV S     ++K +I  K G+  DQ  L++    L D + L  Y IQ  + + ++ RLRGG+
Sbjct:    1 MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGQ 77          
BLAST of SMED30001366 vs. UniProt/SwissProt
Match: sp|P0CG83|UBIQP_HORVU (Polyubiquitin (Fragment) OS=Hordeum vulgare OX=4513 PE=2 SV=1)

HSP 1 Score: 47.3654 bits (111), Expect = 8.500e-6
Identity = 27/83 (32.53%), Postives = 43/83 (51.81%), Query Frame = 3
Query:  108 LKFAYKMKVFVK-FKNQNFTFEVTSETLTGDLKNQIAQKTGMASDQIELMYNVVYLLDDKPLKKYEIQSNANIVMISRLRGGR 353
            L+    M++FVK    +  T EV S     ++K +I  K G+  DQ  L++    L D + L  Y IQ  + + ++ RLRGG+
Sbjct:   89 LRLRGGMQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLVLRLRGGK 171          
BLAST of SMED30001366 vs. TrEMBL
Match: A0A2I7MM41 (Ubiquitin-like protein OS=Spilosoma obliqua nucleopolyhedrosis virus OX=1810940 GN=Spob113 PE=4 SV=1)

HSP 1 Score: 56.225 bits (134), Expect = 2.277e-7
Identity = 31/77 (40.26%), Postives = 42/77 (54.55%), Query Frame = 3
Query:  126 MKVFVK-FKNQNFTFEVTSETLTGDLKNQIAQKTGMASDQIELMYNVVYLLDDKPLKKYEIQSNANIVMISRLRGGR 353
            M++FVK    +  T E  S    G +K +IA K G+  DQ  L+Y    L DDK +  Y IQ  + I M+ RLRGG+
Sbjct:    1 MQIFVKTLTGKTITVETESSDTVGQVKQKIADKEGVPVDQQRLIYAGKQLEDDKTMADYNIQKESTIHMVLRLRGGK 77          
BLAST of SMED30001366 vs. TrEMBL
Match: Q2NP30 (Ubiquitin OS=Hyphantria cunea nuclear polyhedrosis virus OX=28288 GN=vubi PE=4 SV=1)

HSP 1 Score: 56.225 bits (134), Expect = 2.277e-7
Identity = 31/77 (40.26%), Postives = 42/77 (54.55%), Query Frame = 3
Query:  126 MKVFVK-FKNQNFTFEVTSETLTGDLKNQIAQKTGMASDQIELMYNVVYLLDDKPLKKYEIQSNANIVMISRLRGGR 353
            M++FVK    +  T E  S    G +K +IA K G+  DQ  L+Y    L DDK +  Y IQ  + I M+ RLRGG+
Sbjct:    1 MQIFVKTLTGKTITVETESSDTVGQVKQKIADKEGVPVDQQRLIYAGKQLEDDKTMADYNIQKESTIHMVLRLRGGK 77          
BLAST of SMED30001366 vs. TrEMBL
Match: A0A1L5JHG2 (V-UBI OS=Plodia interpunctella granulovirus OX=262175 PE=4 SV=1)

HSP 1 Score: 52.7582 bits (125), Expect = 4.441e-6
Identity = 29/76 (38.16%), Postives = 43/76 (56.58%), Query Frame = 3
Query:  126 MKVFVK-FKNQNFTFEVTSETLTGDLKNQIAQKTGMASDQIELMYNVVYLLDDKPLKKYEIQSNANIVMISRLRGG 350
            M++FVK    +  T EV S    G LK +I +K G+ SDQ  L++    L D++ L  Y IQ  + + ++ RLRGG
Sbjct:    1 MQIFVKTLTGKTITVEVESADTIGTLKQKITEKEGVPSDQQRLIFAGKQLDDERQLADYNIQKESTLHLVLRLRGG 76          
BLAST of SMED30001366 vs. TrEMBL
Match: B6D656 (Ubiquitin OS=Agrotis ipsilon multiple nucleopolyhedrovirus OX=208013 PE=4 SV=1)

HSP 1 Score: 51.9878 bits (123), Expect = 8.679e-6
Identity = 29/76 (38.16%), Postives = 41/76 (53.95%), Query Frame = 3
Query:  126 MKVFVK-FKNQNFTFEVTSETLTGDLKNQIAQKTGMASDQIELMYNVVYLLDDKPLKKYEIQSNANIVMISRLRGG 350
            M++FVK    +  T EV S      LK +I  K G+  DQ  L+Y+   L D + +  Y IQ  +NI ++ RLRGG
Sbjct:    1 MQIFVKTLTGKTLTVEVESTDTVEQLKQKITDKEGIPPDQQRLIYSGKQLEDSRTMSDYNIQKESNIHLVLRLRGG 76          
BLAST of SMED30001366 vs. TrEMBL
Match: S5MRE1 (Ubiquitin-like protein OS=Choristoneura rosaceana nucleopolyhedrovirus OX=58094 GN=v-ubi PE=4 SV=1)

HSP 1 Score: 52.373 bits (124), Expect = 9.828e-6
Identity = 28/79 (35.44%), Postives = 43/79 (54.43%), Query Frame = 3
Query:  120 YKMKVFVK-FKNQNFTFEVTSETLTGDLKNQIAQKTGMASDQIELMYNVVYLLDDKPLKKYEIQSNANIVMISRLRGGR 353
            +KM++FVK    +  T E   +   G +K +IA K G+  DQ  L+Y    L D + +  Y IQ  + + M+ RLRGG+
Sbjct:   16 FKMQIFVKTLTGKTITVETEPDDTVGQVKQKIADKEGVPVDQQRLIYAGKQLEDARTMADYNIQKESTLHMVLRLRGGK 94          
BLAST of SMED30001366 vs. Ensembl Sea Lamprey
Match: ENSPMAT00000006261.1 (pep scaffold:Pmarinus_7.0:GL477433:28222:29567:1 gene:ENSPMAG00000005664.1 transcript:ENSPMAT00000006261.1 gene_biotype:protein_coding transcript_biotype:protein_coding)

HSP 1 Score: 50.0618 bits (118), Expect = 1.781e-8
Identity = 30/74 (40.54%), Postives = 40/74 (54.05%), Query Frame = 3
Query:  132 VFVK-FKNQNFTFEVTSETLTGDLKNQIAQKTGMASDQIELMYNVVYLLDDKPLKKYEIQSNANIVMISRLRGG 350
            VFVK   N+  T EV        LK ++ QK G+A +Q  L +    L DD+ L+ Y IQ ++ I M  RLRGG
Sbjct:   78 VFVKTLANKTLTIEVKLSNSVLSLKQKVHQKAGIAVNQQILTFGSHTLEDDQKLESYGIQQHSTITMQGRLRGG 151          
BLAST of SMED30001366 vs. Ensembl Sea Lamprey
Match: ENSPMAT00000006254.1 (pep scaffold:Pmarinus_7.0:GL477433:3744:20801:-1 gene:ENSPMAG00000005642.1 transcript:ENSPMAT00000006254.1 gene_biotype:protein_coding transcript_biotype:protein_coding)

HSP 1 Score: 49.6766 bits (117), Expect = 6.819e-8
Identity = 30/74 (40.54%), Postives = 40/74 (54.05%), Query Frame = 3
Query:  132 VFVK-FKNQNFTFEVTSETLTGDLKNQIAQKTGMASDQIELMYNVVYLLDDKPLKKYEIQSNANIVMISRLRGG 350
            VFVK   N+  T EV        LK ++ QK G+A +Q  L +    L DD+ L+ Y IQ ++ I M  RLRGG
Sbjct:  154 VFVKTLANKTLTIEVKLSNSVLSLKQKVHQKAGIAVNQQILTFGSHTLEDDQKLESYGIQQHSTITMQGRLRGG 227          

HSP 2 Score: 49.6766 bits (117), Expect = 6.819e-8
Identity = 30/74 (40.54%), Postives = 40/74 (54.05%), Query Frame = 3
Query:  132 VFVK-FKNQNFTFEVTSETLTGDLKNQIAQKTGMASDQIELMYNVVYLLDDKPLKKYEIQSNANIVMISRLRGG 350
            VFVK   N+  T EV        LK ++ QK G+A +Q  L +    L DD+ L+ Y IQ ++ I M  RLRGG
Sbjct:  305 VFVKTLANKTLTIEVKLSNSVLSLKQKVHQKAGIAVNQQILTFGSHTLEDDQKLESYGIQQHSTITMQGRLRGG 378          
BLAST of SMED30001366 vs. Ensembl Yeast
Match: UBI4 (Ubiquitin; becomes conjugated to proteins, marking them for selective degradation via the ubiquitin-26S proteasome system; essential for the cellular stress response; encoded as a polyubiquitin precursor comprised of 5 head-to-tail repeats; protein abundance increases in response to DNA replication stress [Source:SGD;Acc:S000003962])

HSP 1 Score: 47.7506 bits (112), Expect = 1.928e-7
Identity = 27/82 (32.93%), Postives = 43/82 (52.44%), Query Frame = 3
Query:  108 LKFAYKMKVFVK-FKNQNFTFEVTSETLTGDLKNQIAQKTGMASDQIELMYNVVYLLDDKPLKKYEIQSNANIVMISRLRGG 350
            L+    M++FVK    +  T EV S     ++K++I  K G+  DQ  L++    L D + L  Y IQ  + + ++ RLRGG
Sbjct:  299 LRLRGGMQIFVKTLTGKTITLEVESSDTIDNVKSKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 380          
BLAST of SMED30001366 vs. Ensembl Nematostella
Match: EDO32547 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7SUP6])

HSP 1 Score: 45.0542 bits (105), Expect = 5.644e-6
Identity = 26/82 (31.71%), Postives = 41/82 (50.00%), Query Frame = 3
Query:  108 LKFAYKMKVFVK-FKNQNFTFEVTSETLTGDLKNQIAQKTGMASDQIELMYNVVYLLDDKPLKKYEIQSNANIVMISRLRGG 350
            L+    M++FVK    +  T EV       ++K +I  K G+  DQ  L++    L D + L  Y IQ  + + ++ RLRGG
Sbjct:  451 LRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 532          
BLAST of SMED30001366 vs. Planmine SMEST
Match: SMESG000014648.1 (SMESG000014648.1)

HSP 1 Score: 153.68 bits (387), Expect = 4.447e-49
Identity = 74/77 (96.10%), Postives = 76/77 (98.70%), Query Frame = 3
Query:  126 MKVFVKFKNQNFTFEVTSETLTGDLKNQIAQKTGMASDQIELMYNVVYLLDDKPLKKYEIQSNANIVMISRLRGGRV 356
            MKVFVKFKNQNFTFEVT ETLTGDLKNQIAQKTGMASDQIELMYNVVYLLDDKPL+KY+IQSNANIVMISRLRGGRV
Sbjct:    1 MKVFVKFKNQNFTFEVTGETLTGDLKNQIAQKTGMASDQIELMYNVVYLLDDKPLRKYDIQSNANIVMISRLRGGRV 77          
BLAST of SMED30001366 vs. Planmine SMEST
Match: SMESG000003398.1 (SMESG000003398.1)

HSP 1 Score: 114.775 bits (286), Expect = 1.031e-33
Identity = 54/77 (70.13%), Postives = 64/77 (83.12%), Query Frame = 3
Query:  126 MKVFVKFKNQNFTFEVTSETLTGDLKNQIAQKTGMASDQIELMYNVVYLLDDKPLKKYEIQSNANIVMISRLRGGRV 356
            MKV VKF +QNF FEVTS+T  GDLK QI QKTG+AS  I L YN +YLLDDKPL+KY+IQSN+N+VMIS+L+GG V
Sbjct:    1 MKVIVKFGDQNFAFEVTSDTSVGDLKKQITQKTGIASGDINLQYNAIYLLDDKPLQKYDIQSNSNLVMISKLQGGCV 77          
BLAST of SMED30001366 vs. Planmine SMEST
Match: SMESG000014651.1 (SMESG000014651.1)

HSP 1 Score: 109.383 bits (272), Expect = 1.442e-31
Identity = 53/77 (68.83%), Postives = 65/77 (84.42%), Query Frame = 3
Query:  126 MKVFVKFKNQNFTFEVTSETLTGDLKNQIAQKTGMASDQIELMYNVVYLLDDKPLKKYEIQSNANIVMISRLRGGRV 356
            MKVFV + +Q FTFEVTSETL GDLK QI QKTGMA + +EL++N VYLL+DK LKKY IQ+NAN+V+IS++ GGRV
Sbjct:    1 MKVFVTYNSQIFTFEVTSETLVGDLKKQIVQKTGMAIENLELLFNQVYLLNDKELKKYNIQNNANLVVISKVIGGRV 77          
BLAST of SMED30001366 vs. Planmine SMEST
Match: SMESG000063727.1 (SMESG000063727.1)

HSP 1 Score: 49.2914 bits (116), Expect = 3.901e-7
Identity = 29/76 (38.16%), Postives = 44/76 (57.89%), Query Frame = 3
Query:  126 MKVFVK-FKNQNFTFEVTSETLTGDLKNQIAQKTGMASDQIELMYNVVYLLDDKPLKKYEIQSNANIVMISRLRGG 350
            MK+F K    +   FEV +     D+K +I +K G+ASD+ +L+Y    L DDK +K Y I   + I +++RLR G
Sbjct:  169 MKIFAKTMDGKTVAFEVQNAEKIRDIKLKIQEKIGLASDEQKLVYQGGILQDDKTVKDYGIADRSVINVVTRLRCG 244          
The following BLAST results are available for this feature:
BLAST of SMED30001366 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 SMED30001366 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 SMED30001366 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 SMED30001366 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 SMED30001366 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 SMED30001366 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 SMED30001366 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 3
Match NameE-valueIdentityDescription
sp|Q05120|UBIL_NPVOP1.152e-636.84Ubiquitin-like protein OS=Orgyia pseudotsugata mul... [more]
sp|P69326|UBIQ_WHEAT4.775e-633.77Ubiquitin OS=Triticum aestivum OX=4565 PE=1 SV=2[more]
sp|P0CG83|UBIQP_HORVU8.500e-632.53Polyubiquitin (Fragment) OS=Hordeum vulgare OX=451... [more]
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BLAST of SMED30001366 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A2I7MM412.277e-740.26Ubiquitin-like protein OS=Spilosoma obliqua nucleo... [more]
Q2NP302.277e-740.26Ubiquitin OS=Hyphantria cunea nuclear polyhedrosis... [more]
A0A1L5JHG24.441e-638.16V-UBI OS=Plodia interpunctella granulovirus OX=262... [more]
B6D6568.679e-638.16Ubiquitin OS=Agrotis ipsilon multiple nucleopolyhe... [more]
S5MRE19.828e-635.44Ubiquitin-like protein OS=Choristoneura rosaceana ... [more]
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BLAST of SMED30001366 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 SMED30001366 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99)
Total hits: 2
Match NameE-valueIdentityDescription
ENSPMAT00000006261.11.781e-840.54pep scaffold:Pmarinus_7.0:GL477433:28222:29567:1 g... [more]
ENSPMAT00000006254.16.819e-840.54pep scaffold:Pmarinus_7.0:GL477433:3744:20801:-1 g... [more]
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BLAST of SMED30001366 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46)
Total hits: 1
Match NameE-valueIdentityDescription
UBI41.928e-732.93Ubiquitin; becomes conjugated to proteins, marking... [more]
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BLAST of SMED30001366 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 1
Match NameE-valueIdentityDescription
EDO325475.644e-631.71Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7... [more]
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BLAST of SMED30001366 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 SMED30001366 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 4
Match NameE-valueIdentityDescription
SMESG000014648.14.447e-4996.10SMESG000014648.1[more]
SMESG000003398.11.031e-3370.13SMESG000003398.1[more]
SMESG000014651.11.442e-3168.83SMESG000014651.1[more]
SMESG000063727.13.901e-738.16SMESG000063727.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30001366 ID=SMED30001366|Name=SMED30001366|organism=Schmidtea mediterranea sexual|type=transcript|length=538bp
AAATGATAAATTCAGTCTAAATATAGCTTGAGTTTTAATTGGTCATCTTT
GATCCTTGTCATTTTTAGCGATCTATTTGATTTAATTTACTGATATTACA
ATAATATTTGAAATTTGCTTATAAAATGAAAGTCTTTGTGAAATTTAAGA
ATCAAAATTTTACTTTCGAAGTTACTAGTGAAACTTTGACTGGTGATCTG
AAAAACCAAATCGCCCAGAAAACTGGAATGGCTAGTGACCAAATTGAGTT
GATGTACAATGTAGTTTATTTGTTGGACGATAAGCCACTGAAAAAATATG
AAATCCAAAGTAATGCTAATATCGTTATGATCAGTAGACTCAGAGGCGGA
CGTGTTTAATGGAGGACGGAAAATACGTTATTAACAAGCTTTGTTATTAA
ACGTTTAGAATAAAATTGTCTTTTCATTTAATAAAGTTCTATTTATGCCG
GAAAACCAAATTTCTAGAAAATCTCAAACCACACGCGATAAAATTTCACT
TAACATCAATATTTGCACTTTTAAATCAATAATTTCAC
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000016pharynx
PLANA:0000026gut
PLANA:0000034epidermis
PLANA:0002032epidermal cell
Vocabulary: INTERPRO
TermDefinition
IPR000626Ubiquitin-like_dom
IPR029071Ubiquitin-like_domsf
Vocabulary: molecular function
TermDefinition
GO:0005515protein binding
Vocabulary: biological process
TermDefinition
GO:0016032viral process
GO:0039648modulation by virus of host protein ubiquitination
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR000626Ubiquitin-like domainSMARTSM00213ubq_7coord: 1..71
e-value: 4.1E-9
score: 46.3
IPR000626Ubiquitin-like domainPFAMPF00240ubiquitincoord: 3..72
e-value: 8.6E-13
score: 47.9
IPR000626Ubiquitin-like domainPROSITEPS50053UBIQUITIN_2coord: 1..75
score: 16.146
NoneNo IPR availableGENE3DG3DSA:3.10.20.90coord: 1..75
e-value: 2.7E-15
score: 58.1
NoneNo IPR availableCDDcd17039Ubl_ubiquitin_likecoord: 3..69
e-value: 3.4691E-11
score: 51.0578
IPR029071Ubiquitin-like domain superfamilySUPERFAMILYSSF54236Ubiquitin-likecoord: 1..76