SMED30008674

Overview
NameSMED30008674
Smed IDSMED30008674
Length (bp)247
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 SMED30008674 (SMED30008674) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30008674 (SMED30008674) 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 SMED30008674 (SMED30008674) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for SMED30008674 (SMED30008674) 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




SMED30008674

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
X1 cellSMED30008674 SmedASXL_002418SmedAsxl_ww_GCZZ01PMID:26114597
Zhu et al., 2015
FACS sorted cell population asexual adult RNA-sequencing evidence
epidermisSMED30008674 dd_Smed_v4_2720_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neoblastSMED30008674 dd_Smed_v4_2720_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymal cellSMED30008674 dd_Smed_v4_2720_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
muscle cellSMED30008674 dd_Smed_v4_2720_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
SMED30008674 aligns in the following genomic locations:
Alignment LocationAlignment Score
v31.004777:33760..34131 -1088
Homology
BLAST of SMED30008674 vs. Ensembl Human
Match: POLR2K (RNA polymerase II subunit K [Source:HGNC Symbol;Acc:HGNC:9198])

HSP 1 Score: 66.2402 bits (160), Expect = 7.565e-16
Identity = 29/58 (50.00%), Postives = 41/58 (70.69%), Query Frame = -1
Query:   26 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLRLSVFEGR 199
            M+   + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT RL VF+ R
Sbjct:    1 MDTQKDVQPPKQQPMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTKRLVVFDAR 58          
BLAST of SMED30008674 vs. Ensembl Human
Match: POLR2K (RNA polymerase II subunit K [Source:HGNC Symbol;Acc:HGNC:9198])

HSP 1 Score: 57.3806 bits (137), Expect = 2.668e-12
Identity = 25/51 (49.02%), Postives = 36/51 (70.59%), Query Frame = -1
Query:   47 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 199
            M+   + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT R
Sbjct:    1 MDTQKDVQPPKQQPMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTKR 51          
BLAST of SMED30008674 vs. Ensembl Celegans
Match: rpb-12 (RNA Polymerase II (B) subunit [Source:UniProtKB/TrEMBL;Acc:X5M5N4])

HSP 1 Score: 59.6918 bits (143), Expect = 1.120e-13
Identity = 26/44 (59.09%), Postives = 34/44 (77.27%), Query Frame = -1
Query:   26 IIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLRLSVFEGR 157
            +IY+CGEC  + E+KPKD IRC ECG RIL+KKR  +L V++ R
Sbjct:   19 MIYICGECHAENEIKPKDAIRCRECGYRILYKKRCRKLMVYDAR 62          
BLAST of SMED30008674 vs. Ensembl Fly
Match: Rpb12 (gene:FBgn0262954 transcript:FBtr0112379)

HSP 1 Score: 65.4698 bits (158), Expect = 7.615e-16
Identity = 28/56 (50.00%), Postives = 40/56 (71.43%), Query Frame = -1
Query:   26 NSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLRLSVFEGR 193
            + + +K  V+  + Y+CGEC  + EM+P+D IRC ECG RI++KKRT RL VF+ R
Sbjct:    2 SETSSKDNVKTAMTYICGECHHENEMRPRDPIRCRECGYRIMYKKRTKRLVVFDAR 57          
BLAST of SMED30008674 vs. Ensembl Zebrafish
Match: polr2k (polymerase (RNA) II (DNA directed) polypeptide K [Source:ZFIN;Acc:ZDB-GENE-070820-18])

HSP 1 Score: 65.855 bits (159), Expect = 6.259e-16
Identity = 29/58 (50.00%), Postives = 42/58 (72.41%), Query Frame = -1
Query:   26 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLRLSVFEGR 199
            M++  + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT RL VF+ R
Sbjct:    1 MDSQKDIQPPKQQPMIYICGECHTENEIKARDPIRCRECGYRIMYKKRTKRLVVFDAR 58          
BLAST of SMED30008674 vs. Ensembl Xenopus
Match: polr2k (polymerase (RNA) II subunit K [Source:NCBI gene;Acc:549263])

HSP 1 Score: 66.6254 bits (161), Expect = 4.426e-16
Identity = 30/58 (51.72%), Postives = 40/58 (68.97%), Query Frame = -1
Query:   26 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLRLSVFEGR 199
            M    +A    Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT RL VF+ R
Sbjct:    1 MEGQKDAPPPKQQPMIYICGECHTENEIKARDPIRCRECGYRIMYKKRTKRLVVFDAR 58          
BLAST of SMED30008674 vs. Ensembl Xenopus
Match: polr2k (polymerase (RNA) II subunit K [Source:NCBI gene;Acc:549263])

HSP 1 Score: 60.077 bits (144), Expect = 2.418e-13
Identity = 27/55 (49.09%), Postives = 37/55 (67.27%), Query Frame = -1
Query:   35 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLRLSVF 199
            M    +A    Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT R  +F
Sbjct:    1 MEGQKDAPPPKQQPMIYICGECHTENEIKARDPIRCRECGYRIMYKKRTKRCILF 55          
BLAST of SMED30008674 vs. Ensembl Mouse
Match: Polr2k (polymerase (RNA) II (DNA directed) polypeptide K [Source:MGI Symbol;Acc:MGI:102725])

HSP 1 Score: 68.5514 bits (166), Expect = 1.551e-16
Identity = 30/60 (50.00%), Postives = 42/60 (70.00%), Query Frame = -1
Query:   26 LNMNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLRLSVFEGR 205
            L M+   + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT RL VF+ R
Sbjct:   40 LTMDAQKDVQPPKQQPMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTKRLVVFDAR 99          
BLAST of SMED30008674 vs. Ensembl Mouse
Match: Polr2k (polymerase (RNA) II (DNA directed) polypeptide K [Source:MGI Symbol;Acc:MGI:102725])

HSP 1 Score: 65.855 bits (159), Expect = 8.047e-16
Identity = 29/58 (50.00%), Postives = 41/58 (70.69%), Query Frame = -1
Query:   26 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLRLSVFEGR 199
            M+   + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT RL VF+ R
Sbjct:    1 MDAQKDVQPPKQQPMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTKRLVVFDAR 58          
BLAST of SMED30008674 vs. UniProt/SwissProt
Match: sp|P53803|RPAB4_HUMAN (DNA-directed RNA polymerases I, II, and III subunit RPABC4 OS=Homo sapiens OX=9606 GN=POLR2K PE=1 SV=1)

HSP 1 Score: 66.2402 bits (160), Expect = 3.633e-15
Identity = 29/58 (50.00%), Postives = 41/58 (70.69%), Query Frame = -1
Query:   26 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLRLSVFEGR 199
            M+   + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT RL VF+ R
Sbjct:    1 MDTQKDVQPPKQQPMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTKRLVVFDAR 58          
BLAST of SMED30008674 vs. UniProt/SwissProt
Match: sp|Q3ZBC0|RPAB4_BOVIN (DNA-directed RNA polymerases I, II, and III subunit RPABC4 OS=Bos taurus OX=9913 GN=POLR2K PE=1 SV=1)

HSP 1 Score: 66.2402 bits (160), Expect = 3.633e-15
Identity = 29/58 (50.00%), Postives = 41/58 (70.69%), Query Frame = -1
Query:   26 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLRLSVFEGR 199
            M+   + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT RL VF+ R
Sbjct:    1 MDTQKDVQPPKQQPMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTKRLVVFDAR 58          
BLAST of SMED30008674 vs. UniProt/SwissProt
Match: sp|Q63871|RPAB4_MOUSE (DNA-directed RNA polymerases I, II, and III subunit RPABC4 OS=Mus musculus OX=10090 GN=Polr2k PE=3 SV=2)

HSP 1 Score: 65.855 bits (159), Expect = 5.629e-15
Identity = 29/58 (50.00%), Postives = 41/58 (70.69%), Query Frame = -1
Query:   26 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLRLSVFEGR 199
            M+   + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT RL VF+ R
Sbjct:    1 MDAQKDVQPPKQQPMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTKRLVVFDAR 58          
BLAST of SMED30008674 vs. UniProt/SwissProt
Match: sp|Q9FLM8|NRPBC_ARATH (DNA-directed RNA polymerases II, IV and V subunit 12 OS=Arabidopsis thaliana OX=3702 GN=NRPB12 PE=1 SV=1)

HSP 1 Score: 54.299 bits (129), Expect = 1.432e-10
Identity = 23/46 (50.00%), Postives = 34/46 (73.91%), Query Frame = -1
Query:   26 KPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLRLSVFEGR 163
            +P+ YVCG+C ++  +K  D+I+C ECG RIL+KKRT R+  +E R
Sbjct:    6 EPVTYVCGDCGQENTLKSGDVIQCRECGYRILYKKRTRRVVQYEAR 51          
BLAST of SMED30008674 vs. UniProt/SwissProt
Match: sp|Q54R66|RPAB4_DICDI (DNA-directed RNA polymerases I, II, and III subunit rpabc4 OS=Dictyostelium discoideum OX=44689 GN=polr2k PE=3 SV=1)

HSP 1 Score: 51.6026 bits (122), Expect = 1.811e-9
Identity = 21/45 (46.67%), Postives = 33/45 (73.33%), Query Frame = -1
Query:   26 PIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLRLSVFEGR 160
            P +Y+CGEC  + E+KPK+ ++C +C  RI++KKRT ++  FE R
Sbjct:    2 PCLYICGECGAEHEIKPKEPVKCKDCTHRIMYKKRTDKMIQFEAR 46          
BLAST of SMED30008674 vs. TrEMBL
Match: A0A182ILE8 (Uncharacterized protein OS=Anopheles atroparvus OX=41427 PE=4 SV=1)

HSP 1 Score: 73.559 bits (179), Expect = 1.490e-15
Identity = 33/58 (56.90%), Postives = 42/58 (72.41%), Query Frame = -1
Query:   26 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLRLSVFEGR 199
            M+  S    V++ P+IYVCGEC  + EM+PKD IRC ECG RI++KKRT RL VF+ R
Sbjct:    1 MSEPSSKDTVLKTPMIYVCGECHHENEMRPKDAIRCRECGYRIMYKKRTKRLIVFDAR 58          
BLAST of SMED30008674 vs. TrEMBL
Match: B7QL52 (RNA polymerases I, II and III shared polypeptide, putative OS=Ixodes scapularis OX=6945 GN=8042911 PE=4 SV=1)

HSP 1 Score: 71.2478 bits (173), Expect = 1.039e-14
Identity = 31/57 (54.39%), Postives = 42/57 (73.68%), Query Frame = -1
Query:   26 NNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLRLSVFEGR 196
              S E  Q V+ P+IY+CGEC ++ E++P+D IRC ECG RI++KKRT RL VF+ R
Sbjct:    3 GTSKEQTQTVKAPMIYICGECHQENEIRPRDPIRCRECGYRIMYKKRTKRLIVFDAR 59          
BLAST of SMED30008674 vs. TrEMBL
Match: A0A3S3SI52 (RNA polymerases I: II and III shared polypeptide-like protein OS=Dinothrombium tinctorium OX=1965070 GN=B4U79_13312 PE=4 SV=1)

HSP 1 Score: 70.0922 bits (170), Expect = 3.140e-14
Identity = 31/59 (52.54%), Postives = 47/59 (79.66%), Query Frame = -1
Query:   26 MNNSSEAKQV-VQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLRLSVFEGR 199
            M++SS+ +Q+ V++P++Y+C EC  + E+KP+D IRC ECG RI++KKRT RL VF+ R
Sbjct:    1 MDSSSKEQQIPVKQPMVYICAECHHENEIKPRDPIRCRECGYRIMYKKRTKRLIVFDAR 59          
BLAST of SMED30008674 vs. TrEMBL
Match: A0A3Q7WLP4 (DNA-directed RNA polymerases I, II, and III subunit RPABC4 isoform X1 OS=Ursus arctos horribilis OX=116960 GN=POLR2K PE=4 SV=1)

HSP 1 Score: 70.8626 bits (172), Expect = 3.236e-14
Identity = 31/62 (50.00%), Postives = 44/62 (70.97%), Query Frame = -1
Query:   26 YFLNMNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLRLSVFEGR 211
            Y L+M+   + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT RL VF+ R
Sbjct:   28 YGLSMDTQKDVQPPKQQPMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTKRLVVFDAR 89          
BLAST of SMED30008674 vs. TrEMBL
Match: H9GQ41 (RNA polymerase II subunit K OS=Anolis carolinensis OX=28377 GN=POLR2K PE=4 SV=2)

HSP 1 Score: 70.0922 bits (170), Expect = 3.495e-14
Identity = 31/58 (53.45%), Postives = 43/58 (74.14%), Query Frame = -1
Query:   26 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLRLSVFEGR 199
            M+  ++A    Q+P+IY+CGEC K+ E+K +D IRC ECG RI++KKRT RL VF+ R
Sbjct:    1 MDTQNDAPPPKQQPMIYICGECHKENEIKARDPIRCRECGYRIMYKKRTKRLVVFDAR 58          
BLAST of SMED30008674 vs. Ensembl Cavefish
Match: ENSAMXT00000035759.1 (RNA polymerase II subunit K [Source:NCBI gene;Acc:103021424])

HSP 1 Score: 65.4698 bits (158), Expect = 7.366e-16
Identity = 29/58 (50.00%), Postives = 41/58 (70.69%), Query Frame = -1
Query:   26 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLRLSVFEGR 199
            M+   + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT RL VF+ R
Sbjct:    1 MDPQKDMQPPKQQPMIYICGECHTENEIKARDPIRCRECGYRIMYKKRTKRLVVFDAR 58          
BLAST of SMED30008674 vs. Ensembl Cavefish
Match: ENSAMXT00000039128.1 (RNA polymerase II subunit K [Source:NCBI gene;Acc:103021424])

HSP 1 Score: 55.0694 bits (131), Expect = 3.170e-11
Identity = 25/51 (49.02%), Postives = 36/51 (70.59%), Query Frame = -1
Query:   47 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 199
            M+   + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT R
Sbjct:    1 MDPQKDMQPPKQQPMIYICGECHTENEIKARDPIRCRECGYRIMYKKRTKR 51          
BLAST of SMED30008674 vs. Ensembl Cavefish
Match: ENSAMXT00000035248.1 (RNA polymerase II subunit K [Source:NCBI gene;Acc:103021424])

HSP 1 Score: 55.0694 bits (131), Expect = 3.170e-11
Identity = 25/51 (49.02%), Postives = 36/51 (70.59%), Query Frame = -1
Query:   47 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 199
            M+   + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT R
Sbjct:    1 MDPQKDMQPPKQQPMIYICGECHTENEIKARDPIRCRECGYRIMYKKRTKR 51          
BLAST of SMED30008674 vs. Ensembl Cavefish
Match: ENSAMXT00000039750.1 (pep primary_assembly:Astyanax_mexicanus-2.0:APWO02001230.1:25832:28142:-1 gene:ENSAMXG00000038868.1 transcript:ENSAMXT00000039750.1 gene_biotype:protein_coding transcript_biotype:protein_coding)

HSP 1 Score: 42.743 bits (99), Expect = 7.616e-7
Identity = 24/60 (40.00%), Postives = 35/60 (58.33%), Query Frame = -1
Query:   26 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLRLS--VFEGR 199
            M+   + +   Q+P+IY+CG       +  +  IRC ECG RI++KKRT  LS  VF+ R
Sbjct:    1 MDPQKDMQPPKQQPMIYICGG-----NLTNQRPIRCRECGYRIMYKKRTRDLSVVVFDAR 55          
BLAST of SMED30008674 vs. Ensembl Yeast
Match: RPC10 (RNA polymerase subunit ABC10-alpha, found in RNA pol I, II, and III; relocalizes from nucleolus to cytoplasm upon DNA replication stress [Source:SGD;Acc:S000001185])

HSP 1 Score: 49.6766 bits (117), Expect = 2.426e-10
Identity = 23/66 (34.85%), Postives = 34/66 (51.52%), Query Frame = -1
Query:   26 NFKYFLNMNNSSEA-KQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLRLSVFEGR 220
             F+   N++ ++    Q     + Y+C EC   + +   D +RC +CG RIL K RT RL  FE R
Sbjct:    5 GFQIPTNLDAAAAGTSQARTATLKYICAECSSKLSLSRTDAVRCKDCGHRILLKARTKRLVQFEAR 70          
BLAST of SMED30008674 vs. Ensembl Nematostella
Match: EDO32620 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7SUK1])

HSP 1 Score: 52.7582 bits (125), Expect = 3.510e-11
Identity = 23/40 (57.50%), Postives = 30/40 (75.00%), Query Frame = -1
Query:   47 QKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 166
            Q  +IY+CGEC  + E+K +D IRC ECG RI++KKRT R
Sbjct:   14 QHAMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTRR 53          
BLAST of SMED30008674 vs. Ensembl Medaka
Match: ENSORLT00000003472.2 (pep primary_assembly:ASM223467v1:11:7021459:7022964:1 gene:ENSORLG00000002783.2 transcript:ENSORLT00000003472.2 gene_biotype:protein_coding transcript_biotype:protein_coding)

HSP 1 Score: 55.8398 bits (133), Expect = 5.118e-12
Identity = 25/51 (49.02%), Postives = 36/51 (70.59%), Query Frame = -1
Query:   47 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 199
            M+   + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT R
Sbjct:    1 MDAQKDLQPPKQQPMIYICGECHTENEIKARDPIRCRECGYRIMYKKRTKR 51          
The following BLAST results are available for this feature:
BLAST of SMED30008674 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 2
Match NameE-valueIdentityDescription
POLR2K7.565e-1650.00RNA polymerase II subunit K [Source:HGNC Symbol;Ac... [more]
POLR2K2.668e-1249.02RNA polymerase II subunit K [Source:HGNC Symbol;Ac... [more]
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BLAST of SMED30008674 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 1
Match NameE-valueIdentityDescription
rpb-121.120e-1359.09RNA Polymerase II (B) subunit [Source:UniProtKB/T... [more]
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BLAST of SMED30008674 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99)
Total hits: 1
Match NameE-valueIdentityDescription
Rpb127.615e-1650.00gene:FBgn0262954 transcript:FBtr0112379[more]
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BLAST of SMED30008674 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 1
Match NameE-valueIdentityDescription
polr2k6.259e-1650.00polymerase (RNA) II (DNA directed) polypeptide K [... [more]
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BLAST of SMED30008674 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 2
Match NameE-valueIdentityDescription
polr2k4.426e-1651.72polymerase (RNA) II subunit K [Source:NCBI gene;Ac... [more]
polr2k2.418e-1349.09polymerase (RNA) II subunit K [Source:NCBI gene;Ac... [more]
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BLAST of SMED30008674 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 2
Match NameE-valueIdentityDescription
Polr2k1.551e-1650.00polymerase (RNA) II (DNA directed) polypeptide K [... [more]
Polr2k8.047e-1650.00polymerase (RNA) II (DNA directed) polypeptide K [... [more]
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BLAST of SMED30008674 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 5
Match NameE-valueIdentityDescription
sp|P53803|RPAB4_HUMAN3.633e-1550.00DNA-directed RNA polymerases I, II, and III subuni... [more]
sp|Q3ZBC0|RPAB4_BOVIN3.633e-1550.00DNA-directed RNA polymerases I, II, and III subuni... [more]
sp|Q63871|RPAB4_MOUSE5.629e-1550.00DNA-directed RNA polymerases I, II, and III subuni... [more]
sp|Q9FLM8|NRPBC_ARATH1.432e-1050.00DNA-directed RNA polymerases II, IV and V subunit ... [more]
sp|Q54R66|RPAB4_DICDI1.811e-946.67DNA-directed RNA polymerases I, II, and III subuni... [more]
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BLAST of SMED30008674 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A182ILE81.490e-1556.90Uncharacterized protein OS=Anopheles atroparvus OX... [more]
B7QL521.039e-1454.39RNA polymerases I, II and III shared polypeptide, ... [more]
A0A3S3SI523.140e-1452.54RNA polymerases I: II and III shared polypeptide-l... [more]
A0A3Q7WLP43.236e-1450.00DNA-directed RNA polymerases I, II, and III subuni... [more]
H9GQ413.495e-1453.45RNA polymerase II subunit K OS=Anolis carolinensis... [more]
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BLAST of SMED30008674 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 4
Match NameE-valueIdentityDescription
ENSAMXT00000035759.17.366e-1650.00RNA polymerase II subunit K [Source:NCBI gene;Acc:... [more]
ENSAMXT00000039128.13.170e-1149.02RNA polymerase II subunit K [Source:NCBI gene;Acc:... [more]
ENSAMXT00000035248.13.170e-1149.02RNA polymerase II subunit K [Source:NCBI gene;Acc:... [more]
ENSAMXT00000039750.17.616e-740.00pep primary_assembly:Astyanax_mexicanus-2.0:APWO02... [more]
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BLAST of SMED30008674 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 SMED30008674 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46)
Total hits: 1
Match NameE-valueIdentityDescription
RPC102.426e-1034.85RNA polymerase subunit ABC10-alpha, found in RNA p... [more]
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BLAST of SMED30008674 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 1
Match NameE-valueIdentityDescription
EDO326203.510e-1157.50Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7... [more]
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BLAST of SMED30008674 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 1
Match NameE-valueIdentityDescription
ENSORLT00000003472.25.118e-1249.02pep primary_assembly:ASM223467v1:11:7021459:702296... [more]
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BLAST of SMED30008674 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 0
Match NameE-valueIdentityDescription
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30008674 ID=SMED30008674|Name=SMED30008674|organism=Schmidtea mediterranea sexual|type=transcript|length=247bp
CACAAATTTATTTAACAACACTTCAACGACCTTCAAAAACACTAAGTCTC
AATGTTCGTTTTTTAAATAAAATTCTACATCCACATTCACTACATCTTAT
AATGTCTTTAGGCTTCATTTCGATATCTTTTCTACATTCTCCACAAACAT
AAATTATAGGCTTTTGAACAACTTGTTTTGCTTCAGACGAATTATTCATA
TTTAAAAAATATTTGAAATTGTTCAAAATCCTCGTGCCGAATTCCTG
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000101muscle cell
PLANA:0000429neoblast
PLANA:0002109X1 cell
PLANA:0003001lateral region of the whole animal
Vocabulary: INTERPRO
TermDefinition
IPR039747RPABC4
IPR006591RNAP_P/RPABC4
IPR029040RPABC4/Spt4
Vocabulary: molecular function
TermDefinition
GO:0008270zinc ion binding
GO:0003677DNA binding
GO:0003899DNA-directed 5'-3' RNA polymerase activity
Vocabulary: biological process
TermDefinition
GO:0006351transcription, DNA-templated
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR006591RNA polymerase archaeal subunit P/eukaryotic subunit RPABC4SMARTSM00659rpolcxc3coord: 25..68
e-value: 9.6E-15
score: 65.0
IPR006591RNA polymerase archaeal subunit P/eukaryotic subunit RPABC4PFAMPF03604DNA_RNApol_7kDcoord: 27..58
e-value: 2.1E-13
score: 49.7
NoneNo IPR availableGENE3DG3DSA:2.20.28.30coord: 11..68
e-value: 4.9E-21
score: 75.8
NoneNo IPR availablePRODOMPD012151coord: 31..68
e-value: 6.0E-7
score: 122.0
IPR039747DNA-directed RNA polymerases I, II, and III subunit RPABC4PANTHERPTHR12056DNA-DIRECTED RNA POLYMERASES I, II, AND IIIcoord: 11..67
IPR029040RNA polymerase subunit RPABC4/transcription elongation factor Spt4SUPERFAMILYSSF63393RNA polymerase subunitscoord: 24..67