DNA-directed RNA polymerases I, II, and III subunit RPABC4

Overview
NameDNA-directed RNA polymerases I, II, and III subunit RPABC4
Smed IDSMED30001327
Length (bp)328
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 DNA-directed RNA polymerases I, II, and III subunit RPABC4 (SMED30001327) t-SNE clustered cells

Violin plots show distribution of expression levels for DNA-directed RNA polymerases I, II, and III subunit RPABC4 (SMED30001327) 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 DNA-directed RNA polymerases I, II, and III subunit RPABC4 (SMED30001327) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for DNA-directed RNA polymerases I, II, and III subunit RPABC4 (SMED30001327) 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



SMED30001327

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 cellSMED30001327 SmedASXL_002418SmedAsxl_ww_GCZZ01PMID:26114597
Zhu et al., 2015		FACS sorted cell population asexual adult RNA-sequencing evidence
epidermisSMED30001327 dd_Smed_v4_2720_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neoblastSMED30001327 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 cellSMED30001327 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 cellSMED30001327 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
Homology
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. Ensembl Human
Match: POLR2K (RNA polymerase II subunit K [Source:HGNC Symbol;Acc:HGNC:9198])

HSP 1 Score: 56.9954 bits (136), Expect = 7.618e-12
Identity = 25/51 (49.02%), Postives = 36/51 (70.59%), Query Frame = 3 
Query:   75 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 227
            M+   + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT R
Sbjct:    1 MDTQKDVQPPKQQPMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTKR 51
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. Ensembl Human
Match: POLR2K (RNA polymerase II subunit K [Source:HGNC Symbol;Acc:HGNC:9198])

HSP 1 Score: 56.9954 bits (136), Expect = 1.160e-11
Identity = 25/51 (49.02%), Postives = 36/51 (70.59%), Query Frame = 3 
Query:   75 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 227
            M+   + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT R
Sbjct:    1 MDTQKDVQPPKQQPMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTKR 51
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. Ensembl Celegans
Match: rpb-12 (RNA Polymerase II (B) subunit [Source:UniProtKB/TrEMBL;Acc:X5M5N4])

HSP 1 Score: 52.373 bits (124), Expect = 1.950e-10
Identity = 23/40 (57.50%), Postives = 29/40 (72.50%), Query Frame = 3 
Query:   99 QVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKR 218
             +    +IY+CGEC  + E+KPKD IRC ECG RIL+KKR
Sbjct:   13 HLKSNSMIYICGECHAENEIKPKDAIRCRECGYRILYKKR 52
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. Ensembl Fly
Match: Rpb12 (gene:FBgn0262954 transcript:FBtr0112379)

HSP 1 Score: 56.9954 bits (136), Expect = 4.151e-12
Identity = 24/49 (48.98%), Postives = 35/49 (71.43%), Query Frame = 3 
Query:   81 NSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 227
            + + +K  V+  + Y+CGEC  + EM+P+D IRC ECG RI++KKRT R
Sbjct:    2 SETSSKDNVKTAMTYICGECHHENEMRPRDPIRCRECGYRIMYKKRTKR 50
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. Ensembl Zebrafish
Match: polr2k (polymerase (RNA) II (DNA directed) polypeptide K [Source:ZFIN;Acc:ZDB-GENE-070820-18])

HSP 1 Score: 56.6102 bits (135), Expect = 6.428e-12
Identity = 25/51 (49.02%), Postives = 37/51 (72.55%), Query Frame = 3 
Query:   75 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 227
            M++  + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT R
Sbjct:    1 MDSQKDIQPPKQQPMIYICGECHTENEIKARDPIRCRECGYRIMYKKRTKR 51
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. Ensembl Xenopus
Match: polr2k (polymerase (RNA) II subunit K [Source:NCBI gene;Acc:549263])

HSP 1 Score: 57.7658 bits (138), Expect = 3.882e-12
Identity = 26/51 (50.98%), Postives = 35/51 (68.63%), Query Frame = 3 
Query:   75 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 227
            M    +A    Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT R
Sbjct:    1 MEGQKDAPPPKQQPMIYICGECHTENEIKARDPIRCRECGYRIMYKKRTKR 51
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. Ensembl Xenopus
Match: polr2k (polymerase (RNA) II subunit K [Source:NCBI gene;Acc:549263])

HSP 1 Score: 56.9954 bits (136), Expect = 7.945e-12
Identity = 26/51 (50.98%), Postives = 35/51 (68.63%), Query Frame = 3 
Query:   75 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 227
            M    +A    Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT R
Sbjct:    1 MEGQKDAPPPKQQPMIYICGECHTENEIKARDPIRCRECGYRIMYKKRTKR 51
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. Ensembl Mouse
Match: Polr2k (polymerase (RNA) II (DNA directed) polypeptide K [Source:MGI Symbol;Acc:MGI:102725])

HSP 1 Score: 56.6102 bits (135), Expect = 8.435e-12
Identity = 25/51 (49.02%), Postives = 36/51 (70.59%), Query Frame = 3 
Query:   75 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 227
            M+   + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT R
Sbjct:    1 MDAQKDVQPPKQQPMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTKR 51
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. Ensembl Mouse
Match: Polr2k (polymerase (RNA) II (DNA directed) polypeptide K [Source:MGI Symbol;Acc:MGI:102725])

HSP 1 Score: 57.3806 bits (137), Expect = 1.146e-11
Identity = 25/51 (49.02%), Postives = 36/51 (70.59%), Query Frame = 3 
Query:   75 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 227
            M+   + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT R
Sbjct:   42 MDAQKDVQPPKQQPMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTKR 92
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 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: 56.9954 bits (136), Expect = 3.658e-11
Identity = 25/51 (49.02%), Postives = 36/51 (70.59%), Query Frame = 3 
Query:   75 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 227
            M+   + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT R
Sbjct:    1 MDTQKDVQPPKQQPMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTKR 51
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 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: 56.9954 bits (136), Expect = 3.658e-11
Identity = 25/51 (49.02%), Postives = 36/51 (70.59%), Query Frame = 3 
Query:   75 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 227
            M+   + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT R
Sbjct:    1 MDTQKDVQPPKQQPMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTKR 51
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 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: 56.6102 bits (135), Expect = 5.900e-11
Identity = 25/51 (49.02%), Postives = 36/51 (70.59%), Query Frame = 3 
Query:   75 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 227
            M+   + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT R
Sbjct:    1 MDAQKDVQPPKQQPMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTKR 51
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 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: 49.6766 bits (117), Expect = 2.410e-8
Identity = 21/39 (53.85%), Postives = 30/39 (76.92%), Query Frame = 3 
Query:  111 KPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 227
            +P+ YVCG+C ++  +K  D+I+C ECG RIL+KKRT R
Sbjct:    6 EPVTYVCGDCGQENTLKSGDVIQCRECGYRILYKKRTRR 44
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 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: 44.2838 bits (103), Expect = 2.409e-6
Identity = 18/36 (50.00%), Postives = 28/36 (77.78%), Query Frame = 3 
Query:  114 PIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRT 221
            P +Y+CGEC  + E+KPK+ ++C +C  RI++KKRT
Sbjct:    2 PCLYICGECGAEHEIKPKEPVKCKDCTHRIMYKKRT 37
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. TrEMBL
Match: A0A182ILE8 (Uncharacterized protein OS=Anopheles atroparvus OX=41427 PE=4 SV=1)

HSP 1 Score: 64.6994 bits (156), Expect = 1.036e-11
Identity = 29/51 (56.86%), Postives = 37/51 (72.55%), Query Frame = 3 
Query:   75 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 227
            M+  S    V++ P+IYVCGEC  + EM+PKD IRC ECG RI++KKRT R
Sbjct:    1 MSEPSSKDTVLKTPMIYVCGECHHENEMRPKDAIRCRECGYRIMYKKRTKR 51
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 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: 62.7734 bits (151), Expect = 6.195e-11
Identity = 27/50 (54.00%), Postives = 37/50 (74.00%), Query Frame = 3 
Query:   78 NNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 227
              S E  Q V+ P+IY+CGEC ++ E++P+D IRC ECG RI++KKRT R
Sbjct:    3 GTSKEQTQTVKAPMIYICGECHQENEIRPRDPIRCRECGYRIMYKKRTKR 52
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. TrEMBL
Match: A0A085N0I7 (Uncharacterized protein OS=Trichuris suis OX=68888 GN=M513_03607 PE=4 SV=1)

HSP 1 Score: 62.003 bits (149), Expect = 2.436e-10
Identity = 28/54 (51.85%), Postives = 39/54 (72.22%), Query Frame = 3 
Query:   78 NNSSEAKQVVQKP--IIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLRRM 233
            N S++ +   QKP  ++YVCG+C  + E++PKD IRC ECG R+L+KKRT R M
Sbjct:   27 NTSTQQQATPQKPPPMVYVCGDCAYENEIRPKDAIRCRECGYRVLYKKRTRREM 80
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. TrEMBL
Match: A0A195CU98 (DNA-directed RNA polymerases I, II, and III subunit RPABC4 OS=Cyphomyrmex costatus OX=456900 GN=ALC62_05022 PE=4 SV=1)

HSP 1 Score: 61.6178 bits (148), Expect = 2.525e-10
Identity = 26/50 (52.00%), Postives = 38/50 (76.00%), Query Frame = 3 
Query:   84 SSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLRRM 233
            SS+++   ++ ++Y+CGEC  D E++ KD IRC ECG RI++KKRT RRM
Sbjct:    3 SSKSESTPKQAMVYICGECHHDNEIRAKDAIRCRECGYRIMYKKRTKRRM 52
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 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: 61.2326 bits (147), Expect = 2.607e-10
Identity = 27/52 (51.92%), Postives = 42/52 (80.77%), Query Frame = 3 
Query:   75 MNNSSEAKQV-VQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 227
            M++SS+ +Q+ V++P++Y+C EC  + E+KP+D IRC ECG RI++KKRT R
Sbjct:    1 MDSSSKEQQIPVKQPMVYICAECHHENEIKPRDPIRCRECGYRIMYKKRTKR 52
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. Ensembl Cavefish
Match: ENSAMXT00000035759.1 (RNA polymerase II subunit K [Source:NCBI gene;Acc:103021424])

HSP 1 Score: 56.225 bits (134), Expect = 8.321e-12
Identity = 25/51 (49.02%), Postives = 36/51 (70.59%), Query Frame = 3 
Query:   75 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 227
            M+   + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT R
Sbjct:    1 MDPQKDMQPPKQQPMIYICGECHTENEIKARDPIRCRECGYRIMYKKRTKR 51
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. Ensembl Cavefish
Match: ENSAMXT00000039128.1 (RNA polymerase II subunit K [Source:NCBI gene;Acc:103021424])

HSP 1 Score: 54.6842 bits (130), Expect = 1.191e-10
Identity = 25/51 (49.02%), Postives = 36/51 (70.59%), Query Frame = 3 
Query:   75 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 227
            M+   + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT R
Sbjct:    1 MDPQKDMQPPKQQPMIYICGECHTENEIKARDPIRCRECGYRIMYKKRTKR 51
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. Ensembl Cavefish
Match: ENSAMXT00000035248.1 (RNA polymerase II subunit K [Source:NCBI gene;Acc:103021424])

HSP 1 Score: 54.6842 bits (130), Expect = 1.191e-10
Identity = 25/51 (49.02%), Postives = 36/51 (70.59%), Query Frame = 3 
Query:   75 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 227
            M+   + +   Q+P+IY+CGEC  + E+K +D IRC ECG RI++KKRT R
Sbjct:    1 MDPQKDMQPPKQQPMIYICGECHTENEIKARDPIRCRECGYRIMYKKRTKR 51
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 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: 40.817 bits (94), Expect = 1.340e-6
Identity = 19/49 (38.78%), Postives = 27/49 (55.10%), Query Frame = 3 
Query:   81 NSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 227
             +S+A+    K   Y+C EC   + +   D +RC +CG RIL K RT R
Sbjct:   18 GTSQARTATLK---YICAECSSKLSLSRTDAVRCKDCGHRILLKARTKR 63
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. Ensembl Nematostella
Match: EDO32620 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7SUK1])

HSP 1 Score: 52.373 bits (124), Expect = 9.703e-11
Identity = 23/40 (57.50%), Postives = 30/40 (75.00%), Query Frame = 3 
Query:  108 QKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 227
            Q  +IY+CGEC  + E+K +D IRC ECG RI++KKRT R
Sbjct:   14 QHAMIYICGECHTENEIKSRDPIRCRECGYRIMYKKRTRR 53
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 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: 55.4546 bits (132), Expect = 1.776e-11
Identity = 25/51 (49.02%), Postives = 36/51 (70.59%), Query Frame = 3 
Query:   75 MNNSSEAKQVVQKPIIYVCGECRKDIEMKPKDIIRCSECGCRILFKKRTLR 227
            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 DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 2
Match NameE-valueIdentityDescription
POLR2K7.618e-1249.02RNA polymerase II subunit K [Source:HGNC Symbol;Ac... [more]
POLR2K1.160e-1149.02RNA polymerase II subunit K [Source:HGNC Symbol;Ac... [more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 1
Match NameE-valueIdentityDescription
rpb-121.950e-1057.50RNA Polymerase II (B) subunit [Source:UniProtKB/T... [more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99)
Total hits: 1
Match NameE-valueIdentityDescription
Rpb124.151e-1248.98gene:FBgn0262954 transcript:FBtr0112379[more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 1
Match NameE-valueIdentityDescription
polr2k6.428e-1249.02polymerase (RNA) II (DNA directed) polypeptide K [... [more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 2
Match NameE-valueIdentityDescription
polr2k3.882e-1250.98polymerase (RNA) II subunit K [Source:NCBI gene;Ac... [more]
polr2k7.945e-1250.98polymerase (RNA) II subunit K [Source:NCBI gene;Ac... [more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 2
Match NameE-valueIdentityDescription
Polr2k8.435e-1249.02polymerase (RNA) II (DNA directed) polypeptide K [... [more]
Polr2k1.146e-1149.02polymerase (RNA) II (DNA directed) polypeptide K [... [more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 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_HUMAN3.658e-1149.02DNA-directed RNA polymerases I, II, and III subuni... [more]
sp|Q3ZBC0|RPAB4_BOVIN3.658e-1149.02DNA-directed RNA polymerases I, II, and III subuni... [more]
sp|Q63871|RPAB4_MOUSE5.900e-1149.02DNA-directed RNA polymerases I, II, and III subuni... [more]
sp|Q9FLM8|NRPBC_ARATH2.410e-853.85DNA-directed RNA polymerases II, IV and V subunit ... [more]
sp|Q54R66|RPAB4_DICDI2.409e-650.00DNA-directed RNA polymerases I, II, and III subuni... [more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A182ILE81.036e-1156.86Uncharacterized protein OS=Anopheles atroparvus OX... [more]
B7QL526.195e-1154.00RNA polymerases I, II and III shared polypeptide, ... [more]
A0A085N0I72.436e-1051.85Uncharacterized protein OS=Trichuris suis OX=68888... [more]
A0A195CU982.525e-1052.00DNA-directed RNA polymerases I, II, and III subuni... [more]
A0A3S3SI522.607e-1051.92RNA polymerases I: II and III shared polypeptide-l... [more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 3
Match NameE-valueIdentityDescription
ENSAMXT00000035759.18.321e-1249.02RNA polymerase II subunit K [Source:NCBI gene;Acc:... [more]
ENSAMXT00000039128.11.191e-1049.02RNA polymerase II subunit K [Source:NCBI gene;Acc:... [more]
ENSAMXT00000035248.11.191e-1049.02RNA polymerase II subunit K [Source:NCBI gene;Acc:... [more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 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 DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46)
Total hits: 1
Match NameE-valueIdentityDescription
RPC101.340e-638.78RNA polymerase subunit ABC10-alpha, found in RNA p... [more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 1
Match NameE-valueIdentityDescription
EDO326209.703e-1157.50Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7... [more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 1
Match NameE-valueIdentityDescription
ENSORLT00000003472.21.776e-1149.02pep primary_assembly:ASM223467v1:11:7021459:702296... [more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC4 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

>SMED30001327 ID=SMED30001327|Name=DNA-directed RNA polymerases I, II, and III subunit RPABC4|organism=Schmidtea mediterranea sexual|type=transcript|length=328bp
TTGAACAATTTCAAATATTTTTTAAATGTGCCATTATTGTTTATTGTTGA
AAATTTTAAATGTTTTGATTTTAGATGAATAATTCGTCTGAAGCAAAACA
AGTTGTTCAAAAGCCTATAATTTATGTTTGTGGAGAATGTAGAAAAGATA
TCGAAATGAAGCCTAAAGACATTATAAGATGTAGTGAATGTGGATGTAGA
ATTTTATTTAAAAAACGAACATTGAGACGTATGTGCTTTATATTTCATTT
AAAATTTCATTAATTTTTTTTAGTTAGTGTTTTTGAAGGTCGTTGAAGTG
TTGTTAAATAAATTTGTGCTATCTTAGA
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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:0003677DNA binding
GO:0003899DNA-directed 5'-3' RNA polymerase activity
GO:0008270zinc ion binding
GO:0046872metal ion binding
Vocabulary: biological process
TermDefinition
GO:0006351transcription, DNA-templated
GO:0000398mRNA splicing, via spliceosome
GO:0006283transcription-coupled nucleotide-excision repair
GO:0006356regulation of transcription from RNA polymerase I promoter
GO:0006361transcription initiation from RNA polymerase I promoter
GO:0006362transcription elongation from RNA polymerase I promoter
GO:0006363termination of RNA polymerase I transcription
GO:0006366transcription from RNA polymerase II promoter
GO:0006367transcription initiation from RNA polymerase II promoter
GO:0006368transcription elongation from RNA polymerase II promoter
GO:00063707-methylguanosine mRNA capping
GO:0006383transcription from RNA polymerase III promoter
GO:0008543fibroblast growth factor receptor signaling pathway
GO:0010467gene expression
GO:0031047gene silencing by RNA
GO:0032481positive regulation of type I interferon production
GO:0035019somatic stem cell population maintenance
GO:0042795snRNA transcription from RNA polymerase II promoter
GO:0045815positive regulation of gene expression, epigenetic
GO:0050434positive regulation of viral transcription
Vocabulary: cellular component
TermDefinition
GO:0005634nucleus
GO:0005654nucleoplasm
GO:0005665DNA-directed RNA polymerase II, core complex
GO:0005666DNA-directed RNA polymerase III complex
GO:0005736DNA-directed RNA polymerase I complex
GO:0005829cytosol
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: 15..58
e-value: 1.3E-11
score: 54.6
IPR006591RNA polymerase archaeal subunit P/eukaryotic subunit RPABC4PFAMPF03604DNA_RNApol_7kDcoord: 17..48
e-value: 1.7E-13
score: 50.0
NoneNo IPR availableGENE3DG3DSA:2.20.28.30coord: 1..56
e-value: 1.6E-18
score: 67.8
NoneNo IPR availablePRODOMPD012151coord: 21..55
e-value: 1.0E-4
score: 101.0
IPR039747DNA-directed RNA polymerases I, II, and III subunit RPABC4PANTHERPTHR12056DNA-DIRECTED RNA POLYMERASES I, II, AND IIIcoord: 1..55
IPR029040RNA polymerase subunit RPABC4/transcription elongation factor Spt4SUPERFAMILYSSF63393RNA polymerase subunitscoord: 14..54