DNA-directed RNA polymerases I, II, and III subunit RPABC5

Overview
NameDNA-directed RNA polymerases I, II, and III subunit RPABC5
Smed IDSMED30027868
Length (bp)527
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 RPABC5 (SMED30027868) t-SNE clustered cells

Violin plots show distribution of expression levels for DNA-directed RNA polymerases I, II, and III subunit RPABC5 (SMED30027868) 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 RPABC5 (SMED30027868) 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 RPABC5 (SMED30027868) 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



SMED30027868

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



PAGE Curations: 2

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
X1 cellSMED30027868SMESG000037774.1 SmedASXL_068265SmedAsxl_ww_GCZZ01PMID:26114597
Zhu et al., 2015		FACS sorted cell population asexual adult RNA-sequencing evidence
neoblastSMED30027868SMESG000037774.1 dd_Smed_v4_8307_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 RPABC5 vs. Ensembl Human
Match: POLR2L (RNA polymerase II subunit L [Source:HGNC Symbol;Acc:HGNC:9199])

HSP 1 Score: 124.79 bits (312), Expect = 2.217e-37
Identity = 56/67 (83.58%), Postives = 62/67 (92.54%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDK 300
            MIIP+RCFTCGK++GNKWE Y+ LLQAEYTEGDALDAL L RYCCRRMLL HVDLIEKLL+YAPL+K
Sbjct:    1 MIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLAHVDLIEKLLNYAPLEK 67
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Ensembl Human
Match: POLR2L (RNA polymerase II subunit L [Source:HGNC Symbol;Acc:HGNC:9199])

HSP 1 Score: 124.79 bits (312), Expect = 2.217e-37
Identity = 56/67 (83.58%), Postives = 62/67 (92.54%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDK 300
            MIIP+RCFTCGK++GNKWE Y+ LLQAEYTEGDALDAL L RYCCRRMLL HVDLIEKLL+YAPL+K
Sbjct:    1 MIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLAHVDLIEKLLNYAPLEK 67
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Ensembl Celegans
Match: rpb-10 (DNA-directed RNA polymerases I, II, and III subunit RPABC5 [Source:UniProtKB/Swiss-Prot;Acc:Q9GR61])

HSP 1 Score: 119.398 bits (298), Expect = 1.171e-35
Identity = 54/67 (80.60%), Postives = 60/67 (89.55%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDK 300
            MIIPIRCFTCGKVIG+KWE Y+  LQ+EY+EGDALDAL L RYCCRRMLL HVDLIEKLL+Y PL+K
Sbjct:    1 MIIPIRCFTCGKVIGDKWETYLGFLQSEYSEGDALDALGLRRYCCRRMLLAHVDLIEKLLNYHPLEK 67
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Ensembl Fly
Match: Rpb10 (gene:FBgn0039218 transcript:FBtr0084688)

HSP 1 Score: 126.716 bits (317), Expect = 1.914e-38
Identity = 59/67 (88.06%), Postives = 63/67 (94.03%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDK 300
            MIIPIRCFTCGKVIGNKWE+Y+ LLQAEYTEGDALDAL L RYCCRRMLL HVDLIEKLL+YAPL+K
Sbjct:    1 MIIPIRCFTCGKVIGNKWESYLGLLQAEYTEGDALDALGLKRYCCRRMLLGHVDLIEKLLNYAPLEK 67
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Ensembl Zebrafish
Match: polr2l (polymerase (RNA) II (DNA directed) polypeptide L [Source:ZFIN;Acc:ZDB-GENE-050522-181])

HSP 1 Score: 125.176 bits (313), Expect = 8.262e-38
Identity = 56/67 (83.58%), Postives = 63/67 (94.03%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDK 300
            MIIP+RCFTCGK++GNKWE Y+ LLQAEYTEGDALDAL L RYCCRRMLL+HVDLIEKLL+YAPL+K
Sbjct:    1 MIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLSHVDLIEKLLNYAPLEK 67
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Ensembl Zebrafish
Match: polr2l (polymerase (RNA) II (DNA directed) polypeptide L [Source:ZFIN;Acc:ZDB-GENE-050522-181])

HSP 1 Score: 125.176 bits (313), Expect = 8.262e-38
Identity = 56/67 (83.58%), Postives = 63/67 (94.03%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDK 300
            MIIP+RCFTCGK++GNKWE Y+ LLQAEYTEGDALDAL L RYCCRRMLL+HVDLIEKLL+YAPL+K
Sbjct:    1 MIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLSHVDLIEKLLNYAPLEK 67
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Ensembl Xenopus
Match: scaper (S-phase cyclin A-associated protein in the ER [Source:Xenbase;Acc:XB-GENE-5953697])

HSP 1 Score: 125.946 bits (315), Expect = 6.050e-38
Identity = 57/67 (85.07%), Postives = 63/67 (94.03%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDK 300
            MIIP+RCFTCGKV+GNKWE Y+ LLQAEYTEGDALDAL L RYCCRRMLL+HVDLIEKLL+YAPL+K
Sbjct:    1 MIIPVRCFTCGKVVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLSHVDLIEKLLNYAPLEK 67
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Ensembl Xenopus
Match: polr2l.1 (polymerase (RNA) II subunit L [Source:NCBI gene;Acc:549097])

HSP 1 Score: 124.79 bits (312), Expect = 2.010e-37
Identity = 56/67 (83.58%), Postives = 62/67 (92.54%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDK 300
            MIIP+RCFTCGK++GNKWE Y+ LLQAEYTEGDALDAL L RYCCRRMLL HVDLIEKLL+YAPL+K
Sbjct:    1 MIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLAHVDLIEKLLNYAPLEK 67
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Ensembl Mouse
Match: Polr2l (polymerase (RNA) II (DNA directed) polypeptide L [Source:MGI Symbol;Acc:MGI:1913741])

HSP 1 Score: 124.79 bits (312), Expect = 1.522e-37
Identity = 56/67 (83.58%), Postives = 62/67 (92.54%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDK 300
            MIIP+RCFTCGK++GNKWE Y+ LLQAEYTEGDALDAL L RYCCRRMLL HVDLIEKLL+YAPL+K
Sbjct:    1 MIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLAHVDLIEKLLNYAPLEK 67
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. UniProt/SwissProt
Match: sp|Q9VC49|RPAB5_DROME (DNA-directed RNA polymerases I, II, and III subunit RPABC5 OS=Drosophila melanogaster OX=7227 GN=Rpb10 PE=3 SV=1)

HSP 1 Score: 126.716 bits (317), Expect = 1.919e-37
Identity = 59/67 (88.06%), Postives = 63/67 (94.03%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDK 300
            MIIPIRCFTCGKVIGNKWE+Y+ LLQAEYTEGDALDAL L RYCCRRMLL HVDLIEKLL+YAPL+K
Sbjct:    1 MIIPIRCFTCGKVIGNKWESYLGLLQAEYTEGDALDALGLKRYCCRRMLLGHVDLIEKLLNYAPLEK 67
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. UniProt/SwissProt
Match: sp|P62876|RPAB5_MOUSE (DNA-directed RNA polymerases I, II, and III subunit RPABC5 OS=Mus musculus OX=10090 GN=Polr2l PE=3 SV=1)

HSP 1 Score: 124.79 bits (312), Expect = 1.065e-36
Identity = 56/67 (83.58%), Postives = 62/67 (92.54%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDK 300
            MIIP+RCFTCGK++GNKWE Y+ LLQAEYTEGDALDAL L RYCCRRMLL HVDLIEKLL+YAPL+K
Sbjct:    1 MIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLAHVDLIEKLLNYAPLEK 67
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. UniProt/SwissProt
Match: sp|P62875|RPAB5_HUMAN (DNA-directed RNA polymerases I, II, and III subunit RPABC5 OS=Homo sapiens OX=9606 GN=POLR2L PE=1 SV=1)

HSP 1 Score: 124.79 bits (312), Expect = 1.065e-36
Identity = 56/67 (83.58%), Postives = 62/67 (92.54%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDK 300
            MIIP+RCFTCGK++GNKWE Y+ LLQAEYTEGDALDAL L RYCCRRMLL HVDLIEKLL+YAPL+K
Sbjct:    1 MIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLAHVDLIEKLLNYAPLEK 67
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. UniProt/SwissProt
Match: sp|Q6QN04|RPAB5_CHILA (DNA-directed RNA polymerases I, II, and III subunit RPABC5 OS=Chinchilla lanigera OX=34839 GN=POLR2L PE=3 SV=1)

HSP 1 Score: 124.79 bits (312), Expect = 1.065e-36
Identity = 56/67 (83.58%), Postives = 62/67 (92.54%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDK 300
            MIIP+RCFTCGK++GNKWE Y+ LLQAEYTEGDALDAL L RYCCRRMLL HVDLIEKLL+YAPL+K
Sbjct:    1 MIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLAHVDLIEKLLNYAPLEK 67
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. UniProt/SwissProt
Match: sp|Q32P78|RPAB5_BOVIN (DNA-directed RNA polymerases I, II, and III subunit RPABC5 OS=Bos taurus OX=9913 GN=POLR2L PE=1 SV=1)

HSP 1 Score: 124.79 bits (312), Expect = 1.065e-36
Identity = 56/67 (83.58%), Postives = 62/67 (92.54%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDK 300
            MIIP+RCFTCGK++GNKWE Y+ LLQAEYTEGDALDAL L RYCCRRMLL HVDLIEKLL+YAPL+K
Sbjct:    1 MIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLAHVDLIEKLLNYAPLEK 67
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. TrEMBL
Match: A0A151NLD9 (DNA-directed RNA polymerases I, II, and III subunit RPABC5 OS=Alligator mississippiensis OX=8496 GN=POLR2L-2 PE=3 SV=1)

HSP 1 Score: 132.88 bits (333), Expect = 2.291e-37
Identity = 61/72 (84.72%), Postives = 67/72 (93.06%), Query Frame = 1 
Query:   85 RFINRMIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDK 300
            R INRMIIP+RCFTCGKV+GNKWE Y+ LLQAEYTEGDALDAL L RYCCRRMLL+HVDLIEKLL+YAPL+K
Sbjct:    3 RCINRMIIPVRCFTCGKVVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLSHVDLIEKLLNYAPLEK 74
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. TrEMBL
Match: A0A0Q3MC60 (DNA-directed RNA polymerases I, II, and III subunit RPABC5 OS=Amazona aestiva OX=12930 GN=AAES_97767 PE=3 SV=1)

HSP 1 Score: 129.413 bits (324), Expect = 1.217e-35
Identity = 57/74 (77.03%), Postives = 65/74 (87.84%), Query Frame = 1 
Query:   79 FHRFINRMIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDK 300
             + +  RMIIP+RCFTCGK++GNKWE Y+ LLQAEYTEGDALDAL L RYCCRRMLL HVDLIEKLL+YAPL+K
Sbjct:   26 LNSYTARMIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLAHVDLIEKLLNYAPLEK 99
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. TrEMBL
Match: T1G1P3 (Uncharacterized protein OS=Helobdella robusta OX=6412 GN=20214991 PE=3 SV=1)

HSP 1 Score: 128.257 bits (321), Expect = 1.303e-35
Identity = 60/67 (89.55%), Postives = 64/67 (95.52%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDK 300
            MIIPIRCFTCGKVIGNKW+ Y+ALLQAEYTEGDALDAL L RYCCRRMLLTHVDLIEKLL+YAPL+K
Sbjct:    1 MIIPIRCFTCGKVIGNKWDQYLALLQAEYTEGDALDALGLKRYCCRRMLLTHVDLIEKLLNYAPLEK 67
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. TrEMBL
Match: A0A2B4S7F8 (DNA-directed RNA polymerases I, II, and III subunit RPABC5 OS=Stylophora pistillata OX=50429 GN=Rpb10 PE=3 SV=1)

HSP 1 Score: 127.872 bits (320), Expect = 1.995e-35
Identity = 59/67 (88.06%), Postives = 64/67 (95.52%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDK 300
            MIIPIRCFTCGKVIGNKWE+Y+ LLQAEYTEGDALDAL L RYCCRRMLL+HVDLIEKLL+YAPL+K
Sbjct:    1 MIIPIRCFTCGKVIGNKWESYLGLLQAEYTEGDALDALGLKRYCCRRMLLSHVDLIEKLLNYAPLEK 67
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. TrEMBL
Match: A0A1X7ULF3 (Uncharacterized protein OS=Amphimedon queenslandica OX=400682 PE=3 SV=1)

HSP 1 Score: 127.872 bits (320), Expect = 1.995e-35
Identity = 59/67 (88.06%), Postives = 64/67 (95.52%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDK 300
            MIIPIRCFTCGKVIGNKWE+Y+ LLQAEYTEGDALDAL L RYCCRRMLL+HVDLIEKLL+YAPL+K
Sbjct:    1 MIIPIRCFTCGKVIGNKWESYLGLLQAEYTEGDALDALGLKRYCCRRMLLSHVDLIEKLLNYAPLEK 67
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Ensembl Cavefish
Match: polr2l (RNA polymerase II subunit L [Source:NCBI gene;Acc:103027770])

HSP 1 Score: 125.176 bits (313), Expect = 7.002e-38
Identity = 56/67 (83.58%), Postives = 63/67 (94.03%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDK 300
            MIIP+RCFTCGK++GNKWE Y+ LLQAEYTEGDALDAL L RYCCRRMLL+HVDLIEKLL+YAPL+K
Sbjct:    1 MIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLSHVDLIEKLLNYAPLEK 67
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Ensembl Yeast
Match: RPB10 (RNA polymerase subunit ABC10-beta; common to RNA polymerases I, II, and III [Source:SGD;Acc:S000005736])

HSP 1 Score: 100.908 bits (250), Expect = 4.253e-29
Identity = 46/68 (67.65%), Postives = 55/68 (80.88%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQA-EYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDK 300
            MI+P+RCF+CGKV+G+KWE+Y+ LLQ  E  EG AL  L L RYCCRRM+LTHVDLIEK L Y PL+K
Sbjct:    1 MIVPVRCFSCGKVVGDKWESYLNLLQEDELDEGTALSRLGLKRYCCRRMILTHVDLIEKFLRYNPLEK 68
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Ensembl Nematostella
Match: EDO35400 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7SLP4])

HSP 1 Score: 126.331 bits (316), Expect = 9.892e-39
Identity = 58/67 (86.57%), Postives = 63/67 (94.03%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDK 300
            MIIPIRCFTCGKV+GNKWE Y+ LLQAEYTEGDALDAL L RYCCRRMLL+HVDLIEKLL+YAPL+K
Sbjct:    1 MIIPIRCFTCGKVVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLSHVDLIEKLLNYAPLEK 67
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Ensembl Medaka
Match: polr2l (RNA polymerase II subunit L [Source:NCBI gene;Acc:101163886])

HSP 1 Score: 125.561 bits (314), Expect = 6.483e-38
Identity = 56/67 (83.58%), Postives = 63/67 (94.03%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDK 300
            MIIP+RCFTCGK++GNKWE Y+ LLQAEYTEGDALDAL L RYCCRRMLL+HVDLIEKLL+YAPL+K
Sbjct:    1 MIIPVRCFTCGKIVGNKWEAYLGLLQAEYTEGDALDALGLKRYCCRRMLLSHVDLIEKLLNYAPLEK 67
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Planmine SMEST
Match: SMESG000037774.1 (SMESG000037774.1)

HSP 1 Score: 144.05 bits (362), Expect = 2.046e-45
Identity = 69/69 (100.00%), Postives = 69/69 (100.00%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDKDK 306
            MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDKDK
Sbjct:    1 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDKDK 69
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Planmine SMEST
Match: SMESG000020324.1 (SMESG000020324.1)

HSP 1 Score: 144.05 bits (362), Expect = 2.046e-45
Identity = 69/69 (100.00%), Postives = 69/69 (100.00%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDKDK 306
            MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDKDK
Sbjct:    1 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLDKDK 69
[Close]
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Planmine SMEST
Match: SMESG000033195.1 (SMESG000033195.1)

HSP 1 Score: 130.183 bits (326), Expect = 6.716e-40
Identity = 60/66 (90.91%), Postives = 64/66 (96.97%), Query Frame = 1 
Query:  100 MIIPIRCFTCGKVIGNKWENYIALLQAEYTEGDALDALNLTRYCCRRMLLTHVDLIEKLLSYAPLD 297
            MIIP+RCFTCGKVIGNKWENYI LLQ++YTEGDALDAL LTRYCCRRMLLTHVDLIEKLLSYAPL+
Sbjct:    1 MIIPVRCFTCGKVIGNKWENYIGLLQSDYTEGDALDALKLTRYCCRRMLLTHVDLIEKLLSYAPLE 66
The following BLAST results are available for this feature:
BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 2
Match NameE-valueIdentityDescription
POLR2L2.217e-3783.58RNA polymerase II subunit L [Source:HGNC Symbol;Ac... [more]
POLR2L2.217e-3783.58RNA polymerase II subunit L [Source:HGNC Symbol;Ac... [more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 1
Match NameE-valueIdentityDescription
rpb-101.171e-3580.60DNA-directed RNA polymerases I, II, and III subuni... [more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99)
Total hits: 1
Match NameE-valueIdentityDescription
Rpb101.914e-3888.06gene:FBgn0039218 transcript:FBtr0084688[more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 2
Match NameE-valueIdentityDescription
polr2l8.262e-3883.58polymerase (RNA) II (DNA directed) polypeptide L [... [more]
polr2l8.262e-3883.58polymerase (RNA) II (DNA directed) polypeptide L [... [more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 2
Match NameE-valueIdentityDescription
scaper6.050e-3885.07S-phase cyclin A-associated protein in the ER [Sou... [more]
polr2l.12.010e-3783.58polymerase (RNA) II subunit L [Source:NCBI gene;Ac... [more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 1
Match NameE-valueIdentityDescription
Polr2l1.522e-3783.58polymerase (RNA) II (DNA directed) polypeptide L [... [more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 5
Match NameE-valueIdentityDescription
sp|Q9VC49|RPAB5_DROME1.919e-3788.06DNA-directed RNA polymerases I, II, and III subuni... [more]
sp|P62876|RPAB5_MOUSE1.065e-3683.58DNA-directed RNA polymerases I, II, and III subuni... [more]
sp|P62875|RPAB5_HUMAN1.065e-3683.58DNA-directed RNA polymerases I, II, and III subuni... [more]
sp|Q6QN04|RPAB5_CHILA1.065e-3683.58DNA-directed RNA polymerases I, II, and III subuni... [more]
sp|Q32P78|RPAB5_BOVIN1.065e-3683.58DNA-directed RNA polymerases I, II, and III subuni... [more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A151NLD92.291e-3784.72DNA-directed RNA polymerases I, II, and III subuni... [more]
A0A0Q3MC601.217e-3577.03DNA-directed RNA polymerases I, II, and III subuni... [more]
T1G1P31.303e-3589.55Uncharacterized protein OS=Helobdella robusta OX=6... [more]
A0A2B4S7F81.995e-3588.06DNA-directed RNA polymerases I, II, and III subuni... [more]
A0A1X7ULF31.995e-3588.06Uncharacterized protein OS=Amphimedon queenslandic... [more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 1
Match NameE-valueIdentityDescription
polr2l7.002e-3883.58RNA polymerase II subunit L [Source:NCBI gene;Acc:... [more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 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 RPABC5 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46)
Total hits: 1
Match NameE-valueIdentityDescription
RPB104.253e-2967.65RNA polymerase subunit ABC10-beta; common to RNA p... [more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 1
Match NameE-valueIdentityDescription
EDO354009.892e-3986.57Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7... [more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 1
Match NameE-valueIdentityDescription
polr2l6.483e-3883.58RNA polymerase II subunit L [Source:NCBI gene;Acc:... [more]
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BLAST of DNA-directed RNA polymerases I, II, and III subunit RPABC5 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 3
Match NameE-valueIdentityDescription
SMESG000037774.12.046e-45100.00SMESG000037774.1[more]
SMESG000020324.12.046e-45100.00SMESG000020324.1[more]
SMESG000033195.16.716e-4090.91SMESG000033195.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30027868 ID=SMED30027868|Name=DNA-directed RNA polymerases I, II, and III subunit RPABC5|organism=Schmidtea mediterranea sexual|type=transcript|length=527bp
TTATTTTCCCAGATTGAATATTCTGTAATTCTAACAGTTTTCTTTTTATT
TAAAAGTTGATTAATTTAATTTAATCTGTTTCATAGATTTATTAATAGAA
TGATTATTCCTATTCGATGTTTTACGTGTGGTAAAGTTATTGGCAATAAA
TGGGAAAATTATATAGCTCTTCTACAAGCCGAATATACAGAAGGAGATGC
ATTGGACGCCCTTAATTTAACTAGATATTGTTGCAGAAGAATGCTTTTGA
CGCATGTTGACTTGATAGAAAAATTACTGAGCTATGCTCCCCTTGATAAG
GATAAATGAAATAATAGTTTTTATAAATGTCTTATATCATATGTAAATGG
ATCACTTTTGTGTCACAGCTGAATTTGTATGTTTATATATTAAAAGTATT
TGCAGATGAGGTATTTGTGGATTATTTATGATGCAATAAGTGAAACGTCA
TAAGCATATAAATGGAGTGTTTCATTTACAACTAATCTAATAATCCTTTA
CATCTATAATATAAAGCATGATCATTG
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000429neoblast
PLANA:0002109X1 cell
Vocabulary: INTERPRO
TermDefinition
IPR009057Homeobox-like_sf
IPR000268RNAP_N/Rpb10
IPR020789RNA_pol_suN_Zn-BS
IPR023580RNA_pol_su_RPB10
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:0006360transcription from RNA polymerase I promoter
GO:0006366transcription from RNA polymerase II promoter
GO:0006383transcription from RNA polymerase III promoter
Vocabulary: cellular component
TermDefinition
GO:0005634nucleus
GO:0005665DNA-directed RNA polymerase II, core complex
GO:0005666DNA-directed RNA polymerase III complex
GO:0005736DNA-directed RNA polymerase I complex
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR000268DNA-directed RNA polymerase, subunit N/Rpb10PIRSFPIRSF005653RpoN_RPB10coord: 1..69
e-value: 4.2E-32
score: 107.6
IPR000268DNA-directed RNA polymerase, subunit N/Rpb10PFAMPF01194RNA_pol_Ncoord: 1..59
e-value: 2.3E-33
score: 114.3
IPR000268DNA-directed RNA polymerase, subunit N/Rpb10PANTHERPTHR23431FAMILY NOT NAMEDcoord: 1..67
NoneNo IPR availableGENE3DG3DSA:1.10.10.60coord: 1..69
e-value: 1.3E-38
score: 132.7
NoneNo IPR availablePANTHERPTHR23431:SF5coord: 1..67
NoneNo IPR availablePRODOMPD006539coord: 9..64
e-value: 1.0E-16
score: 206.0
IPR020789RNA polymerases, subunit N, zinc binding sitePROSITEPS01112RNA_POL_N_8KDcoord: 2..11
IPR023580RNA polymerase subunit RPB10SUPERFAMILYSSF46924RNA polymerase subunit RPB10coord: 1..63