Ribonuclease P protein component 4

Overview
NameRibonuclease P protein component 4
Smed IDSMED30007206
Length (bp)647
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 Ribonuclease P protein component 4 (SMED30007206) t-SNE clustered cells

Violin plots show distribution of expression levels for Ribonuclease P protein component 4 (SMED30007206) 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 Ribonuclease P protein component 4 (SMED30007206) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for Ribonuclease P protein component 4 (SMED30007206) 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



SMED30007206

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



PAGE Curations: 18

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
muscle cellSMED30007206h1SMcG0001736 dd_Smed_v4_12939_2_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
muscle cellSMED30007206h1SMcG0001736 dd_Smed_v4_12939_2_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
ventral midlineSMED30007206h1SMcG0001730 admp-1bsmed_ncbi_20240424PMID:21295483
Gaviño et al., 2011		whole organism asexual adult colorimetric in situ hybridization evidence
dorsal ventral margin of the whole animalSMED30007206h1SMcG0001730 admp-1bsmed_ncbi_20240424PMID:21295483
Gaviño et al., 2011		whole organism asexual adult colorimetric in situ hybridization evidence
ventral midlineSMED30007206h1SMcG0001736 admp-1bsmed_ncbi_20240424PMID:21295483
Gaviño et al., 2011		whole organism asexual adult colorimetric in situ hybridization evidence
dorsal ventral margin of the whole animalSMED30007206h1SMcG0001736 admp-1bsmed_ncbi_20240424PMID:21295483
Gaviño et al., 2011		whole organism asexual adult colorimetric in situ hybridization evidence
ventral midlineSMED30007206h1SMcG0001735 admp-1bsmed_ncbi_20240424PMID:21295483
Gaviño et al., 2011		whole organism asexual adult colorimetric in situ hybridization evidence
dorsal ventral margin of the whole animalSMED30007206h1SMcG0001735 admp-1bsmed_ncbi_20240424PMID:21295483
Gaviño et al., 2011		whole organism asexual adult colorimetric in situ hybridization evidence
ventral midlineSMED30007206h1SMcG0001737 admp-1bsmed_ncbi_20240424PMID:21295483
Gaviño et al., 2011		whole organism asexual adult colorimetric in situ hybridization evidence
dorsal ventral margin of the whole animalSMED30007206h1SMcG0001737 admp-1bsmed_ncbi_20240424PMID:21295483
Gaviño et al., 2011		whole organism asexual adult colorimetric in situ hybridization evidence
ventral midlineSMED30007206h1SMcG0001730 admp-1bsmed_ncbi_20240424PMID:21295483
Gaviño et al., 2011		whole organism asexual adult colorimetric in situ hybridization evidence
dorsal ventral margin of the whole animalSMED30007206h1SMcG0001730 admp-1bsmed_ncbi_20240424PMID:21295483
Gaviño et al., 2011		whole organism asexual adult colorimetric in situ hybridization evidence
ventral midlineSMED30007206h1SMcG0001736 admp-1bsmed_ncbi_20240424PMID:21295483
Gaviño et al., 2011		whole organism asexual adult colorimetric in situ hybridization evidence
dorsal ventral margin of the whole animalSMED30007206h1SMcG0001736 admp-1bsmed_ncbi_20240424PMID:21295483
Gaviño et al., 2011		whole organism asexual adult colorimetric in situ hybridization evidence
ventral midlineSMED30007206h1SMcG0001735 admp-1bsmed_ncbi_20240424PMID:21295483
Gaviño et al., 2011		whole organism asexual adult colorimetric in situ hybridization evidence
dorsal ventral margin of the whole animalSMED30007206h1SMcG0001735 admp-1bsmed_ncbi_20240424PMID:21295483
Gaviño et al., 2011		whole organism asexual adult colorimetric in situ hybridization evidence
ventral midlineSMED30007206h1SMcG0001737 admp-1bsmed_ncbi_20240424PMID:21295483
Gaviño et al., 2011		whole organism asexual adult colorimetric in situ hybridization evidence
dorsal ventral margin of the whole animalSMED30007206h1SMcG0001737 admp-1bsmed_ncbi_20240424PMID:21295483
Gaviño et al., 2011		whole organism asexual adult colorimetric in situ hybridization evidence
Note: Hover over icons to view figure legend
Homology
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BLAST of Ribonuclease P protein component 4 vs. Ensembl Zebrafish
Match: rpp21 (ribonuclease P 21 subunit [Source:ZFIN;Acc:ZDB-GENE-040801-37])

HSP 1 Score: 44.669 bits (104), Expect = 8.353e-6
Identity = 27/89 (30.34%), Postives = 45/89 (50.56%), Query Frame = 3 
Query:  285 SENIFKISLIRSYVDEIFKYCRKSKFRIASHLKRNICKKCKLILVPGITSNIRVE-NKNKIPIFIKKCI-CGYFTRYPQVDHKDVYVDE 545
            ++N   I L R Y        ++   R    +KR ICKKC  +L+PG+TS +R +  K +    + +C+ CG   R+P      ++VD+
Sbjct:   26 AQNPENIELARFYCFTQKTISKRLVLRQDPSVKRTICKKCYTLLIPGVTSTVRQKRGKGRQRKTVVRCLSCGLTKRFPNNPKHKLWVDQ 114
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BLAST of Ribonuclease P protein component 4 vs. UniProt/SwissProt
Match: sp|Q8TGY1|RNP4_METKA (Ribonuclease P protein component 4 OS=Methanopyrus kandleri (strain AV19 / DSM 6324 / JCM 9639 / NBRC 100938) OX=190192 GN=rnp4 PE=3 SV=1)

HSP 1 Score: 54.6842 bits (130), Expect = 1.462e-8
Identity = 25/67 (37.31%), Postives = 42/67 (62.69%), Query Frame = 3 
Query:  315 RSYVDEIFKYCRKSKFRIASHLKRNICKKCKLILVPGITSNIRVENKNKIPIFIKKCI-CGYFTRYP 512
            R YV+   +   K++ ++  HLKR+ CK+C   L+PG+T+ +R+  +N++P     C+ CGY  RYP
Sbjct:   41 RRYVELARRIAMKARVKLPKHLKRSFCKRCNTPLIPGVTARVRL-RQNRMPHVSVTCLECGYIYRYP 106
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BLAST of Ribonuclease P protein component 4 vs. UniProt/SwissProt
Match: sp|Q8U0H6|RNP4_PYRFU (Ribonuclease P protein component 4 OS=Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1) OX=186497 GN=rnp4 PE=1 SV=1)

HSP 1 Score: 53.5286 bits (127), Expect = 3.394e-8
Identity = 30/79 (37.97%), Postives = 45/79 (56.96%), Query Frame = 3 
Query:  285 SENIFKIS--LIRSYVDEIFKYCRKSKFRIASHLKRNICKKCKLILVPGITSNIRVENKNKIPIFIKKCI-CGYFTRYP 512
            +E +F  S  L + YV+      +K+K +I    KR  CKKC   LVPGI + +R+  K ++P  + KC+ CG+  RYP
Sbjct:   25 AERVFPYSPELAKRYVELALLVQQKAKVKIPRKWKRRYCKKCHAFLVPGINARVRLRQK-RMPHIVVKCLECGHIMRYP 102
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BLAST of Ribonuclease P protein component 4 vs. UniProt/SwissProt
Match: sp|C6A4A4|RNP4_THESM (Ribonuclease P protein component 4 OS=Thermococcus sibiricus (strain DSM 12597 / MM 739) OX=604354 GN=rnp4 PE=3 SV=1)

HSP 1 Score: 52.373 bits (124), Expect = 8.752e-8
Identity = 29/81 (35.80%), Postives = 44/81 (54.32%), Query Frame = 3 
Query:  279 NSSENIFKI--SLIRSYVDEIFKYCRKSKFRIASHLKRNICKKCKLILVPGITSNIRVENKNKIPIFIKKCI-CGYFTRYP 512
            N +E +F     L   YV+      +K+K R+    KR  CKKC   LVPG+ + +R+  K ++P  + KC+ CG+  RYP
Sbjct:   27 NLAERVFAYDKELANRYVEIALAVQQKAKVRMPRKWKRRYCKKCHSFLVPGVNARVRLRQK-RMPHVVIKCLECGHIMRYP 106
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BLAST of Ribonuclease P protein component 4 vs. UniProt/SwissProt
Match: sp|O59248|RNP4_PYRHO (Ribonuclease P protein component 4 OS=Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3) OX=70601 GN=rnp4 PE=1 SV=1)

HSP 1 Score: 50.8322 bits (120), Expect = 3.333e-7
Identity = 30/92 (32.61%), Postives = 50/92 (54.35%), Query Frame = 3 
Query:  246 IAISKLISDDINSSENIFKIS--LIRSYVDEIFKYCRKSKFRIASHLKRNICKKCKLILVPGITSNIRVENKNKIPIFIKKCI-CGYFTRYP 512
            IAI + I      +E + + S  L + YV+   +  +K+K +I    KR  CK+C   L+PG+ + +R+  K ++P  +  C+ CGY  RYP
Sbjct:   18 IAIER-IDTLFTLAERVARYSPDLAKRYVELALEIQKKAKVKIPRKWKRRYCKRCHTFLIPGVNARVRLRTK-RMPHVVITCLECGYIMRYP 107
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BLAST of Ribonuclease P protein component 4 vs. UniProt/SwissProt
Match: sp|Q9V166|RNP4_PYRAB (Ribonuclease P protein component 4 OS=Pyrococcus abyssi (strain GE5 / Orsay) OX=272844 GN=rnp4 PE=3 SV=1)

HSP 1 Score: 50.447 bits (119), Expect = 4.207e-7
Identity = 27/79 (34.18%), Postives = 44/79 (55.70%), Query Frame = 3 
Query:  285 SENIFKIS--LIRSYVDEIFKYCRKSKFRIASHLKRNICKKCKLILVPGITSNIRVENKNKIPIFIKKCI-CGYFTRYP 512
            +E + K S  L R YV+   +  +KSK ++    KR  CK+C   LVPG  + +R+   +++P  +  C+ CG+  RYP
Sbjct:   26 AEKVVKYSPDLARRYVELALEIQKKSKVKLPRKWKRRYCKRCHAFLVPGFNARVRLRT-DRMPHVVITCLECGHIMRYP 103
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BLAST of Ribonuclease P protein component 4 vs. TrEMBL
Match: U4LJ53 (Similar to Ribonuclease P protein subunit rpr2 acc. no. Q9Y813 OS=Pyronema omphalodes (strain CBS 100304) OX=1076935 GN=PCON_12055 PE=4 SV=1)

HSP 1 Score: 68.9366 bits (167), Expect = 1.213e-10
Identity = 42/124 (33.87%), Postives = 65/124 (52.42%), Query Frame = 3 
Query:  183 IVFKIMSNICHGRIQHLYNQAIAISKLISDDINSSENIFKISLIRSYVDEIFKYCRKSKFRIASHLKRNICKKCKLILVPGITSNIRVENKNK------IPIFIKKC-ICGYFTRYP--QVDHK 527
            +  K  +N    R+ HLY  A  +   I +D  S+++I    L R Y+       RK   R+ S +KR ICK+C+ +LVPG+TS  R+ENK+K        + + +C  CG   R+P  Q +H+
Sbjct:    1 MASKGQNNPQFARLSHLYQAAALLG--IPNDTKSTKDIDTQGLSRFYLHNFRSVARKQVLRVDSPIKRTICKRCESLLVPGVTSEHRIENKSKDGKKKWADVLVVECKACGTVKRFPVGQDEHR 122
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BLAST of Ribonuclease P protein component 4 vs. TrEMBL
Match: A0A257A676 (Ribonuclease P protein component 4 OS=Desulfurococcales archaeon ex4484_217_1 OX=2012518 GN=rnp4 PE=3 SV=1)

HSP 1 Score: 65.4698 bits (158), Expect = 2.855e-10
Identity = 38/107 (35.51%), Postives = 58/107 (54.21%), Query Frame = 3 
Query:  192 KIMSNICHGRIQHLYNQAIAISKLISDDINSSENIFKISLIRSYVDEIFKYCRKSKFRIASHLKRNICKKCKLILVPGITSNIRVENKNKIPIFIKKC-ICGYFTRY 509
            K + +I   RI+ LY  A+  +K    D+            RSY   +F+   KS+ RI   +KRNICK+C + L+PG+T NIR+ ++ K    + KC +CG+  RY
Sbjct:    4 KEIRDIARQRIKWLYQLALEETKKKKYDVA-----------RSYTKLMFRIAEKSRVRIPRTIKRNICKQCDIPLIPGLTLNIRIRSEGKGSRIVAKCKLCGWIKRY 99
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BLAST of Ribonuclease P protein component 4 vs. TrEMBL
Match: A0A2J6XL72 (Ribonuclease P protein component 4 OS=Caldisphaera sp. OX=2060322 GN=rnp4 PE=3 SV=1)

HSP 1 Score: 60.4622 bits (145), Expect = 2.843e-8
Identity = 37/105 (35.24%), Postives = 60/105 (57.14%), Query Frame = 3 
Query:  201 SNICHGRIQHLYNQAIAISKLISDDINSSENIFKISLIRSYVDEIFKYCRKSKFRIASHLKRNICKKCKLILVPGITSNIRVENKNKIPIFIKKCI-CGYFTRYP 512
              + H RI+ LYN  I+  + I  +IN +         R   + IF+   K+K +I  ++KR+ICK C + LVPGITS++R++++ K+     +C+ CGY  R P
Sbjct:   16 EELVHERIEILYN--ISSQETIKGNINYA---------RELNELIFRISLKNKVKIPLNIKRSICKNCHVTLVPGITSSVRIKSQGKMHYLTIRCVKCGYIKRIP 109
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BLAST of Ribonuclease P protein component 4 vs. TrEMBL
Match: D7D9N8 (Ribonuclease P protein component 4 OS=Staphylothermus hellenicus (strain DSM 12710 / JCM 10830 / BK20S6-10-b1 / P8) OX=591019 GN=rnp4 PE=3 SV=1)

HSP 1 Score: 58.9214 bits (141), Expect = 1.228e-7
Identity = 29/106 (27.36%), Postives = 61/106 (57.55%), Query Frame = 3 
Query:  195 IMSNICHGRIQHLYNQAIAISKLISDDINSSENIFKISLIRSYVDEIFKYCRKSKFRIASHLKRNICKKCKLILVPGITSNIRVENKNKIPIFIKKC-ICGYFTRY 509
            ++ ++   R+++LY   +A+ +  S D +         L R Y++ I KY  K++ +   +++R  C+KCK+ L+PG+T+ +R++++ K    +  C +CG+  RY
Sbjct:   15 VLKDLAIQRMRYLYK--LALDRTRSGDYD---------LARRYIELIIKYAHKARVKPPKYIRRGYCRKCKIPLIPGLTARVRIQSEGKGSRVVVTCLLCGWRRRY 109
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BLAST of Ribonuclease P protein component 4 vs. TrEMBL
Match: A0A497GCH7 (Ribonuclease P protein component 4 OS=Thermoprotei archaeon OX=2250277 GN=rnp4 PE=3 SV=1)

HSP 1 Score: 57.7658 bits (138), Expect = 2.000e-7
Identity = 30/97 (30.93%), Postives = 50/97 (51.55%), Query Frame = 3 
Query:  222 IQHLYNQAIAISKLISDDINSSENIFKISLIRSYVDEIFKYCRKSKFRIASHLKRNICKKCKLILVPGITSNIRVENKNKIPIFIKKCICGYFTRYP 512
            ++ L  Q I I   ++D +   +     +L R YV   F+   K++ R+   LKR  C++C + LVPG+T+ +RV+      + +    CGY  RYP
Sbjct:    7 MRDLAWQRIRILLRLADSMVKRDE----ALARRYVKLAFRIAAKARLRLPRTLKRRYCRRCGIPLVPGLTARVRVKGGRGGRVIVTCLRCGYVRRYP 99
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BLAST of Ribonuclease P protein component 4 vs. Ensembl Cavefish
Match: rpp21 (ribonuclease P protein subunit p21-like [Source:NCBI gene;Acc:103021828])

HSP 1 Score: 46.2098 bits (108), Expect = 2.753e-6
Identity = 24/88 (27.27%), Postives = 45/88 (51.14%), Query Frame = 3 
Query:  285 SENIFKISLIRSYVDEIFKYCRKSKFRIASHLKRNICKKCKLILVPGITSNIRVENKNKIPIFIKKCI-CGYFTRYPQVDHKDVYVDE 545
            ++N   I L R Y        R+   R    +KR +CK+C  +L+PG+TS  R  ++ +  + + +C+ CG   ++P      ++VD+
Sbjct:   25 AQNPENIELARFYCFTQKTIARRLVLRQDPSVKRTLCKRCCSLLIPGVTSTARQRSRRRQCVTVIRCLSCGLSRKFPNNPKHQLWVDQ 112
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BLAST of Ribonuclease P protein component 4 vs. Planmine SMEST
Match: SMESG000059595.1 (SMESG000059595.1)

HSP 1 Score: 243.817 bits (621), Expect = 1.807e-83
Identity = 121/121 (100.00%), Postives = 121/121 (100.00%), Query Frame = 3 
Query:  198 MSNICHGRIQHLYNQAIAISKLISDDINSSENIFKISLIRSYVDEIFKYCRKSKFRIASHLKRNICKKCKLILVPGITSNIRVENKNKIPIFIKKCICGYFTRYPQVDHKDVYVDEYTKSN 560
            MSNICHGRIQHLYNQAIAISKLISDDINSSENIFKISLIRSYVDEIFKYCRKSKFRIASHLKRNICKKCKLILVPGITSNIRVENKNKIPIFIKKCICGYFTRYPQVDHKDVYVDEYTKSN
Sbjct:    1 MSNICHGRIQHLYNQAIAISKLISDDINSSENIFKISLIRSYVDEIFKYCRKSKFRIASHLKRNICKKCKLILVPGITSNIRVENKNKIPIFIKKCICGYFTRYPQVDHKDVYVDEYTKSN 121
The following BLAST results are available for this feature:
BLAST of Ribonuclease P protein component 4 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 Ribonuclease P protein component 4 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 Ribonuclease P protein component 4 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 Ribonuclease P protein component 4 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 1
Match NameE-valueIdentityDescription
rpp218.353e-630.34ribonuclease P 21 subunit [Source:ZFIN;Acc:ZDB-GEN... [more]
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BLAST of Ribonuclease P protein component 4 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 Ribonuclease P protein component 4 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 Ribonuclease P protein component 4 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 5
Match NameE-valueIdentityDescription
sp|Q8TGY1|RNP4_METKA1.462e-837.31Ribonuclease P protein component 4 OS=Methanopyrus... [more]
sp|Q8U0H6|RNP4_PYRFU3.394e-837.97Ribonuclease P protein component 4 OS=Pyrococcus f... [more]
sp|C6A4A4|RNP4_THESM8.752e-835.80Ribonuclease P protein component 4 OS=Thermococcus... [more]
sp|O59248|RNP4_PYRHO3.333e-732.61Ribonuclease P protein component 4 OS=Pyrococcus h... [more]
sp|Q9V166|RNP4_PYRAB4.207e-734.18Ribonuclease P protein component 4 OS=Pyrococcus a... [more]
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BLAST of Ribonuclease P protein component 4 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
U4LJ531.213e-1033.87Similar to Ribonuclease P protein subunit rpr2 acc... [more]
A0A257A6762.855e-1035.51Ribonuclease P protein component 4 OS=Desulfurococ... [more]
A0A2J6XL722.843e-835.24Ribonuclease P protein component 4 OS=Caldisphaera... [more]
D7D9N81.228e-727.36Ribonuclease P protein component 4 OS=Staphylother... [more]
A0A497GCH72.000e-730.93Ribonuclease P protein component 4 OS=Thermoprotei... [more]
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BLAST of Ribonuclease P protein component 4 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 1
Match NameE-valueIdentityDescription
rpp212.753e-627.27ribonuclease P protein subunit p21-like [Source:NC... [more]
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BLAST of Ribonuclease P protein component 4 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 Ribonuclease P protein component 4 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of Ribonuclease P protein component 4 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of Ribonuclease P protein component 4 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 Ribonuclease P protein component 4 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 1
Match NameE-valueIdentityDescription
SMESG000059595.11.807e-83100.00SMESG000059595.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30007206 ID=SMED30007206|Name=Ribonuclease P protein component 4|organism=Schmidtea mediterranea sexual|type=transcript|length=647bp
ATCTGATTAAACAGCGTGACGATTCTTAAGCGATCCATGACGAACTGAAT
GAATATATAACTGATGCTAATTTTACTTCAGATGTCTGGACCCACTGTGA
TGACAGTTAACACTTAACGATTATATCCCAGACAGAACGGCACCAATGTT
TGTTAAATATTACGAATTATTTTCTGTAGTTAATTGTTTTCAAAATTATG
TCCAACATATGTCATGGTAGAATTCAACATTTATACAATCAAGCTATTGC
TATTTCGAAATTAATCTCTGATGATATTAATTCTTCTGAAAATATTTTTA
AAATATCCTTGATTCGTAGTTATGTTGATGAAATATTTAAATATTGTCGA
AAATCTAAATTTCGCATTGCTTCACATTTAAAGAGAAATATTTGCAAGAA
ATGCAAACTGATTTTGGTTCCCGGAATTACTTCAAATATTAGAGTTGAAA
ATAAAAACAAAATTCCAATATTTATCAAAAAGTGTATATGTGGATATTTT
ACGAGGTATCCTCAAGTTGATCATAAAGATGTCTATGTTGATGAATACAC
GAAATCTAATTAATTTTATTTGAAGATTTGAGTTTTATAATACTTTAACT
TGTCCAATCTATTTTTTGGAAATATTTGTGAAGTTTTAGCAATTTCA
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protein sequence of SMED30007206-orf-1

>SMED30007206-orf-1 ID=SMED30007206-orf-1|Name=SMED30007206-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=122bp
MSNICHGRIQHLYNQAIAISKLISDDINSSENIFKISLIRSYVDEIFKYC
RKSKFRIASHLKRNICKKCKLILVPGITSNIRVENKNKIPIFIKKCICGY
FTRYPQVDHKDVYVDEYTKSN*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000101muscle cell
PLANA:0002056medial muscle cell
PLANA:0003001lateral region of the whole animal
Vocabulary: INTERPRO
TermDefinition
IPR007175Rpr2
Vocabulary: biological process
TermDefinition
GO:0001682tRNA 5'-leader removal
GO:0008033tRNA processing
GO:0090305nucleic acid phosphodiester bond hydrolysis
GO:0090501RNA phosphodiester bond hydrolysis
GO:0090502RNA phosphodiester bond hydrolysis, endonucleolytic
Vocabulary: molecular function
TermDefinition
GO:0004518nuclease activity
GO:0004519endonuclease activity
GO:0004526ribonuclease P activity
GO:0008270zinc ion binding
GO:0016787hydrolase activity
GO:0046872metal ion binding
Vocabulary: cellular component
TermDefinition
GO:0005737cytoplasm
GO:0030677ribonuclease P complex
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR007175RNAse P, Rpr2/Rpp21 subunitPFAMPF04032Rpr2coord: 8..88
e-value: 7.1E-12
score: 45.4
NoneNo IPR availableGENE3DG3DSA:2.20.25.200coord: 63..112
e-value: 1.2E-10
score: 42.9
NoneNo IPR availablePANTHERPTHR14742RIBONUCLEASE P SUBUNIT P21coord: 5..115
NoneNo IPR availablePANTHERPTHR14742:SF0RIBONUCLEASE P PROTEIN SUBUNIT P21coord: 5..115