DNA endonuclease RBBP8

Overview
NameDNA endonuclease RBBP8
Smed IDSMED30006905
Length (bp)1237
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 endonuclease RBBP8 (SMED30006905) t-SNE clustered cells

Violin plots show distribution of expression levels for DNA endonuclease RBBP8 (SMED30006905) 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 endonuclease RBBP8 (SMED30006905) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for DNA endonuclease RBBP8 (SMED30006905) 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



SMED30006905

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



PAGE Curations: 4

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
X1 cellSMED30006905h1SMcG0010585 SmedASXL_013936SmedAsxl_ww_GCZZ01PMID:26114597
Zhu et al., 2015		FACS sorted cell population asexual adult RNA-sequencing evidence
X2 cellSMED30006905h1SMcG0010585 SmedASXL_013936SmedAsxl_ww_GCZZ01PMID:26114597
Zhu et al., 2015		FACS sorted cell population asexual adult RNA-sequencing evidence
neoblastSMED30006905h1SMcG0010585 dd_Smed_v4_12447_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
zeta neoblastSMED30006905h1SMcG0010585 dd_Smed_v4_12447_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017		whole organism asexual adult single-cell RNA-sequencing evidence
Note: Hover over icons to view figure legend
Homology
[Close]
BLAST of DNA endonuclease RBBP8 vs. Ensembl Human
Match: RBBP8 (RB binding protein 8, endonuclease [Source:HGNC Symbol;Acc:HGNC:9891])

HSP 1 Score: 62.3882 bits (150), Expect = 8.754e-10
Identity = 25/59 (42.37%), Postives = 38/59 (64.41%), Query Frame = 2 
Query:  968 VRKKADRQELTGFDCIECRNYYGTLGISDSQIANRIQQCSRHRALYVPPSTPEGYWDIG 1144
            VRKK +R++L G  C EC  YY  +   + +   ++  CSRHR  Y+PP+TPE +W++G
Sbjct:  799 VRKKEERRKLLGHTCKECEIYYADMPAEERE--KKLASCSRHRFRYIPPNTPENFWEVG 855
[Close]
BLAST of DNA endonuclease RBBP8 vs. Ensembl Human
Match: RBBP8 (RB binding protein 8, endonuclease [Source:HGNC Symbol;Acc:HGNC:9891])

HSP 1 Score: 62.3882 bits (150), Expect = 8.754e-10
Identity = 25/59 (42.37%), Postives = 38/59 (64.41%), Query Frame = 2 
Query:  968 VRKKADRQELTGFDCIECRNYYGTLGISDSQIANRIQQCSRHRALYVPPSTPEGYWDIG 1144
            VRKK +R++L G  C EC  YY  +   + +   ++  CSRHR  Y+PP+TPE +W++G
Sbjct:  799 VRKKEERRKLLGHTCKECEIYYADMPAEERE--KKLASCSRHRFRYIPPNTPENFWEVG 855
[Close]
BLAST of DNA endonuclease RBBP8 vs. Ensembl Human
Match: RBBP8 (RB binding protein 8, endonuclease [Source:HGNC Symbol;Acc:HGNC:9891])

HSP 1 Score: 62.3882 bits (150), Expect = 9.083e-10
Identity = 25/59 (42.37%), Postives = 38/59 (64.41%), Query Frame = 2 
Query:  968 VRKKADRQELTGFDCIECRNYYGTLGISDSQIANRIQQCSRHRALYVPPSTPEGYWDIG 1144
            VRKK +R++L G  C EC  YY  +   + +   ++  CSRHR  Y+PP+TPE +W++G
Sbjct:  804 VRKKEERRKLLGHTCKECEIYYADMPAEERE--KKLASCSRHRFRYIPPNTPENFWEVG 860
[Close]
BLAST of DNA endonuclease RBBP8 vs. Ensembl Celegans
Match: com-1 (Completion Of Meiotic recombination (Budding yeast Com) related [Source:UniProtKB/TrEMBL;Acc:Q18606])

HSP 1 Score: 48.521 bits (114), Expect = 5.834e-6
Identity = 26/63 (41.27%), Postives = 34/63 (53.97%), Query Frame = 2 
Query:  959 GSTVRKKADRQELT-GFDCIECRNYYGTLGISDSQIANRIQQCSRHRALYVP-PSTPEGYWDI 1141
            G  +R K  R+ L  G  C  CR YY  L + + +    I Q SRHR ++ P P TPE YWD+
Sbjct:  425 GQVIRNKEMRKNLMHGAACKCCRAYYDGLEMDEKEKEQYINQISRHRYVHQPLPDTPERYWDL 487
[Close]
BLAST of DNA endonuclease RBBP8 vs. Ensembl Zebrafish
Match: rbbp8 (retinoblastoma binding protein 8 [Source:NCBI gene;Acc:503536])

HSP 1 Score: 62.3882 bits (150), Expect = 5.711e-10
Identity = 27/59 (45.76%), Postives = 38/59 (64.41%), Query Frame = 2 
Query:  968 VRKKADRQELTGFDCIECRNYYGTLGISDSQIANRIQQCSRHRALYVPPSTPEGYWDIG 1144
            VRKK +R++L G  C EC  YY  L   + +   ++  CSRHR  Y+PPSTPE +W++G
Sbjct:  551 VRKKDERRKLKGHYCKECEVYYADL--PEEEREKKLTSCSRHRYRYIPPSTPENFWEVG 607
[Close]
BLAST of DNA endonuclease RBBP8 vs. Ensembl Xenopus
Match: rfng (RFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase [Source:Xenbase;Acc:XB-GENE-483389])

HSP 1 Score: 64.6994 bits (156), Expect = 1.370e-10
Identity = 27/59 (45.76%), Postives = 39/59 (66.10%), Query Frame = 2 
Query:  968 VRKKADRQELTGFDCIECRNYYGTLGISDSQIANRIQQCSRHRALYVPPSTPEGYWDIG 1144
            VRKK +R+++ G  C EC  YY  L   + + A ++  CSRHR  Y+PPSTPE +W++G
Sbjct:  758 VRKKDERRKMLGHTCKECELYYADL--PEEERAKKLASCSRHRFRYIPPSTPENFWEVG 814
[Close]
BLAST of DNA endonuclease RBBP8 vs. Ensembl Xenopus
Match: rfng (RFNG O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase [Source:Xenbase;Acc:XB-GENE-483389])

HSP 1 Score: 64.6994 bits (156), Expect = 1.434e-10
Identity = 27/59 (45.76%), Postives = 39/59 (66.10%), Query Frame = 2 
Query:  968 VRKKADRQELTGFDCIECRNYYGTLGISDSQIANRIQQCSRHRALYVPPSTPEGYWDIG 1144
            VRKK +R+++ G  C EC  YY  L   + + A ++  CSRHR  Y+PPSTPE +W++G
Sbjct:  705 VRKKDERRKMLGHTCKECELYYADL--PEEERAKKLASCSRHRFRYIPPSTPENFWEVG 761
[Close]
BLAST of DNA endonuclease RBBP8 vs. Ensembl Mouse
Match: Rbbp8 (retinoblastoma binding protein 8, endonuclease [Source:MGI Symbol;Acc:MGI:2442995])

HSP 1 Score: 63.1586 bits (152), Expect = 3.451e-10
Identity = 26/59 (44.07%), Postives = 38/59 (64.41%), Query Frame = 2 
Query:  968 VRKKADRQELTGFDCIECRNYYGTLGISDSQIANRIQQCSRHRALYVPPSTPEGYWDIG 1144
            VRKK +R++L G  C EC  YY  L   + +   ++  CSRHR  Y+PP+TPE +W++G
Sbjct:  795 VRKKEERRKLLGHTCKECEIYYADLPAEERE--KKLASCSRHRFRYIPPNTPENFWEVG 851
[Close]
BLAST of DNA endonuclease RBBP8 vs. Ensembl Mouse
Match: Rbbp8 (retinoblastoma binding protein 8, endonuclease [Source:MGI Symbol;Acc:MGI:2442995])

HSP 1 Score: 63.1586 bits (152), Expect = 3.451e-10
Identity = 26/59 (44.07%), Postives = 38/59 (64.41%), Query Frame = 2 
Query:  968 VRKKADRQELTGFDCIECRNYYGTLGISDSQIANRIQQCSRHRALYVPPSTPEGYWDIG 1144
            VRKK +R++L G  C EC  YY  L   + +   ++  CSRHR  Y+PP+TPE +W++G
Sbjct:  795 VRKKEERRKLLGHTCKECEIYYADLPAEERE--KKLASCSRHRFRYIPPNTPENFWEVG 851
[Close]
BLAST of DNA endonuclease RBBP8 vs. UniProt/SwissProt
Match: sp|Q9ZRT1|GR1_ARATH (Protein gamma response 1 OS=Arabidopsis thaliana OX=3702 GN=GR1 PE=1 SV=2)

HSP 1 Score: 65.0846 bits (157), Expect = 4.841e-10
Identity = 31/73 (42.47%), Postives = 44/73 (60.27%), Query Frame = 2 
Query:  944 SIKYVGSTVRKKADRQELTGFDCIECRNYYGTLGISDSQIANRIQQC------SRHRALYVPPSTPEGYWDIG 1144
            S K+V S VRKKA+R+ L G +C +C+ +Y  +   +    N+  +C      SRHR  Y PP TPEG+W+IG
Sbjct:  512 SFKHVES-VRKKAERENLKGIECKQCKKFYDAVHPENEGNGNKSLRCEHHEGVSRHRYRYAPPMTPEGFWNIG 583
[Close]
BLAST of DNA endonuclease RBBP8 vs. UniProt/SwissProt
Match: sp|F6SNN2|CTIP_XENTR (DNA endonuclease RBBP8 OS=Xenopus tropicalis OX=8364 GN=rbbp8 PE=3 SV=1)

HSP 1 Score: 64.3142 bits (155), Expect = 9.577e-10
Identity = 27/60 (45.00%), Postives = 39/60 (65.00%), Query Frame = 2 
Query:  965 TVRKKADRQELTGFDCIECRNYYGTLGISDSQIANRIQQCSRHRALYVPPSTPEGYWDIG 1144
             VRKK +R+++ G  C EC  YY  L   + + A ++  CSRHR  Y+PPSTPE +W++G
Sbjct:  768 VVRKKDERRKMLGHTCKECELYYADL--PEEERAKKLASCSRHRFRYIPPSTPENFWEVG 825
[Close]
BLAST of DNA endonuclease RBBP8 vs. UniProt/SwissProt
Match: sp|Q6GNV6|CTIP_XENLA (DNA endonuclease RBBP8 OS=Xenopus laevis OX=8355 GN=rbbp8 PE=1 SV=1)

HSP 1 Score: 63.5438 bits (153), Expect = 1.910e-9
Identity = 26/59 (44.07%), Postives = 38/59 (64.41%), Query Frame = 2 
Query:  968 VRKKADRQELTGFDCIECRNYYGTLGISDSQIANRIQQCSRHRALYVPPSTPEGYWDIG 1144
            VR K +R+++ G  C EC  YY  L   + + A ++  CSRHR  Y+PPSTPE +W++G
Sbjct:  758 VRNKEERRKMLGHTCKECELYYADL--PEEERAKKLASCSRHRFRYIPPSTPENFWEVG 814
[Close]
BLAST of DNA endonuclease RBBP8 vs. UniProt/SwissProt
Match: sp|Q80YR6|CTIP_MOUSE (DNA endonuclease RBBP8 OS=Mus musculus OX=10090 GN=Rbbp8 PE=1 SV=1)

HSP 1 Score: 63.1586 bits (152), Expect = 2.414e-9
Identity = 26/59 (44.07%), Postives = 38/59 (64.41%), Query Frame = 2 
Query:  968 VRKKADRQELTGFDCIECRNYYGTLGISDSQIANRIQQCSRHRALYVPPSTPEGYWDIG 1144
            VRKK +R++L G  C EC  YY  L   + +   ++  CSRHR  Y+PP+TPE +W++G
Sbjct:  795 VRKKEERRKLLGHTCKECEIYYADLPAEERE--KKLASCSRHRFRYIPPNTPENFWEVG 851
[Close]
BLAST of DNA endonuclease RBBP8 vs. UniProt/SwissProt
Match: sp|Q99708|CTIP_HUMAN (DNA endonuclease RBBP8 OS=Homo sapiens OX=9606 GN=RBBP8 PE=1 SV=2)

HSP 1 Score: 62.3882 bits (150), Expect = 4.204e-9
Identity = 25/59 (42.37%), Postives = 38/59 (64.41%), Query Frame = 2 
Query:  968 VRKKADRQELTGFDCIECRNYYGTLGISDSQIANRIQQCSRHRALYVPPSTPEGYWDIG 1144
            VRKK +R++L G  C EC  YY  +   + +   ++  CSRHR  Y+PP+TPE +W++G
Sbjct:  799 VRKKEERRKLLGHTCKECEIYYADMPAEERE--KKLASCSRHRFRYIPPNTPENFWEVG 855
[Close]
BLAST of DNA endonuclease RBBP8 vs. TrEMBL
Match: A0A4Y2MHG5 (DNA endonuclease RBBP8 OS=Araneus ventricosus OX=182803 GN=rbbp8 PE=4 SV=1)

HSP 1 Score: 86.6557 bits (213), Expect = 1.731e-14
Identity = 34/69 (49.28%), Postives = 51/69 (73.91%), Query Frame = 2 
Query:  935 EEISIKYVGSTVRKKADRQELTGFDCIECRNYYGTLGISDSQIANRIQQCSRHRALYVPPSTPEGYWDI 1141
            EE + KY   TVRKK++R++LTGF+C EC  Y+  LG+S+ +   R+ +CSRHRA + PP+TPE +W++
Sbjct:  589 EEPNYKYKEETVRKKSERKQLTGFECKECEKYFADLGLSEEEKRERLNKCSRHRAKFPPPATPEHFWEL 657
[Close]
BLAST of DNA endonuclease RBBP8 vs. TrEMBL
Match: A0A4S2LSE4 (Uncharacterized protein OS=Opisthorchis felineus OX=147828 GN=CRM22_005442 PE=4 SV=1)

HSP 1 Score: 85.8853 bits (211), Expect = 2.758e-14
Identity = 36/74 (48.65%), Postives = 51/74 (68.92%), Query Frame = 2 
Query:  947 IKYVGSTVRKKADRQELTGFDCIECRNYYGTLGISDSQIANRIQQCSRHRALY-VPPSTPEGYWDIGRVTKEIP 1165
            +K+VG   R K  R++LTG  C  C+ YY +LG+S  Q+ANRI +CS+HR+++  PPSTP+G+WDI     E P
Sbjct:  539 VKHVGQVERNKEARRQLTGHSCASCKEYYTSLGLSSPQVANRIHRCSKHRSVHGSPPSTPKGFWDISIPDSEYP 612
[Close]
BLAST of DNA endonuclease RBBP8 vs. TrEMBL
Match: A0A419QG82 (Chaperone protein DnaJ 1 OS=Clonorchis sinensis OX=79923 GN=dnaJ1 PE=4 SV=1)

HSP 1 Score: 84.7297 bits (208), Expect = 9.201e-14
Identity = 37/74 (50.00%), Postives = 50/74 (67.57%), Query Frame = 2 
Query:  947 IKYVGSTVRKKADRQELTGFDCIECRNYYGTLGISDSQIANRIQQCSRHRALY-VPPSTPEGYWDIGRVTKEIP 1165
            +K VG   R K  R++LTG  C  C+ YY +LG+S  Q+ANRI +CS+HR+L+  PPSTP+G+WDI     E P
Sbjct:  558 VKVVGPVERNKEARRQLTGHSCASCKEYYTSLGLSSPQVANRIHRCSKHRSLHGSPPSTPKGFWDISIPDSEYP 631
[Close]
BLAST of DNA endonuclease RBBP8 vs. TrEMBL
Match: G7YU77 (Chaperone protein DnaJ 1 OS=Clonorchis sinensis OX=79923 GN=CLF_111026 PE=4 SV=1)

HSP 1 Score: 84.7297 bits (208), Expect = 9.287e-14
Identity = 37/74 (50.00%), Postives = 50/74 (67.57%), Query Frame = 2 
Query:  947 IKYVGSTVRKKADRQELTGFDCIECRNYYGTLGISDSQIANRIQQCSRHRALY-VPPSTPEGYWDIGRVTKEIP 1165
            +K VG   R K  R++LTG  C  C+ YY +LG+S  Q+ANRI +CS+HR+L+  PPSTP+G+WDI     E P
Sbjct:  441 VKVVGPVERNKEARRQLTGHSCASCKEYYTSLGLSSPQVANRIHRCSKHRSLHGSPPSTPKGFWDISIPDSEYP 514
[Close]
BLAST of DNA endonuclease RBBP8 vs. TrEMBL
Match: V4A3A8 (SAE2 domain-containing protein OS=Lottia gigantea OX=225164 GN=LOTGIDRAFT_234831 PE=4 SV=1)

HSP 1 Score: 82.8037 bits (203), Expect = 4.407e-13
Identity = 34/59 (57.63%), Postives = 43/59 (72.88%), Query Frame = 2 
Query:  968 VRKKADRQELTGFDCIECRNYYGTLGISDSQIANRIQQCSRHRALYVPPSTPEGYWDIG 1144
            V+K+ +R++L G  C EC  YY   G+SD +I NRIQ CSRHRA Y+PPSTPE +W IG
Sbjct:  864 VKKQDERRKLKGHSCKECYEYYKLTGMSDEEIQNRIQDCSRHRADYIPPSTPEHFWSIG 922
[Close]
BLAST of DNA endonuclease RBBP8 vs. Ensembl Nematostella
Match: EDO33184 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7SSX3])

HSP 1 Score: 69.3218 bits (168), Expect = 7.542e-15
Identity = 28/60 (46.67%), Postives = 41/60 (68.33%), Query Frame = 2 
Query:  965 TVRKKADRQELTGFDCIECRNYYGTLGISDSQIANRIQQCSRHRALYV-PPSTPEGYWDI 1141
             VR+K +R +L G+ C EC  YYG+L +   ++  R++ CSRHRA Y  PPSTP G+W++
Sbjct:    6 VVRRKDERAKLNGYSCRECEQYYGSLNLPQEELQKRLKLCSRHRAKYSPPPSTPPGFWNL 65
[Close]
BLAST of DNA endonuclease RBBP8 vs. Planmine SMEST
Match: SMESG000002586.1 (SMESG000002586.1)

HSP 1 Score: 330.487 bits (846), Expect = 1.969e-137
Identity = 192/200 (96.00%), Postives = 195/200 (97.50%), Query Frame = 2 
Query:  638 WIGVSRQKSVLDPFEIDTQISEEEDEQRSRVWADGIDPDETVLDCDFNDECHTSVSDGHNNKQCNSPIVIDLDETRLEGDFXXXXXXXXXXXXXXXXRIEEISIKYVGSTVRKKADRQELTGFDCIECRNYYGTLGISDSQIANRIQQCSRHRALYVPPSTPEGYWDIGRVTKEIPRXXXXXXXXXXXXXXQLPKREWIR 1237
            + G  RQKSVLDPFEIDTQISEEEDEQRS VWADGIDPDETVLDCDFNDECHTSVSDGHNNKQCNSPIVIDLDETRLEGDFSDSNEDKENEEQDDNKR E+ISIKYVGSTVRKKADRQELTGFDCIECRNYYGTLGISDSQIANRIQQCSRHRALY+PPSTPEGYWDIGRVTKEIPRDDKTKLKIRRTKKLQLPKREWIR
Sbjct:   82 FSGNCRQKSVLDPFEIDTQISEEEDEQRSHVWADGIDPDETVLDCDFNDECHTSVSDGHNNKQCNSPIVIDLDETRLEGDFSDSNEDKENEEQDDNKRKEKISIKYVGSTVRKKADRQELTGFDCIECRNYYGTLGISDSQIANRIQQCSRHRALYIPPSTPEGYWDIGRVTKEIPRDDKTKLKIRRTKKLQLPKREWIR 281

HSP 2 Score: 178.718 bits (452), Expect = 1.969e-137
Identity = 85/85 (100.00%), Postives = 85/85 (100.00%), Query Frame = 3 
Query:  288 MKLSHINKAKGRCEINEETSCVEPGKRLFRNFCSSPNMLNEEILAQNTCDLFTNKRNNIESIDRFDQVNEKLSTIMETEFQFSGN 542
            MKLSHINKAKGRCEINEETSCVEPGKRLFRNFCSSPNMLNEEILAQNTCDLFTNKRNNIESIDRFDQVNEKLSTIMETEFQFSGN
Sbjct:    1 MKLSHINKAKGRCEINEETSCVEPGKRLFRNFCSSPNMLNEEILAQNTCDLFTNKRNNIESIDRFDQVNEKLSTIMETEFQFSGN 85
The following BLAST results are available for this feature:
BLAST of DNA endonuclease RBBP8 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 3
Match NameE-valueIdentityDescription
RBBP88.754e-1042.37RB binding protein 8, endonuclease [Source:HGNC Sy... [more]
RBBP88.754e-1042.37RB binding protein 8, endonuclease [Source:HGNC Sy... [more]
RBBP89.083e-1042.37RB binding protein 8, endonuclease [Source:HGNC Sy... [more]
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BLAST of DNA endonuclease RBBP8 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 1
Match NameE-valueIdentityDescription
com-15.834e-641.27Completion Of Meiotic recombination (Budding yeast... [more]
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BLAST of DNA endonuclease RBBP8 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 DNA endonuclease RBBP8 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 1
Match NameE-valueIdentityDescription
rbbp85.711e-1045.76retinoblastoma binding protein 8 [Source:NCBI gene... [more]
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BLAST of DNA endonuclease RBBP8 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 2
Match NameE-valueIdentityDescription
rfng1.370e-1045.76RFNG O-fucosylpeptide 3-beta-N-acetylglucosaminylt... [more]
rfng1.434e-1045.76RFNG O-fucosylpeptide 3-beta-N-acetylglucosaminylt... [more]
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BLAST of DNA endonuclease RBBP8 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 2
Match NameE-valueIdentityDescription
Rbbp83.451e-1044.07retinoblastoma binding protein 8, endonuclease [So... [more]
Rbbp83.451e-1044.07retinoblastoma binding protein 8, endonuclease [So... [more]
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BLAST of DNA endonuclease RBBP8 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 5
Match NameE-valueIdentityDescription
sp|Q9ZRT1|GR1_ARATH4.841e-1042.47Protein gamma response 1 OS=Arabidopsis thaliana O... [more]
sp|F6SNN2|CTIP_XENTR9.577e-1045.00DNA endonuclease RBBP8 OS=Xenopus tropicalis OX=83... [more]
sp|Q6GNV6|CTIP_XENLA1.910e-944.07DNA endonuclease RBBP8 OS=Xenopus laevis OX=8355 G... [more]
sp|Q80YR6|CTIP_MOUSE2.414e-944.07DNA endonuclease RBBP8 OS=Mus musculus OX=10090 GN... [more]
sp|Q99708|CTIP_HUMAN4.204e-942.37DNA endonuclease RBBP8 OS=Homo sapiens OX=9606 GN=... [more]
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BLAST of DNA endonuclease RBBP8 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A4Y2MHG51.731e-1449.28DNA endonuclease RBBP8 OS=Araneus ventricosus OX=1... [more]
A0A4S2LSE42.758e-1448.65Uncharacterized protein OS=Opisthorchis felineus O... [more]
A0A419QG829.201e-1450.00Chaperone protein DnaJ 1 OS=Clonorchis sinensis OX... [more]
G7YU779.287e-1450.00Chaperone protein DnaJ 1 OS=Clonorchis sinensis OX... [more]
V4A3A84.407e-1357.63SAE2 domain-containing protein OS=Lottia gigantea ... [more]
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BLAST of DNA endonuclease RBBP8 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of DNA endonuclease RBBP8 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 endonuclease RBBP8 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 DNA endonuclease RBBP8 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 1
Match NameE-valueIdentityDescription
EDO331847.542e-1546.67Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7... [more]
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BLAST of DNA endonuclease RBBP8 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 DNA endonuclease RBBP8 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 1
Match NameE-valueIdentityDescription
SMESG000002586.11.969e-13796.00SMESG000002586.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30006905 ID=SMED30006905|Name=DNA endonuclease RBBP8|organism=Schmidtea mediterranea sexual|type=transcript|length=1237bp
AAAATCTTTAGTTATTTAATAATTATAATTAAATTTATATTTAAATATCT
TTAAGTTAAAATTAACGTTAAATGGAAATTTTTTTAAATAAATTTAATTC
TAAAATTGACAAAATAATTTCTAATTTTCATAAAGAACAACAAAATTCAT
TGACTAAATTTAATTCGCATATTGATAAAACAGTTTCTAAATTTTTTAAA
GAACAACAGAAGTTATATGCCGAAAATCAAAAAGAGAATGAAATTCTTAA
AACTAAACTGAGAGAATATGAATTGAATTCTAGGCAAATGAAATTATCGC
ATATAAATAAAGCTAAAGGACGTTGTGAAATCAATGAAGAAACTAGTTGC
GTTGAACCTGGGAAACGGTTATTCCGAAATTTTTGTTCCAGTCCGAACAT
GTTAAATGAAGAAATACTCGCACAGAATACTTGTGATTTGTTCACAAATA
AAAGAAATAATATAGAATCCATCGATAGATTTGATCAAGTTAATGAAAAA
TTGTCGACAATAATGGAGACAGAATTCCAGTTCTCAGGAAATTGGTTAGT
TAGATTAAATTATTATTTTGAAATAGTAGGAGTGTATGAGATCATTCGTT
TCCGCTGAGGATTGTTTTTCCTATATTTTATGAGGATTGGATTGGGGTGA
GCCGACAGAAATCCGTTCTCGATCCATTTGAGATAGACACTCAGATATCG
GAGGAAGAAGACGAGCAGCGTAGCCGTGTGTGGGCTGATGGTATCGATCC
CGATGAGACAGTGTTGGATTGCGATTTTAATGACGAGTGTCATACATCCG
TGAGTGACGGCCATAATAACAAGCAGTGTAATTCACCTATAGTGATTGAT
TTGGATGAAACGAGACTGGAAGGCGATTTCAGTGACAGCAATGAAGATAA
GGAGAACGAAGAACAAGATGACAATAAAAGAATAGAAGAAATATCCATCA
AGTATGTTGGATCGACTGTGCGCAAGAAAGCTGATAGACAGGAGTTGACA
GGATTTGATTGCATTGAATGCAGAAATTATTATGGAACTCTCGGAATAAG
TGACAGTCAAATTGCTAATAGAATCCAACAATGCAGCAGGCATCGGGCTT
TATACGTCCCTCCTAGCACCCCAGAAGGGTACTGGGACATCGGCCGAGTG
ACAAAAGAGATTCCACGGGATGATAAAACCAAATTAAAAATTAGAAGAAC
TAAGAAGTTGCAGCTTCCTAAGAGAGAATGGATTCGA
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protein sequence of SMED30006905-orf-1

>SMED30006905-orf-1 ID=SMED30006905-orf-1|Name=SMED30006905-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=179bp
MEIFLNKFNSKIDKIISNFHKEQQNSLTKFNSHIDKTVSKFFKEQQKLYA
ENQKENEILKTKLREYELNSRQMKLSHINKAKGRCEINEETSCVEPGKRL
FRNFCSSPNMLNEEILAQNTCDLFTNKRNNIESIDRFDQVNEKLSTIMET
EFQFSGNWLVRLNYYFEIVGVYEIIRFR*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000014zeta neoblast
PLANA:0000429neoblast
PLANA:0002109X1 cell
PLANA:0002111X2 cell
Vocabulary: molecular function
TermDefinition
GO:0004519endonuclease activity
Vocabulary: biological process
TermDefinition
GO:0006281DNA repair
GO:0090305nucleic acid phosphodiester bond hydrolysis
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availableCOILSCoilCoilcoord: 49..69