Pre-mRNA cleavage complex 2 protein Pcf11

Overview
NamePre-mRNA cleavage complex 2 protein Pcf11
Smed IDSMED30013603
Length (bp)1461
Neoblast Clusters

Zeng et. al., 2018



▻ Overview

▻ Neoblast 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 Pre-mRNA cleavage complex 2 protein Pcf11 (SMED30013603) t-SNE clustered cells

Violin plots show distribution of expression levels for Pre-mRNA cleavage complex 2 protein Pcf11 (SMED30013603) in cells (dots) of each of the 12 neoblast clusters.

 

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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.
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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



SMED30013603

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



PAGE Curations: 1

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
X1 cellSMED30013603SMESG000059887.1 SmedASXL_007387SmedAsxl_ww_GCZZ01PMID:26114597
Zhu et al., 2015		FACS sorted cell population asexual adult RNA-sequencing evidence
Note: Hover over icons to view figure legend
Homology
[Close]
BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. Ensembl Human
Match: PCF11 (PCF11 cleavage and polyadenylation factor subunit [Source:HGNC Symbol;Acc:HGNC:30097])

HSP 1 Score: 68.5514 bits (166), Expect = 1.629e-11
Identity = 45/164 (27.44%), Postives = 78/164 (47.56%), Query Frame = 1 
Query:  592 DLKNYSLSKFSIFNDSTARKLYEGIPCGICHKRFRNTENPEFKRHLDFHFVKSQTFKIV------RRYTWNYSKWTE------------NMFVKK-------SNQMPCKQEFVRTIQLSEDNQRNKCGICREIFDVRFDNEKDSFMLQNAIVQENKPYHPTCIE 1008
            DL N+++ +     DS   +LY GI C  C  RF  ++   +  HLD+H+ +++T K V      RR+ ++ + W E            + F +K         Q   K++  +++          C IC+E F+  +D E++ + L+NAI  + K YHP+C E
Sbjct: 1317 DLTNFTVEELKQRYDSVINRLYTGIQCYSCGMRFTTSQTDVYADHLDWHYRQNRTEKDVSRKVTHRRWYYSLTDWIEFEEIADLEERAKSQFFEKVHEEVVLKTQEAAKEKEFQSVPAGPAGAVESCEICQEQFEQYWDEEEEEWHLKNAIRVDGKIYHPSCYE 1480
[Close]
BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. Ensembl Zebrafish
Match: pcf11 (PCF11 cleavage and polyadenylation factor subunit [Source:ZFIN;Acc:ZDB-GENE-041114-175])

HSP 1 Score: 65.855 bits (159), Expect = 7.909e-11
Identity = 43/165 (26.06%), Postives = 81/165 (49.09%), Query Frame = 1 
Query:  592 DLKNYSLSKFSIFNDSTARKLYEGIPCGICHKRFRNTENPEFKRHLDFHFVKSQTFKIV------RRYTWNYSKWTE--------------------NMFVKKSNQMPCKQEFVRTIQLSEDNQRNKCGICREIFDVRFDNEKDSFMLQNAIVQENKPYHPTCIE 1008
            DL  + L      ++S   KLY GI C  C  RF  ++   +  HLD+H+ ++++ K +      RR+ ++ + W E                       V+K+ +   ++EF ++++ + D     C IC+E F++ ++ E++ + L+NAI  + K YHP+C E
Sbjct: 1220 DLTGFILDDMKQRHESIITKLYTGIQCYSCGMRFTASQTDVYADHLDWHYRQNRSEKDISKKVTHRRWYYSLTDWIEFEEIADLEERAKSQFFEKVHEEVVQKTQEAAKEREF-QSVKAAADVVHELCEICQEQFEMYWEEEEEEWHLKNAIRVDEKTYHPSCYE 1383
[Close]
BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. Ensembl Zebrafish
Match: pcf11 (PCF11 cleavage and polyadenylation factor subunit [Source:ZFIN;Acc:ZDB-GENE-041114-175])

HSP 1 Score: 65.855 bits (159), Expect = 8.324e-11
Identity = 43/165 (26.06%), Postives = 81/165 (49.09%), Query Frame = 1 
Query:  592 DLKNYSLSKFSIFNDSTARKLYEGIPCGICHKRFRNTENPEFKRHLDFHFVKSQTFKIV------RRYTWNYSKWTE--------------------NMFVKKSNQMPCKQEFVRTIQLSEDNQRNKCGICREIFDVRFDNEKDSFMLQNAIVQENKPYHPTCIE 1008
            DL  + L      ++S   KLY GI C  C  RF  ++   +  HLD+H+ ++++ K +      RR+ ++ + W E                       V+K+ +   ++EF ++++ + D     C IC+E F++ ++ E++ + L+NAI  + K YHP+C E
Sbjct: 1214 DLTGFILDDMKQRHESIITKLYTGIQCYSCGMRFTASQTDVYADHLDWHYRQNRSEKDISKKVTHRRWYYSLTDWIEFEEIADLEERAKSQFFEKVHEEVVQKTQEAAKEREF-QSVKAAADVVHELCEICQEQFEMYWEEEEEEWHLKNAIRVDEKTYHPSCYE 1377
[Close]
BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. Ensembl Xenopus
Match: pcf11 (PCF11, cleavage and polyadenylation factor subunit [Source:NCBI gene;Acc:100170197])

HSP 1 Score: 62.003 bits (149), Expect = 1.826e-9
Identity = 42/165 (25.45%), Postives = 74/165 (44.85%), Query Frame = 1 
Query:  592 DLKNYSLSKFSIFNDSTARKLYEGIPCGICHKRFRNTENPEFKRHLDFHFVKSQTFKIV------RRYTWNYSKWTE--------------------NMFVKKSNQMPCKQEFVRTIQLSEDNQRNKCGICREIFDVRFDNEKDSFMLQNAIVQENKPYHPTCIE 1008
            DL  + +       DS   +LY GI C  C  RF  ++   +  HLD+H+ +++T K V      RR+ ++   W E                       + K+ +   ++EF+ ++          C IC+E F+  +D E++ + L+NA+   +K YHP+C E
Sbjct: 1372 DLTTFQMEDLKQRYDSVINRLYTGIQCYSCGMRFTKSQTDIYADHLDWHYRQNRTEKDVSRKITHRRWYYSLKDWIEFEEIADLEERAKSQFFEKVHEEVILKTQEAAKEKEFL-SVPAGPAGADEICEICQEQFEQYWDEEEEEWHLKNAMRMNDKIYHPSCYE 1535
[Close]
BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. Ensembl Xenopus
Match: pcf11 (PCF11, cleavage and polyadenylation factor subunit [Source:NCBI gene;Acc:100170197])

HSP 1 Score: 62.003 bits (149), Expect = 1.875e-9
Identity = 42/165 (25.45%), Postives = 74/165 (44.85%), Query Frame = 1 
Query:  592 DLKNYSLSKFSIFNDSTARKLYEGIPCGICHKRFRNTENPEFKRHLDFHFVKSQTFKIV------RRYTWNYSKWTE--------------------NMFVKKSNQMPCKQEFVRTIQLSEDNQRNKCGICREIFDVRFDNEKDSFMLQNAIVQENKPYHPTCIE 1008
            DL  + +       DS   +LY GI C  C  RF  ++   +  HLD+H+ +++T K V      RR+ ++   W E                       + K+ +   ++EF+ ++          C IC+E F+  +D E++ + L+NA+   +K YHP+C E
Sbjct: 1464 DLTTFQMEDLKQRYDSVINRLYTGIQCYSCGMRFTKSQTDIYADHLDWHYRQNRTEKDVSRKITHRRWYYSLKDWIEFEEIADLEERAKSQFFEKVHEEVILKTQEAAKEKEFL-SVPAGPAGADEICEICQEQFEQYWDEEEEEWHLKNAMRMNDKIYHPSCYE 1627
[Close]
BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. Ensembl Mouse
Match: Pcf11 (PCF11 cleavage and polyadenylation factor subunit [Source:MGI Symbol;Acc:MGI:1919579])

HSP 1 Score: 68.9366 bits (167), Expect = 9.481e-12
Identity = 45/164 (27.44%), Postives = 78/164 (47.56%), Query Frame = 1 
Query:  592 DLKNYSLSKFSIFNDSTARKLYEGIPCGICHKRFRNTENPEFKRHLDFHFVKSQTFKIV------RRYTWNYSKWTE------------NMFVKK-------SNQMPCKQEFVRTIQLSEDNQRNKCGICREIFDVRFDNEKDSFMLQNAIVQENKPYHPTCIE 1008
            DL N+++ +     DS   +LY GI C  C  RF  ++   +  HLD+H+ +++T K V      RR+ ++ + W E            + F +K         Q   K++  +++          C IC+E F+  +D E++ + L+NAI  + K YHP+C E
Sbjct: 1315 DLTNFTIEELKQRYDSVINRLYTGIQCYSCGMRFTTSQTDVYADHLDWHYRQNRTEKDVSRKVTHRRWYYSLTDWIEFEEIADLEERAKSQFFEKVHEEVVLKTQEAAKEKEFQSVPAGPAGAVESCEICQEQFEQYWDEEEEEWHLKNAIRVDGKIYHPSCYE 1478
[Close]
BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. Ensembl Mouse
Match: Pcf11 (PCF11 cleavage and polyadenylation factor subunit [Source:MGI Symbol;Acc:MGI:1919579])

HSP 1 Score: 68.5514 bits (166), Expect = 1.087e-11
Identity = 45/164 (27.44%), Postives = 78/164 (47.56%), Query Frame = 1 
Query:  592 DLKNYSLSKFSIFNDSTARKLYEGIPCGICHKRFRNTENPEFKRHLDFHFVKSQTFKIV------RRYTWNYSKWTE------------NMFVKK-------SNQMPCKQEFVRTIQLSEDNQRNKCGICREIFDVRFDNEKDSFMLQNAIVQENKPYHPTCIE 1008
            DL N+++ +     DS   +LY GI C  C  RF  ++   +  HLD+H+ +++T K V      RR+ ++ + W E            + F +K         Q   K++  +++          C IC+E F+  +D E++ + L+NAI  + K YHP+C E
Sbjct: 1238 DLTNFTIEELKQRYDSVINRLYTGIQCYSCGMRFTTSQTDVYADHLDWHYRQNRTEKDVSRKVTHRRWYYSLTDWIEFEEIADLEERAKSQFFEKVHEEVVLKTQEAAKEKEFQSVPAGPAGAVESCEICQEQFEQYWDEEEEEWHLKNAIRVDGKIYHPSCYE 1401
[Close]
BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. UniProt/SwissProt
Match: sp|O94913|PCF11_HUMAN (Pre-mRNA cleavage complex 2 protein Pcf11 OS=Homo sapiens OX=9606 GN=PCF11 PE=1 SV=3)

HSP 1 Score: 68.5514 bits (166), Expect = 7.822e-11
Identity = 45/164 (27.44%), Postives = 78/164 (47.56%), Query Frame = 1 
Query:  592 DLKNYSLSKFSIFNDSTARKLYEGIPCGICHKRFRNTENPEFKRHLDFHFVKSQTFKIV------RRYTWNYSKWTE------------NMFVKK-------SNQMPCKQEFVRTIQLSEDNQRNKCGICREIFDVRFDNEKDSFMLQNAIVQENKPYHPTCIE 1008
            DL N+++ +     DS   +LY GI C  C  RF  ++   +  HLD+H+ +++T K V      RR+ ++ + W E            + F +K         Q   K++  +++          C IC+E F+  +D E++ + L+NAI  + K YHP+C E
Sbjct: 1317 DLTNFTVEELKQRYDSVINRLYTGIQCYSCGMRFTTSQTDVYADHLDWHYRQNRTEKDVSRKVTHRRWYYSLTDWIEFEEIADLEERAKSQFFEKVHEEVVLKTQEAAKEKEFQSVPAGPAGAVESCEICQEQFEQYWDEEEEEWHLKNAIRVDGKIYHPSCYE 1480
[Close]
BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. TrEMBL
Match: A0A0R3S9K3 (CID domain-containing protein OS=Hymenolepis diminuta OX=6216 GN=HDID_LOCUS937 PE=4 SV=1)

HSP 1 Score: 84.7297 bits (208), Expect = 1.709e-13
Identity = 46/161 (28.57%), Postives = 77/161 (47.83%), Query Frame = 1 
Query:  592 DLKNYSLSKFSIFNDSTARKLYEGIPCGICHKRFRNTENPEFKRHLDFHFVKSQT---FKIVRRYTWNYSKWTENMFVKKSNQMPCKQEFVRTIQLSEDNQRNKCGICREIFDVRFDNEKDSFMLQNAIVQENKPYHPTCIEVNKRLILVIIKSYSQRKVN 1065
            D+K+YS  KF     +    LY G  C  C  RF + ++P F  HLD+H++K+ T    +  R+Y    S W     ++ +N     +          D + N+C +C + FD  FD ++  +ML  AI+++ K YHP C E   +   V + + + + V 
Sbjct:  670 DIKDYSWEKFRRVYVAEVDALYSGFQCLQCGLRFASEDDPAFVAHLDYHYMKNSTENQGRRSRKYYQPASNWLSYGLMEHANNPDTNEVKEYRCPAFADEKLNECAVCGDKFDKIFDRQEGEWMLLGAIIEDGKAYHPICREDAGKQFPVAVDTLTWQSVG 830
[Close]
BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. TrEMBL
Match: A0A2H1C1Z8 (Pre-mRNA cleavage complex 2 protein Pcf11 OS=Fasciola hepatica OX=6192 GN=D915_008334 PE=4 SV=1)

HSP 1 Score: 84.3445 bits (207), Expect = 2.554e-13
Identity = 52/155 (33.55%), Postives = 79/155 (50.97%), Query Frame = 1 
Query:  592 DLKNYSLSKFSIFNDSTARKLYEGIPCGICHKRFRNTENPEFKRHLDFHFVK---------SQTFKIVRRYTWNYSKWTE--NMFVKKSNQMPCKQE-----FVRTIQLSEDNQRNKCGICREIFDVRFDNEKDSFMLQNAIVQENKPYHPTCIE 1008
            +LK Y+   F +   S    LY G  CG C  RF++ ++ EF  HLD+H++K         S+ F    RY W +S+ T   N   +    +P  QE     FV       D  +N C +C E FDV +D E++ +ML++A++ ++K YHP C E
Sbjct:  733 ELKTYAWETFKVPCPSEVDVLYSGHQCGQCGLRFQSEQSAEFASHLDYHYMKNSRDDQGHRSRNFYQASRY-WLFSEITRDGNAPFEPGTPVPDLQECKCPAFV-------DPSKNVCAVCNEKFDVFWDQEEEEWMLRDAVMAQDKVYHPICQE 879
[Close]
BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. TrEMBL
Match: A0A0R3T8L1 (CID domain-containing protein OS=Rodentolepis nana OX=102285 GN=HNAJ_LOCUS3398 PE=4 SV=1)

HSP 1 Score: 84.3445 bits (207), Expect = 2.612e-13
Identity = 46/161 (28.57%), Postives = 78/161 (48.45%), Query Frame = 1 
Query:  592 DLKNYSLSKFSIFNDSTARKLYEGIPCGICHKRFRNTENPEFKRHLDFHFVKSQTFKIVRR---YTWNYSKWTENMFVKKSNQMPCKQEFVRTIQLSEDNQRNKCGICREIFDVRFDNEKDSFMLQNAIVQENKPYHPTCIEVNKRLILVIIKSYSQRKVN 1065
            D+K+YS  KF     +    LY G  C  C  RF + ++P F  HLD+H++K+ T    RR   Y    S W     ++ ++     +          D + N+C +C + FD  FD ++  +ML  AI+++ K YHP C E   +   V + +++ ++V 
Sbjct:  671 DIKDYSWEKFRRVYMAEIDALYSGFQCLQCGLRFASEDDPTFVAHLDYHYMKNSTENQGRRSRNYYQPASNWLSYGLMEDTSDPDTNEVKEYKCPAFADEKLNECAVCGDKFDKIFDRQEGEWMLLGAIIEDGKAYHPICREDAGKQFPVAVDTFTCQEVG 831
[Close]
BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. TrEMBL
Match: A0A504YBZ4 (Pre-mRNA cleavage complex 2 protein Pcf11 OS=Fasciola gigantica OX=46835 GN=FGIG_00632 PE=4 SV=1)

HSP 1 Score: 83.5741 bits (205), Expect = 4.074e-13
Identity = 52/155 (33.55%), Postives = 79/155 (50.97%), Query Frame = 1 
Query:  592 DLKNYSLSKFSIFNDSTARKLYEGIPCGICHKRFRNTENPEFKRHLDFHFVK---------SQTFKIVRRYTWNYSKWTE--NMFVKKSNQMPCKQE-----FVRTIQLSEDNQRNKCGICREIFDVRFDNEKDSFMLQNAIVQENKPYHPTCIE 1008
            +LK Y+   F +   S    LY G  CG C  RF++ ++ EF  HLD+H++K         S+ F    RY W +S+ T   N   +    +P  QE     FV       D  +N C +C E FDV +D E++ +ML++A++ ++K YHP C E
Sbjct:  733 ELKTYAWETFKVPCPSEVDVLYSGHQCGQCGLRFQSEQSAEFASHLDYHYMKNSRDDQGHRSRNFYQASRY-WLFSEITRDGNAPFEPGTPVPDLQECKCPAFV-------DPSKNVCAVCNEKFDVFWDQEEEEWMLRDAVMVQDKVYHPICQE 879
[Close]
BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. TrEMBL
Match: A0A183B6Z6 (Uncharacterized protein OS=Echinostoma caproni OX=27848 GN=ECPE_LOCUS14981 PE=4 SV=1)

HSP 1 Score: 83.1889 bits (204), Expect = 5.767e-13
Identity = 50/150 (33.33%), Postives = 79/150 (52.67%), Query Frame = 1 
Query:  592 DLKNYSLSKFSIFNDSTARKLYEGIPCGICHKRFRNTENPEFKRHLDFHFVK---------SQTFKIVRRYTWNYSKWTE--NMFVKKSNQMPCKQEFVRTIQLSEDNQRNKCGICREIFDVRFDNEKDSFMLQNAIVQENKPYHPTCIE 1008
            +LK+YS   F +   S    LY G  CG C  RF++  +PEF  HLD+H++K         S+ F    RY W +S+ T   N   +    +P  QE         D  +N C +C E FD+ +D++++ +ML++A++ ++K YHP C E
Sbjct:  702 ELKSYSWETFKMPCPSEIDSLYNGHQCGQCGLRFQSDRSPEFASHLDYHYMKNSRDDQGHRSRNFYQASRY-WLFSETTRDGNAPFEPGTPVPDLQEC--KCPAFSDPSKNVCAVCNEKFDLFWDHDEEEWMLRDAVLVQDKVYHPICQE 848
[Close]
BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. Ensembl Cavefish
Match: pcf11 (PCF11 cleavage and polyadenylation factor subunit [Source:NCBI gene;Acc:103026916])

HSP 1 Score: 62.3882 bits (150), Expect = 8.281e-10
Identity = 44/174 (25.29%), Postives = 81/174 (46.55%), Query Frame = 1 
Query:  565 DDLPLVDEFDLKNYSLSKFSIFNDSTARKLYEGIPCGICHKRFRNTENPEFKRHLDFHFVKSQTFKIV------RRYTWNYSKWTE--------------------NMFVKKSNQMPCKQEFVRTIQLSEDNQRNKCGICREIFDVRFDNEKDSFMLQNAIVQENKPYHPTCIE 1008
            D+LP     D+  + L       +    KLY GI C  C  RF  ++   +  HLD+H+ ++++ K +      RR+ +  + W E                       V+K+ +   ++EF ++++ + D     C IC+E  ++ ++ E++ + L+NAI  E K YHP+C E
Sbjct: 1258 DNLP-----DMTGFGLEDMKQRYECVITKLYTGIQCYSCGMRFTASQTDVYADHLDWHYRQNRSEKDISKKITHRRWYYTLTDWIEFEEIADLEERAKSQFFEKVHEEVVQKTQEAAKEREF-QSVKAAPDVVDESCEICQEQLEMYWEEEEEEWHLKNAIRVEGKIYHPSCYE 1425
[Close]
BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. Ensembl Medaka
Match: pcf11 (PCF11 cleavage and polyadenylation factor subunit [Source:NCBI gene;Acc:101164244])

HSP 1 Score: 56.225 bits (134), Expect = 6.990e-8
Identity = 77/353 (21.81%), Postives = 136/353 (38.53%), Query Frame = 1 
Query:  100 PPPHMQMQTSAQLPQPHQYGMPINRHVNPSIQMCQSAPSHPNTQLHPNMQMEIN---SQVEWNSRNNQICPNVNR-----------FAHNNSLCYRGNMNRPVHESLEKCSNVSRIRIPSRATDNSEEICNKPYKTD-ELDASSKADEYDPANYVDLIQDYPTYNPSNLSDDLPLVDEFDLKNYSLSKFSIFNDSTARKLYEGIPCGICHKRFRNTENPEFKRHLDFHF----VKSQTFKIV--RRYTWNYSKWTE------------NMFVKKSN-------QMPCKQEFVRTIQLSEDNQRNKCGICREIFDVRFDNEKDSFMLQNAIVQENKPYHPTCIEVNKRLILVII 1038
            P P++Q       P  + + +PI ++   ++Q  Q  P +P     P      N    Q    S  N   PN+N            F   N + +         ++     +  ++ + S  +        KP + D  L ASS              +     +     +D+P +  F + +  L   S+       KLY G  C +C  RF  T+   +  HLD+HF       Q  K V  RR+ +  + W E            + F +K N       Q   K++  ++++ ++D     C IC+E F+  +  E++ + L+NAI  + K +HP+C E  K++ L  +
Sbjct: 1061 PQPNLQPHVRQMAPDVYNHPVPIQQNFAMTLQPFQE-PMNPQFPPAPMATGNFNPHIGQPGPGSFYNPPAPNINMQQPVMASMNAPFLPPNQVSFEPQFP----QAAASGEHFGQVDVESLLSKLISTGIIKPSQPDPALPASSGEPAA--VAPPAAPEPEEEEDQEVEENDIPDLTGFSIDHMKLRYESVVT-----KLYTGNQCCLCSMRFSATQTDLYADHLDWHFRQNHADKQASKKVTHRRWYYTLTDWIEFEEIADLEERAKSHFFEKENEEVVQKTQAAAKEKEFQSVRATKDQVGESCEICQEPFETYWVEEEEDWFLKNAIKVDEKNFHPSCFEDYKKVSLPFL 1401
[Close]
BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. Ensembl Medaka
Match: pcf11 (PCF11 cleavage and polyadenylation factor subunit [Source:NCBI gene;Acc:101164244])

HSP 1 Score: 53.1434 bits (126), Expect = 5.451e-7
Identity = 76/347 (21.90%), Postives = 133/347 (38.33%), Query Frame = 1 
Query:  100 PPPHMQMQTSAQLPQPHQYGMPINRHVNPSIQMCQSAPSHPNTQLHPNMQMEIN---SQVEWNSRNNQICPNVNR-----------FAHNNSLCYRGNMNRPVHESLEKCSNVSRIRIPSRATDNSEEICNKPYKTD-ELDASSKADEYDPANYVDLIQDYPTYNPSNLSDDLPLVDEFDLKNYSLSKFSIFNDSTARKLYEGIPCGICHKRFRNTENPEFKRHLDFHF----VKSQTFKIV--RRYTWNYSKWTE------------NMFVKKSN-------QMPCKQEFVRTIQLSEDNQRNKCGICREIFDVRFDNEKDSFMLQNAIVQENKPYHPTCIEVNKR 1020
            P P++Q       P  + + +PI ++   ++Q  Q  P +P     P      N    Q    S  N   PN+N            F   N + +         ++     +  ++ + S  +        KP + D  L ASS              +     +     +D+P +  F + +  L   S+       KLY G  C +C  RF  T+   +  HLD+HF       Q  K V  RR+ +  + W E            + F +K N       Q   K++  ++++ ++D     C IC+E F+  +  E++ + L+NAI  + K +HP+C E  K+
Sbjct: 1061 PQPNLQPHVRQMAPDVYNHPVPIQQNFAMTLQPFQE-PMNPQFPPAPMATGNFNPHIGQPGPGSFYNPPAPNINMQQPVMASMNAPFLPPNQVSFEPQFP----QAAASGEHFGQVDVESLLSKLISTGIIKPSQPDPALPASSGEPAA--VAPPAAPEPEEEEDQEVEENDIPDLTGFSIDHMKLRYESVVT-----KLYTGNQCCLCSMRFSATQTDLYADHLDWHFRQNHADKQASKKVTHRRWYYTLTDWIEFEEIADLEERAKSHFFEKENEEVVQKTQAAAKEKEFQSVRATKDQVGESCEICQEPFETYWVEEEEDWFLKNAIKVDEKNFHPSCFEDYKK 1395
[Close]
BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. Planmine SMEST
Match: SMESG000059887.1 (SMESG000059887.1)

HSP 1 Score: 684.1 bits (1764), Expect = 0.000e+0
Identity = 323/329 (98.18%), Postives = 324/329 (98.48%), Query Frame = 1 
Query:   34 QIPFNMRMPPQNMRVSAPYLNRPPPHMQMQTSAQLPQPHQYGMPINRHVNPSIQMCQSAPSHPNTQLHPNMQMEINSQVEWNSRNNQICPNVNRFAHNNSLCYRGNMNRPVHESLEKCSNVSRIRIPSRATDNSEEICNKPYKTDELDASSKADEYDPANYVDLIQDYPTYNPSNLSDDLPLVDEFDLKNYSLSKFSIFNDSTARKLYEGIPCGICHKRFRNTENPEFKRHLDFHFVKSQTFKIVRRYTWNYSKWTENMFVKKSNQMPCKQEFVRTIQLSEDNQRNKCGICREIFDVRFDNEKDSFMLQNAIVQENKPYHPTCIEVNKR 1020
            QIPFNMRMPPQNMRVSAPYLNRPPPHMQMQTSAQLPQPHQYGMPINRHVNPSIQMCQSAP HPNTQLHPNMQMEINSQV+WNSRNNQIC NVNRFAHNNSLCYRGNMNRPVHESLEKCSNVSRIRIPSRATDNSEEICNKPYKTDEL AS KADEYDPANYVDLIQDYPTYNPSNLSDDLPLVDEFDLKNYSLSKFSI NDSTARKLYEGIPCGICHKRFRNTENPEFKRHLDFHFVKSQTFKIVRRYTWNYSKWTENMFVKKSNQMPCKQEFVRTIQLSEDNQRNKCGICREIFDVRFDNEKDSFMLQNAIVQENKPYHPTCIEVNKR
Sbjct:  440 QIPFNMRMPPQNMRVSAPYLNRPPPHMQMQTSAQLPQPHQYGMPINRHVNPSIQMCQSAPRHPNTQLHPNMQMEINSQVDWNSRNNQICSNVNRFAHNNSLCYRGNMNRPVHESLEKCSNVSRIRIPSRATDNSEEICNKPYKTDELGASCKADEYDPANYVDLIQDYPTYNPSNLSDDLPLVDEFDLKNYSLSKFSILNDSTARKLYEGIPCGICHKRFRNTENPEFKRHLDFHFVKSQTFKIVRRYTWNYSKWTENMFVKKSNQMPCKQEFVRTIQLSEDNQRNKCGICREIFDVRFDNEKDSFMLQNAIVQENKPYHPTCIEVNKR 768
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BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. Planmine SMEST
Match: SMESG000059830.1 (SMESG000059830.1)

HSP 1 Score: 93.9745 bits (232), Expect = 5.182e-20
Identity = 51/146 (34.93%), Postives = 78/146 (53.42%), Query Frame = 1 
Query:  604 YSLSKFSIFNDSTARKLYEGIPCGICHKRFRNTENPEFKRHLDFHFVKSQTFKIVRRYTWNYSK----WTENMFVKKSN-------QMPCKQEFVRTIQLSEDNQRNKCGICREIFDVRFDNEKDSFMLQNAIVQENKPYHPTCIE 1008
            YS + F + ND    +LY G  C +C  RF+N ++ EF+ HLD+HF K+ T     R   NY      W     +K +           C+Q+F     + ED + NKC +C E F+V +D+E+++FMLQ+  +  +K YHP C+E
Sbjct:  549 YSRNCFKMCNDKEISELYSGHQCDLCGTRFKNKDSKEFELHLDYHFYKNTTSLTSTRKGRNYVTGSRLWVLGGSMKAAEPEYNYEQTTSCEQKF--KCPMFEDVEMNKCAVCMEGFEVAWDDEEEAFMLQDGQLHNDKVYHPICLE 692
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BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. Planmine SMEST
Match: SMESG000059890.1 (SMESG000059890.1)

HSP 1 Score: 78.9518 bits (193), Expect = 2.880e-15
Identity = 46/160 (28.75%), Postives = 80/160 (50.00%), Query Frame = 1 
Query:  586 EFDLKNYSLSKFSIFNDSTARKLYEGIPCGICHKRFRNTENPEFKRHLDFHFVK----SQTFKIVRRYTWNYSKWT------ENMFVKKSNQMPCKQEFVRTIQLSEDNQRNKCGICREIFDVRFDNEKDSFMLQNAIVQENKPYHPTC-IEVNKRLILV 1032
            + D   YS   F+ FN     +L++   C IC  RF +  +  F  H+D+H++K    S+T    R YT     W       E   V +S  +  K E  R + L E  +  +C +C + FDV +D ++D+++L NA++ ++K YH  C +++ K   ++
Sbjct:  579 DIDFTKYSYELFNKFNREAVEELHKDYQCDICGIRFADKTSSRFVNHMDYHYLKNSIYSKTSSKQRSYTKGSKSWIIDSNNRETTTVAESKIVNVKPEEKRFLILDEYPEHEQCMVCFDKFDVVWDRDEDNYILANAVLVDDKAYHQNCTVDIGKSFKVI 738
[Close]
BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. Planmine SMEST
Match: SMESG000059830.1 (SMESG000059830.1)

HSP 1 Score: 55.0694 bits (131), Expect = 4.745e-9
Identity = 24/57 (42.11%), Postives = 39/57 (68.42%), Query Frame = 1 
Query:  838 CKQEFVRTIQLSEDNQRNKCGICREIFDVRFDNEKDSFMLQNAIVQENKPYHPTCIE 1008
            C+Q+F     + ED + NKC +C E F+V +D+E+++FMLQ+  +  +K YHP C+E
Sbjct:   16 CEQKF--KCPMFEDVEMNKCAVCMEGFEVAWDDEEEAFMLQDGQLHNDKVYHPICLE 70
The following BLAST results are available for this feature:
BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 1
Match NameE-valueIdentityDescription
PCF111.629e-1127.44PCF11 cleavage and polyadenylation factor subunit ... [more]
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BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 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 Pre-mRNA cleavage complex 2 protein Pcf11 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 Pre-mRNA cleavage complex 2 protein Pcf11 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 2
Match NameE-valueIdentityDescription
pcf117.909e-1126.06PCF11 cleavage and polyadenylation factor subunit ... [more]
pcf118.324e-1126.06PCF11 cleavage and polyadenylation factor subunit ... [more]
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BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 2
Match NameE-valueIdentityDescription
pcf111.826e-925.45PCF11, cleavage and polyadenylation factor subunit... [more]
pcf111.875e-925.45PCF11, cleavage and polyadenylation factor subunit... [more]
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BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 2
Match NameE-valueIdentityDescription
Pcf119.481e-1227.44PCF11 cleavage and polyadenylation factor subunit ... [more]
Pcf111.087e-1127.44PCF11 cleavage and polyadenylation factor subunit ... [more]
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BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 1
Match NameE-valueIdentityDescription
sp|O94913|PCF11_HUMAN7.822e-1127.44Pre-mRNA cleavage complex 2 protein Pcf11 OS=Homo ... [more]
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BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A0R3S9K31.709e-1328.57CID domain-containing protein OS=Hymenolepis dimin... [more]
A0A2H1C1Z82.554e-1333.55Pre-mRNA cleavage complex 2 protein Pcf11 OS=Fasci... [more]
A0A0R3T8L12.612e-1328.57CID domain-containing protein OS=Rodentolepis nana... [more]
A0A504YBZ44.074e-1333.55Pre-mRNA cleavage complex 2 protein Pcf11 OS=Fasci... [more]
A0A183B6Z65.767e-1333.33Uncharacterized protein OS=Echinostoma caproni OX=... [more]
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BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 1
Match NameE-valueIdentityDescription
pcf118.281e-1025.29PCF11 cleavage and polyadenylation factor subunit ... [more]
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BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 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 Pre-mRNA cleavage complex 2 protein Pcf11 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 Pre-mRNA cleavage complex 2 protein Pcf11 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 Pre-mRNA cleavage complex 2 protein Pcf11 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 2
Match NameE-valueIdentityDescription
pcf116.990e-821.81PCF11 cleavage and polyadenylation factor subunit ... [more]
pcf115.451e-721.90PCF11 cleavage and polyadenylation factor subunit ... [more]
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BLAST of Pre-mRNA cleavage complex 2 protein Pcf11 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 4
Match NameE-valueIdentityDescription
SMESG000059887.10.000e+098.18SMESG000059887.1[more]
SMESG000059830.15.182e-2034.93SMESG000059830.1[more]
SMESG000059890.12.880e-1528.75SMESG000059890.1[more]
SMESG000059830.14.745e-942.11SMESG000059830.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30013603 ID=SMED30013603|Name=Pre-mRNA cleavage complex 2 protein Pcf11|organism=Schmidtea mediterranea sexual|type=transcript|length=1461bp
CCACCCAATATGATGATGCCTCCGCCCAATATGCAGATACCTTTTAATAT
GAGAATGCCTCCACAAAATATGCGAGTTTCGGCACCTTATTTAAACAGAC
CTCCACCTCATATGCAAATGCAGACTAGTGCACAACTTCCTCAGCCCCAT
CAATATGGAATGCCTATAAATAGACATGTGAATCCAAGCATACAAATGTG
TCAAAGTGCTCCAAGTCATCCGAATACTCAACTTCATCCTAATATGCAAA
TGGAGATCAATTCTCAAGTTGAATGGAATTCAAGGAATAATCAAATCTGT
CCAAATGTCAACAGATTCGCCCATAATAATAGCTTGTGTTACCGAGGCAA
TATGAATAGACCAGTTCATGAATCATTAGAAAAATGTTCCAACGTTTCGA
GAATTCGTATACCTTCTAGGGCAACTGACAATTCTGAAGAAATCTGTAAT
AAGCCATACAAAACCGATGAGTTGGATGCATCATCTAAAGCTGACGAATA
TGATCCAGCTAACTATGTAGATTTAATTCAAGATTATCCGACTTACAATC
CATCCAATTTATCAGATGATCTACCACTCGTTGATGAATTCGATTTGAAA
AATTATTCTTTATCAAAATTTTCAATATTCAACGACAGCACCGCCAGAAA
ATTATACGAAGGAATACCATGTGGTATTTGCCACAAACGTTTTCGAAATA
CCGAAAATCCGGAATTCAAAAGACATCTCGATTTTCATTTTGTTAAATCT
CAAACTTTTAAAATTGTCCGAAGGTACACTTGGAATTACTCGAAATGGAC
TGAAAATATGTTTGTGAAAAAGTCAAACCAAATGCCATGTAAACAAGAAT
TTGTTCGTACTATACAATTATCGGAAGATAACCAAAGAAACAAATGTGGA
ATTTGTAGAGAGATATTCGATGTCAGATTTGATAACGAAAAAGATTCTTT
TATGCTTCAGAATGCCATCGTGCAAGAAAATAAGCCTTATCATCCCACTT
GTATTGAAGTTAATAAAAGGTTAATTTTAGTTATAATTAAAAGTTATTCA
CAAAGGAAGGTAAATAAACTATTAGTTTGATGTATTGTATTGGTATAAAT
TTATTTTACTCAAAGGATTTAGCCTTAACTAAGACTATGGTGATATTTGA
AACTAATAGTTACCCAGCATCAGGTGCAAGGGATTTTCAAAATCCTTTCT
AATAGGAGTGTAGGTTAATTATACCTGGAGTGTTCATTGTATAAGTAAAT
CAGGCCGGTTTATAAGGTTCAAAGGGTTAAAACTGTGCAGTGCTCGGGAT
ATGAAATTCTAAACTTTGGTTTTGTCTAAATTTAATAATTCCTCTCGGAA
CAAAGATCAAACAAAATGTATTCACTGCCATTTTAGGCAAAAGGTCGCCT
GACATCAGTTACTAAGTTTCATTTGAATTTTAACGCATTTTATGAATAGT
TAAGATATATA
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protein sequence of SMED30013603-orf-1

>SMED30013603-orf-1 ID=SMED30013603-orf-1|Name=SMED30013603-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=360bp
PPNMMMPPPNMQIPFNMRMPPQNMRVSAPYLNRPPPHMQMQTSAQLPQPH
QYGMPINRHVNPSIQMCQSAPSHPNTQLHPNMQMEINSQVEWNSRNNQIC
PNVNRFAHNNSLCYRGNMNRPVHESLEKCSNVSRIRIPSRATDNSEEICN
KPYKTDELDASSKADEYDPANYVDLIQDYPTYNPSNLSDDLPLVDEFDLK
NYSLSKFSIFNDSTARKLYEGIPCGICHKRFRNTENPEFKRHLDFHFVKS
QTFKIVRRYTWNYSKWTENMFVKKSNQMPCKQEFVRTIQLSEDNQRNKCG
ICREIFDVRFDNEKDSFMLQNAIVQENKPYHPTCIEVNKRLILVIIKSYS
QRKVNKLLV*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0002109X1 cell
Vocabulary: INTERPRO
TermDefinition
IPR011528NERD
Vocabulary: cellular component
TermDefinition
GO:0005849mRNA cleavage factor complex
Vocabulary: biological process
TermDefinition
GO:0006369termination of RNA polymerase II transcription
GO:0006378mRNA polyadenylation
GO:0006379mRNA cleavage