Nuclear nucleic acid-binding protein C1D

Overview
NameNuclear nucleic acid-binding protein C1D
Smed IDSMED30016460
Length (bp)608
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 Nuclear nucleic acid-binding protein C1D (SMED30016460) t-SNE clustered cells

Violin plots show distribution of expression levels for Nuclear nucleic acid-binding protein C1D (SMED30016460) in cells (dots) of each of the 12 neoblast clusters.

 

back to top

 

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 Nuclear nucleic acid-binding protein C1D (SMED30016460) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for Nuclear nucleic acid-binding protein C1D (SMED30016460) in cells (dots) of each of the 10 clusters of sub-leathally irradiated X1 and X2 cells.

 

back to top

 

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

 

back to top
Anatomical Expression

PAGE et. al., 2020



SMED30016460

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 cellSMED30016460h1SMcG0017061 SmedASXL_005976SmedAsxl_ww_GCZZ01PMID:26114597
Zhu et al., 2015		FACS sorted cell population asexual adult RNA-sequencing evidence
parenchymaSMED30016460h1SMcG0017061 dd_Smed_v4_8191_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 Nuclear nucleic acid-binding protein C1D vs. Ensembl Human
Match: C1D (C1D nuclear receptor corepressor [Source:HGNC Symbol;Acc:HGNC:29911])

HSP 1 Score: 62.3882 bits (150), Expect = 4.494e-12
Identity = 37/119 (31.09%), Postives = 65/119 (54.62%), Query Frame = 2 
Query:   53 FLSGLPEDVIDTVTKLIENIRSVEDIFKESESNNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDVAKVQINKEVCGRIIRHNLWE 409
            +LS   E+ I  V ++++ + SV         N  LQ  + + L+  + DL   Y +N++F+VYL   GV+ K HP+K+E+ERI   +   KE  +K  A  ++++    R +++ LWE
Sbjct:   17 YLSAF-ENSIGAVDEMLKTMMSVS-------RNELLQ--KLDPLEQAKVDLVSAYTLNSMFWVYLATQGVNPKEHPVKQELERIRVYMNRVKEITDKKKAG-KLDRGAASRFVKNALWE 124
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Human
Match: C1D (C1D nuclear receptor corepressor [Source:HGNC Symbol;Acc:HGNC:29911])

HSP 1 Score: 62.3882 bits (150), Expect = 4.494e-12
Identity = 37/119 (31.09%), Postives = 65/119 (54.62%), Query Frame = 2 
Query:   53 FLSGLPEDVIDTVTKLIENIRSVEDIFKESESNNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDVAKVQINKEVCGRIIRHNLWE 409
            +LS   E+ I  V ++++ + SV         N  LQ  + + L+  + DL   Y +N++F+VYL   GV+ K HP+K+E+ERI   +   KE  +K  A  ++++    R +++ LWE
Sbjct:   17 YLSAF-ENSIGAVDEMLKTMMSVS-------RNELLQ--KLDPLEQAKVDLVSAYTLNSMFWVYLATQGVNPKEHPVKQELERIRVYMNRVKEITDKKKAG-KLDRGAASRFVKNALWE 124
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Human
Match: C1D (C1D nuclear receptor corepressor [Source:HGNC Symbol;Acc:HGNC:29911])

HSP 1 Score: 62.3882 bits (150), Expect = 4.494e-12
Identity = 37/119 (31.09%), Postives = 65/119 (54.62%), Query Frame = 2 
Query:   53 FLSGLPEDVIDTVTKLIENIRSVEDIFKESESNNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDVAKVQINKEVCGRIIRHNLWE 409
            +LS   E+ I  V ++++ + SV         N  LQ  + + L+  + DL   Y +N++F+VYL   GV+ K HP+K+E+ERI   +   KE  +K  A  ++++    R +++ LWE
Sbjct:   17 YLSAF-ENSIGAVDEMLKTMMSVS-------RNELLQ--KLDPLEQAKVDLVSAYTLNSMFWVYLATQGVNPKEHPVKQELERIRVYMNRVKEITDKKKAG-KLDRGAASRFVKNALWE 124
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Human
Match: C1D (C1D nuclear receptor corepressor [Source:HGNC Symbol;Acc:HGNC:29911])

HSP 1 Score: 62.7734 bits (151), Expect = 6.705e-12
Identity = 37/119 (31.09%), Postives = 65/119 (54.62%), Query Frame = 2 
Query:   53 FLSGLPEDVIDTVTKLIENIRSVEDIFKESESNNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDVAKVQINKEVCGRIIRHNLWE 409
            +LS   E+ I  V ++++ + SV         N  LQ  + + L+  + DL   Y +N++F+VYL   GV+ K HP+K+E+ERI   +   KE  +K  A  ++++    R +++ LWE
Sbjct:   56 YLSAF-ENSIGAVDEMLKTMMSVSR-------NELLQ--KLDPLEQAKVDLVSAYTLNSMFWVYLATQGVNPKEHPVKQELERIRVYMNRVKEITDKKKAG-KLDRGAASRFVKNALWE 163
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Zebrafish
Match: c1d (C1D nuclear receptor corepressor [Source:NCBI gene;Acc:474329])

HSP 1 Score: 68.1662 bits (165), Expect = 2.822e-14
Identity = 36/117 (30.77%), Postives = 67/117 (57.26%), Query Frame = 2 
Query:   68 PEDVIDTVTKLIENIRSVEDIFKE----SESNNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDVAKVQINKEVCGRIIRHNLW 406
            P ++ D +     ++ SV+++ +     S S+  L++   + L+  + DL   Y +N++F++YL   GV+ K+HPIK+E+ERI + +   KE  ++  A   I+KE   R +R+ LW
Sbjct:   11 PTEIEDNLNDFDSSLSSVQNMVQTLVSVSRSDRLLKL---DPLEQAKLDLMSAYALNSMFWMYLVTQGVNPKDHPIKQELERIRTYMNKVKEITDRRKA-AHIDKEAASRFVRNALW 123
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Zebrafish
Match: c1d (C1D nuclear receptor corepressor [Source:NCBI gene;Acc:474329])

HSP 1 Score: 68.1662 bits (165), Expect = 2.822e-14
Identity = 36/117 (30.77%), Postives = 67/117 (57.26%), Query Frame = 2 
Query:   68 PEDVIDTVTKLIENIRSVEDIFKE----SESNNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDVAKVQINKEVCGRIIRHNLW 406
            P ++ D +     ++ SV+++ +     S S+  L++   + L+  + DL   Y +N++F++YL   GV+ K+HPIK+E+ERI + +   KE  ++  A   I+KE   R +R+ LW
Sbjct:   11 PTEIEDNLNDFDSSLSSVQNMVQTLVSVSRSDRLLKL---DPLEQAKLDLMSAYALNSMFWMYLVTQGVNPKDHPIKQELERIRTYMNKVKEITDRRKA-AHIDKEAASRFVRNALW 123
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Xenopus
Match: msmb.3 (microseminoprotein beta, gene 3 [Source:Xenbase;Acc:XB-GENE-1018396])

HSP 1 Score: 61.6178 bits (148), Expect = 7.985e-12
Identity = 33/113 (29.20%), Postives = 65/113 (57.52%), Query Frame = 2 
Query:   68 PEDVIDTVTKLIENIRSVEDIFKESESNNFLQIAQE-NNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDVAKVQINKEVCGRIIRHNL 403
            P ++ + +    +++ SV+++  +  S +  ++ Q+   L+  + DL   Y +N+LF++YL   G++ K HP+KEE+ERI S +   KE  ++  A  +++K    R I+H L
Sbjct:   12 PTEIHEYLMAFDKSVGSVDEMLNKMMSVSRSELLQKIEPLEQAKLDLVSAYTLNSLFWIYLTTQGINPKEHPVKEELERIRSYMNRVKEITDRKKA-AKLDKGAARRFIKHAL 123
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Xenopus
Match: msmb.3 (microseminoprotein beta, gene 3 [Source:Xenbase;Acc:XB-GENE-1018396])

HSP 1 Score: 61.2326 bits (147), Expect = 1.880e-11
Identity = 33/113 (29.20%), Postives = 65/113 (57.52%), Query Frame = 2 
Query:   68 PEDVIDTVTKLIENIRSVEDIFKESESNNFLQIAQE-NNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDVAKVQINKEVCGRIIRHNL 403
            P ++ + +    +++ SV+++  +  S +  ++ Q+   L+  + DL   Y +N+LF++YL   G++ K HP+KEE+ERI S +   KE  ++  A  +++K    R I+H L
Sbjct:   23 PTEIHEYLMAFDKSVGSVDEMLNKMMSVSRSELLQKIEPLEQAKLDLVSAYTLNSLFWIYLTTQGINPKEHPVKEELERIRSYMNRVKEITDRKKA-AKLDKGAARRFIKHAL 134
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Mouse
Match: C1d (C1D nuclear receptor co-repressor [Source:MGI Symbol;Acc:MGI:1927354])

HSP 1 Score: 68.1662 bits (165), Expect = 2.452e-14
Identity = 36/117 (30.77%), Postives = 68/117 (58.12%), Query Frame = 2 
Query:   68 PEDVIDTVTKLIENIRSVEDIFKESES---NNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDVAKVQINKEVCGRIIRHNLWE 409
            P ++ +++T L  ++ +V+D+ K   +   N  LQ  + + L+  + DL   Y +N++F+VYL   GV+ K HP+K+E+ERI   +   KE  +K  A  ++++    R +++ LWE
Sbjct:   11 PVEIHESLTALESSLGAVDDMLKTMMAVSRNELLQ--KLDPLEQAKVDLVSAYTLNSMFWVYLATQGVNPKEHPVKQELERIRVYMNRVKEITDKKKA-AKLDRGAASRFVKNALWE 124
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Mouse
Match: C1d (C1D nuclear receptor co-repressor [Source:MGI Symbol;Acc:MGI:1927354])

HSP 1 Score: 59.3066 bits (142), Expect = 2.811e-11
Identity = 33/111 (29.73%), Postives = 63/111 (56.76%), Query Frame = 2 
Query:   68 PEDVIDTVTKLIENIRSVEDIFKESES---NNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDVAKVQINKEVCGRII 391
            P ++ +++T L  ++ +V+D+ K   +   N  LQ  + + L+  + DL   Y +N++F+VYL   GV+ K HP+K+E+ERI   +   KE  +K  A  ++++    R +
Sbjct:   11 PVEIHESLTALESSLGAVDDMLKTMMAVSRNELLQ--KLDPLEQAKVDLVSAYTLNSMFWVYLATQGVNPKEHPVKQELERIRVYMNRVKEITDKKKA-AKLDRGAASRFV 118
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. UniProt/SwissProt
Match: sp|Q5ZHS3|C1D_CHICK (Nuclear nucleic acid-binding protein C1D OS=Gallus gallus OX=9031 GN=C1D PE=2 SV=1)

HSP 1 Score: 70.8626 bits (172), Expect = 1.417e-14
Identity = 36/116 (31.03%), Postives = 68/116 (58.62%), Query Frame = 2 
Query:   68 PEDVIDTVTKLIENIRSVEDIFKESESNNFLQIAQE-NNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDVAKVQINKEVCGRIIRHNLWES 412
            P ++ D +T   +++ SV+++ K   S +  ++ Q+   L+  + DL   Y +N++F+VYL   G++ K HP+K+E+ERI + +   KE  +K  A  +++K    R +R+ LWE 
Sbjct:   11 PTEIHDYLTTFEKSLTSVDEMLKTMMSVSRSELLQKLEPLEQAKLDLVSAYTLNSMFWVYLATQGINPKEHPVKQELERIRTYMNKVKEIADKKKAS-KLDKGAASRFVRNALWEP 125
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. UniProt/SwissProt
Match: sp|Q7TSU0|C1D_CRIGR (Nuclear nucleic acid-binding protein C1D OS=Cricetulus griseus OX=10029 GN=C1D PE=2 SV=1)

HSP 1 Score: 68.5514 bits (166), Expect = 1.027e-13
Identity = 37/120 (30.83%), Postives = 69/120 (57.50%), Query Frame = 2 
Query:   68 PEDVIDTVTKLIENIRSVEDIFKESES---NNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDVAKVQINKEVCGRIIRHNLWESMQ 418
            P ++ ++++ L  ++ +V+D+ K   S   N  LQ  + + L+  + DL   Y +N++F+VYL   GV+ K HP+K+E+ERI   +   KE  +K  A  ++++    R +++ LWE  Q
Sbjct:   11 PVEIHESLSALESSLGAVDDMLKTMMSVSRNELLQ--KLDPLEQAKVDLVSAYTLNSMFWVYLATQGVNPKEHPVKQELERIRVYMNRVKEITDKKKA-AKLDRGAASRFVKNALWEPKQ 127
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. UniProt/SwissProt
Match: sp|O35473|C1D_MOUSE (Nuclear nucleic acid-binding protein C1D OS=Mus musculus OX=10090 GN=C1d PE=1 SV=1)

HSP 1 Score: 68.1662 bits (165), Expect = 1.715e-13
Identity = 36/117 (30.77%), Postives = 68/117 (58.12%), Query Frame = 2 
Query:   68 PEDVIDTVTKLIENIRSVEDIFKESES---NNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDVAKVQINKEVCGRIIRHNLWE 409
            P ++ +++T L  ++ +V+D+ K   +   N  LQ  + + L+  + DL   Y +N++F+VYL   GV+ K HP+K+E+ERI   +   KE  +K  A  ++++    R +++ LWE
Sbjct:   11 PVEIHESLTALESSLGAVDDMLKTMMAVSRNELLQ--KLDPLEQAKVDLVSAYTLNSMFWVYLATQGVNPKEHPVKQELERIRVYMNRVKEITDKKKA-AKLDRGAASRFVKNALWE 124
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. UniProt/SwissProt
Match: sp|Q5XJ97|C1D_DANRE (Nuclear nucleic acid-binding protein C1D OS=Danio rerio OX=7955 GN=c1d PE=2 SV=1)

HSP 1 Score: 68.1662 bits (165), Expect = 1.803e-13
Identity = 36/117 (30.77%), Postives = 67/117 (57.26%), Query Frame = 2 
Query:   68 PEDVIDTVTKLIENIRSVEDIFKE----SESNNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDVAKVQINKEVCGRIIRHNLW 406
            P ++ D +     ++ SV+++ +     S S+  L++   + L+  + DL   Y +N++F++YL   GV+ K+HPIK+E+ERI + +   KE  ++  A   I+KE   R +R+ LW
Sbjct:   11 PTEIEDNLNDFDSSLSSVQNMVQTLVSVSRSDRLLKL---DPLEQAKLDLMSAYALNSMFWMYLVTQGVNPKDHPIKQELERIRTYMNKVKEITDRRKA-AHIDKEAASRFVRNALW 123
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. UniProt/SwissProt
Match: sp|Q5RBU4|C1D_PONAB (Nuclear nucleic acid-binding protein C1D OS=Pongo abelii OX=9601 GN=C1D PE=2 SV=1)

HSP 1 Score: 62.7734 bits (151), Expect = 1.867e-11
Identity = 37/119 (31.09%), Postives = 65/119 (54.62%), Query Frame = 2 
Query:   53 FLSGLPEDVIDTVTKLIENIRSVEDIFKESESNNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDVAKVQINKEVCGRIIRHNLWE 409
            +LS   E+ I  V ++++ + SV         N  LQ  + + L+  + DL   Y +N++F+VYL   GV+ K HP+K+E+ERI   +   KE  +K  A  ++++    R +++ LWE
Sbjct:   17 YLSAF-ENSIGAVDEMLKTMMSVS-------RNELLQ--KLDPLEQAKVDLVSAYTLNSMFWVYLATQGVNPKEHPVKQELERIRVYMNRVKEITDKKKAG-KLDRGAASRFVKNALWE 124
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. TrEMBL
Match: A0A068W8J1 (Nuclear nucleic acid binding protein C1D OS=Echinococcus granulosus OX=6210 GN=EgrG_000829800 PE=4 SV=1)

HSP 1 Score: 91.6633 bits (226), Expect = 4.432e-20
Identity = 44/135 (32.59%), Postives = 83/135 (61.48%), Query Frame = 2 
Query:   47 MSFLSGLPEDVIDTVTKLIENIRSVEDI---FKESESNNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDVAKV---QINKEVCGRIIRHNLWESMQDKKRK 433
            M+    +P ++ + +    ++I+ + DI   +KE+   N +++     +  +Q +L+  Y +NALFFVYL+C+GVDAK+HPI +E+ER+++ LK C+    K  +++   +++KE   R ++  LW+S Q K R+
Sbjct:    4 MALFDCIPNEISELLVSFSDSIQGISDIIESYKEAMKTNAIELPP---MQRVQTELSLAYAMNALFFVYLRCHGVDAKDHPILKELERLTACLKRCQNICSKQSSELNHSRLDKEASKRFVKRALWQSAQSKTRR 135
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. TrEMBL
Match: A0A4S2M906 (Uncharacterized protein OS=Opisthorchis felineus OX=147828 GN=CRM22_001779 PE=4 SV=1)

HSP 1 Score: 90.8929 bits (224), Expect = 1.251e-19
Identity = 47/140 (33.57%), Postives = 80/140 (57.14%), Query Frame = 2 
Query:   50 SFLSGLPEDVIDTVTKLIENIRSVEDIFKE--SESNNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDV-AKVQINKEVCGRIIRHNLWESMQDKKRKNDDSIDENT 460
            S    +PE++   +    E+I  V+   K   +  N+  +I+   NL+ ++ +L+  Y  NALFF+YL+CNGVD  NHPI +E+ R+ + LK C+   EK+  ++++ +KE   R I+H LW+S   K +K   + +  T
Sbjct:   11 SIFDEIPEEISQHLVTFSESIDDVDSYIKGYLASQNSRTEIS---NLEQIKEELSLCYAFNALFFIYLRCNGVDTGNHPIMQELNRVMTALKRCRMLTEKESNSRLKCDKEAASRFIKHALWQSAHSKAKKRRPNQESGT 147
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. TrEMBL
Match: W6UPZ3 (Nuclear nucleic acid-binding protein C1D OS=Echinococcus granulosus OX=6210 GN=EGR_01358 PE=4 SV=1)

HSP 1 Score: 90.5077 bits (223), Expect = 1.583e-19
Identity = 44/135 (32.59%), Postives = 82/135 (60.74%), Query Frame = 2 
Query:   47 MSFLSGLPEDVIDTVTKLIENIRSVEDI---FKESESNNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEK---DVAKVQINKEVCGRIIRHNLWESMQDKKRK 433
            M+    +P ++ + +     +I+ + DI   +KE+   N +++     +  +Q +L+  Y +NALFFVYL+C+GVDAK+HPI +E+ER+++ LK C+    K   +++  +++KE   R ++  LW+S Q K R+
Sbjct:    4 MALFDCIPNEINELLVSFSGSIQGISDIIESYKEAMKTNAIELPP---MQRVQTELSLAYAMNALFFVYLRCHGVDAKDHPILKELERLTACLKRCQNICSKQSSELSHSRLDKEASKRFVKRALWQSAQSKTRR 135
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. TrEMBL
Match: A0A430QA71 (Exosome complex protein LRP1 OS=Schistosoma bovis OX=6184 GN=DC041_0011372 PE=4 SV=1)

HSP 1 Score: 89.7373 bits (221), Expect = 2.538e-19
Identity = 42/129 (32.56%), Postives = 78/129 (60.47%), Query Frame = 2 
Query:   50 SFLSGLPEDVIDTVTKLIENIRSVEDIFKESESNNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKD-VAKVQINKEVCGRIIRHNLWESMQDKKRK 433
            S    +PE++   +    E    VE + K+  + +     + ++LD ++ DL+  Y  NALFF+YL+CNGV+ ++HPI +E++R+ + LK C+   E++  A+++++KE   R ++H LW+S   K +K
Sbjct:    5 SIFDEIPEEISAQLVSFSEATDDVEQLVKKISNFSNDSNTEVSDLDTIKTDLSLCYAFNALFFMYLRCNGVETQSHPIMQELDRVMNALKRCRSLVEREGSARLKLDKEATTRFVKHALWKSAHTKTKK 133
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. TrEMBL
Match: A0A183KLB8 (Uncharacterized protein OS=Schistosoma curassoni OX=6186 GN=SCUD_LOCUS15832 PE=4 SV=1)

HSP 1 Score: 89.7373 bits (221), Expect = 2.538e-19
Identity = 42/129 (32.56%), Postives = 78/129 (60.47%), Query Frame = 2 
Query:   50 SFLSGLPEDVIDTVTKLIENIRSVEDIFKESESNNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKD-VAKVQINKEVCGRIIRHNLWESMQDKKRK 433
            S    +PE++   +    E    VE + K+  + +     + ++LD ++ DL+  Y  NALFF+YL+CNGV+ ++HPI +E++R+ + LK C+   E++  A+++++KE   R ++H LW+S   K +K
Sbjct:    5 SIFDEIPEEISAQLVSFSEATDDVEQLVKKISNFSNDSNTEVSDLDTIKTDLSLCYAFNALFFMYLRCNGVETQSHPIMQELDRVMNALKRCRSLVEREGSARLKLDKEATTRFVKHALWKSAHTKTKK 133
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Cavefish
Match: c1d (C1D nuclear receptor corepressor [Source:NCBI gene;Acc:103040635])

HSP 1 Score: 62.7734 bits (151), Expect = 2.140e-12
Identity = 37/126 (29.37%), Postives = 71/126 (56.35%), Query Frame = 2 
Query:   53 FLSGLPEDVIDTVTKLIENIRSVEDIFKESESNNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDVAKVQINKEVCGRIIRHNLWESMQDKKR 430
            FL+G  +  ++ V  +I+ + SV      S+S +     + + L+  + DL   Y +N+LF++YL   G++ K H IK+E+ERI + +   KE  +K  A  +++K+   R +R+ LW++ + K +
Sbjct:   17 FLTGF-QSSVNNVQSVIQTLMSV------SKSEHL----KLDPLEQAKLDLMSAYTLNSLFWMYLVTQGINPKEHGIKQELERIRTYMNRVKEITDKKKA-ARLDKDAASRFVRNALWDAEESKAK 130
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Cavefish
Match: c1d (C1D nuclear receptor corepressor [Source:NCBI gene;Acc:103040635])

HSP 1 Score: 62.7734 bits (151), Expect = 2.140e-12
Identity = 37/126 (29.37%), Postives = 71/126 (56.35%), Query Frame = 2 
Query:   53 FLSGLPEDVIDTVTKLIENIRSVEDIFKESESNNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDVAKVQINKEVCGRIIRHNLWESMQDKKR 430
            FL+G  +  ++ V  +I+ + SV      S+S +     + + L+  + DL   Y +N+LF++YL   G++ K H IK+E+ERI + +   KE  +K  A  +++K+   R +R+ LW++ + K +
Sbjct:   17 FLTGF-QSSVNNVQSVIQTLMSV------SKSEHL----KLDPLEQAKLDLMSAYTLNSLFWMYLVTQGINPKEHGIKQELERIRTYMNRVKEITDKKKA-ARLDKDAASRFVRNALWDAEESKAK 130
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Cavefish
Match: c1d (C1D nuclear receptor corepressor [Source:NCBI gene;Acc:103040635])

HSP 1 Score: 62.7734 bits (151), Expect = 2.140e-12
Identity = 37/126 (29.37%), Postives = 71/126 (56.35%), Query Frame = 2 
Query:   53 FLSGLPEDVIDTVTKLIENIRSVEDIFKESESNNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDVAKVQINKEVCGRIIRHNLWESMQDKKR 430
            FL+G  +  ++ V  +I+ + SV      S+S +     + + L+  + DL   Y +N+LF++YL   G++ K H IK+E+ERI + +   KE  +K  A  +++K+   R +R+ LW++ + K +
Sbjct:   17 FLTGF-QSSVNNVQSVIQTLMSV------SKSEHL----KLDPLEQAKLDLMSAYTLNSLFWMYLVTQGINPKEHGIKQELERIRTYMNRVKEITDKKKA-ARLDKDAASRFVRNALWDAEESKAK 130
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Sea Lamprey
Match: ENSPMAT00000007823.1 (pep scaffold:Pmarinus_7.0:GL477731:266322:270054:-1 gene:ENSPMAG00000007078.1 transcript:ENSPMAT00000007823.1 gene_biotype:protein_coding transcript_biotype:protein_coding)

HSP 1 Score: 53.9138 bits (128), Expect = 5.421e-10
Identity = 29/72 (40.28%), Postives = 45/72 (62.50%), Query Frame = 2 
Query:  221 INALFF---VYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKE-KDVAKVQINKEVCGRIIRHNLWESMQDK 424
            ++ LF    VYL C GV+ K HPIK+EM+RI + ++  KE  + K +AK  ++K V  R +R+ LW +  D+
Sbjct:   56 LSKLFLSTPVYLVCQGVNPKMHPIKQEMDRIKTHMQRLKEITDRKKMAK--LDKGVASRFVRNALWTAEPDR 125
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Nematostella
Match: EDO38176 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7SDV0])

HSP 1 Score: 78.1814 bits (191), Expect = 1.708e-18
Identity = 44/136 (32.35%), Postives = 72/136 (52.94%), Query Frame = 2 
Query:   65 LPEDVIDTVTKLIENIRSVEDIFKE---------SESNNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDVAKVQINKEVCGRIIRHNLWESMQDKKRKNDDS 445
            LPE+V+D++    E++ ++ED  K           ES   LQ+A+ N        L   Y IN+LF++YL   G+D K HPIK+E++RI   +   KE + K    ++I+K    R ++  LW+   ++ +  DDS
Sbjct:   11 LPEEVVDSMESFHESLGNIEDALKPLLENSTDDMKESMGPLQLAKLN--------LVVAYSINSLFWMYLITQGMDPKEHPIKQELDRIKKYMVKVKEVQHKQEVSMRIDKGAAKRFVKSALWQPTSNEDKGKDDS 138
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Medaka
Match: c1d (C1D nuclear receptor corepressor [Source:NCBI gene;Acc:101167066])

HSP 1 Score: 60.4622 bits (145), Expect = 1.659e-11
Identity = 33/100 (33.00%), Postives = 56/100 (56.00%), Query Frame = 2 
Query:  182 LDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDVAKVQINKEVCGRIIRHNLWES-MQDKKRKNDDSIDENTANSQIP 478
            LD  + DL   Y +N+LF+VYL   G++ + H IK+E+ERI + +   KE  +K  A  +++K    R IR  L+E   +D  +KN+     ++  ++ P
Sbjct:   50 LDQAKLDLMSAYTLNSLFWVYLVTRGINPREHGIKQELERIRAYMNRVKEITDKKKA-ARLDKGAASRFIRSALYEPDDKDSGKKNESKKQADSTAAEPP 148
[Close]
BLAST of Nuclear nucleic acid-binding protein C1D vs. Planmine SMEST
Match: SMESG000066583.1 (SMESG000066583.1)

HSP 1 Score: 299.286 bits (765), Expect = 4.401e-105
Identity = 155/156 (99.36%), Postives = 156/156 (100.00%), Query Frame = 2 
Query:   47 MSFLSGLPEDVIDTVTKLIENIRSVEDIFKESESNNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDVAKVQINKEVCGRIIRHNLWESMQDKKRKNDDSIDENTANSQIPXXXXXXXXSVRK 514
            MSFLSGLPEDVIDTVTKLIENIRSVEDIFKESESNNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKD+AKVQINKEVCGRIIRHNLWESMQDKKRKNDDSIDENTANSQIPKKKKKNKKSVRK
Sbjct:    1 MSFLSGLPEDVIDTVTKLIENIRSVEDIFKESESNNFLQIAQENNLDNLQYDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKDLAKVQINKEVCGRIIRHNLWESMQDKKRKNDDSIDENTANSQIPKKKKKNKKSVRK 156
The following BLAST results are available for this feature:
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 4
Match NameE-valueIdentityDescription
C1D4.494e-1231.09C1D nuclear receptor corepressor [Source:HGNC Symb... [more]
C1D4.494e-1231.09C1D nuclear receptor corepressor [Source:HGNC Symb... [more]
C1D4.494e-1231.09C1D nuclear receptor corepressor [Source:HGNC Symb... [more]
C1D6.705e-1231.09C1D nuclear receptor corepressor [Source:HGNC Symb... [more]
back to top
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 2
Match NameE-valueIdentityDescription
c1d2.822e-1430.77C1D nuclear receptor corepressor [Source:NCBI gene... [more]
c1d2.822e-1430.77C1D nuclear receptor corepressor [Source:NCBI gene... [more]
back to top
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 2
Match NameE-valueIdentityDescription
msmb.37.985e-1229.20microseminoprotein beta, gene 3 [Source:Xenbase;A... [more]
msmb.31.880e-1129.20microseminoprotein beta, gene 3 [Source:Xenbase;A... [more]
back to top
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 2
Match NameE-valueIdentityDescription
C1d2.452e-1430.77C1D nuclear receptor co-repressor [Source:MGI Symb... [more]
C1d2.811e-1129.73C1D nuclear receptor co-repressor [Source:MGI Symb... [more]
back to top
BLAST of Nuclear nucleic acid-binding protein C1D vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 5
Match NameE-valueIdentityDescription
sp|Q5ZHS3|C1D_CHICK1.417e-1431.03Nuclear nucleic acid-binding protein C1D OS=Gallus... [more]
sp|Q7TSU0|C1D_CRIGR1.027e-1330.83Nuclear nucleic acid-binding protein C1D OS=Cricet... [more]
sp|O35473|C1D_MOUSE1.715e-1330.77Nuclear nucleic acid-binding protein C1D OS=Mus mu... [more]
sp|Q5XJ97|C1D_DANRE1.803e-1330.77Nuclear nucleic acid-binding protein C1D OS=Danio ... [more]
sp|Q5RBU4|C1D_PONAB1.867e-1131.09Nuclear nucleic acid-binding protein C1D OS=Pongo ... [more]
back to top
BLAST of Nuclear nucleic acid-binding protein C1D vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A068W8J14.432e-2032.59Nuclear nucleic acid binding protein C1D OS=Echino... [more]
A0A4S2M9061.251e-1933.57Uncharacterized protein OS=Opisthorchis felineus O... [more]
W6UPZ31.583e-1932.59Nuclear nucleic acid-binding protein C1D OS=Echino... [more]
A0A430QA712.538e-1932.56Exosome complex protein LRP1 OS=Schistosoma bovis ... [more]
A0A183KLB82.538e-1932.56Uncharacterized protein OS=Schistosoma curassoni O... [more]
back to top
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 3
Match NameE-valueIdentityDescription
c1d2.140e-1229.37C1D nuclear receptor corepressor [Source:NCBI gene... [more]
c1d2.140e-1229.37C1D nuclear receptor corepressor [Source:NCBI gene... [more]
c1d2.140e-1229.37C1D nuclear receptor corepressor [Source:NCBI gene... [more]
back to top
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99)
Total hits: 1
Match NameE-valueIdentityDescription
ENSPMAT00000007823.15.421e-1040.28pep scaffold:Pmarinus_7.0:GL477731:266322:270054:-... [more]
back to top
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 1
Match NameE-valueIdentityDescription
EDO381761.708e-1832.35Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7... [more]
back to top
BLAST of Nuclear nucleic acid-binding protein C1D vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 1
Match NameE-valueIdentityDescription
c1d1.659e-1133.00C1D nuclear receptor corepressor [Source:NCBI gene... [more]
back to top
BLAST of Nuclear nucleic acid-binding protein C1D vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 1
Match NameE-valueIdentityDescription
SMESG000066583.14.401e-10599.36SMESG000066583.1[more]
back to top
Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30016460 ID=SMED30016460|Name=Nuclear nucleic acid-binding protein C1D|organism=Schmidtea mediterranea sexual|type=transcript|length=608bp
TTTTGTTTAAATAATACTGATTTACCATCTTTTTAAAGAAATTAAAATGA
GTTTTTTGTCAGGTTTACCAGAAGATGTTATTGATACCGTTACTAAATTG
ATTGAAAATATTCGATCAGTTGAAGATATTTTTAAAGAATCAGAGTCAAA
TAACTTCCTTCAGATTGCACAGGAAAACAACCTAGATAATTTACAATACG
ATCTTACCTATTTATATGGTATAAATGCATTATTTTTTGTCTATCTTCAG
TGTAATGGTGTTGACGCGAAAAATCATCCAATTAAAGAAGAAATGGAAAG
AATATCATCAAAACTAAAGTTCTGTAAAGAATATAAAGAAAAAGATGTAG
CTAAAGTTCAAATCAACAAGGAAGTTTGCGGTCGTATTATTCGTCACAAC
CTTTGGGAATCTATGCAAGATAAGAAGAGAAAAAATGACGACAGTATTGA
TGAAAATACTGCAAACAGTCAGATTCCAAAGAAAAAAAAGAAAAATAAAA
AATCCGTTAGAAAATAAGAGTATTGTTAATTATTTTAAAATATAATTTAC
TCTTTGTTCTCAATGATATTATTTAAATTGAAATATAAATTCTGTAATGT
TAATAATG
back to top

protein sequence of SMED30016460-orf-1

>SMED30016460-orf-1 ID=SMED30016460-orf-1|Name=SMED30016460-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=157bp
MSFLSGLPEDVIDTVTKLIENIRSVEDIFKESESNNFLQIAQENNLDNLQ
YDLTYLYGINALFFVYLQCNGVDAKNHPIKEEMERISSKLKFCKEYKEKD
VAKVQINKEVCGRIIRHNLWESMQDKKRKNDDSIDENTANSQIPKKKKKN
KKSVRK*
back to top
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: biological process
TermDefinition
GO:0006915apoptotic process
GO:0006364rRNA processing
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0002109X1 cell
Vocabulary: INTERPRO
TermDefinition
IPR011082Exosome-assoc_fac/DNA_repair
IPR007146Sas10/Utp3/C1D
Vocabulary: molecular function
TermDefinition
GO:0003677DNA binding
GO:0003723RNA binding
Vocabulary: cellular component
TermDefinition
GO:0005634nucleus
GO:0005730nucleolus
GO:0005737cytoplasm
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR007146Sas10/Utp3/C1DPFAMPF04000Sas10_Utp3coord: 16..86
e-value: 9.3E-9
score: 35.8
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 124..156
NoneNo IPR availablePANTHERPTHR15341:SF3NUCLEAR NUCLEIC ACID-BINDING PROTEIN C1Dcoord: 5..152
IPR011082Exosome-associated factor Rrp47/DNA strand repair C1DPANTHERPTHR15341SUN-COR STEROID HORMONE RECEPTOR CO-REPRESSORcoord: 5..152