SMED30006092
Overview
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 progeniesWe 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
Sub-lethal Irradiated Surviving X1 and X2 Cell Population
Embryonic Expression
Davies et. al., 2017
Hover the mouse over a column in the graph to view average RPKM values per sample. Embryonic Stages: Y: yolk. S2-S8: Stages 2-8. C4: asexual adult. SX: virgin, sexually mature adult. back to top Anatomical Expression
PAGE et. al., 2020SMED30006092 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 9
Homology
BLAST of SMED30006092 vs. TrEMBL
Match: A0A564YEW7 (Uncharacterized protein OS=Hymenolepis diminuta OX=6216 GN=WMSIL1_LOCUS5689 PE=4 SV=1) HSP 1 Score: 93.2041 bits (230), Expect = 2.346e-16 Identity = 45/129 (34.88%), Postives = 66/129 (51.16%), Query Frame = 2 Query: 755 CTCSQTHEKCLPRLVRNRTEYIIANNIVETNFVEETLTLNLVDHENCGCRSRCLNRKCISNFEFDYKSQADCSCKCKDNQKLCQKILKGYHNFTEADYLCILSGECLAPDCLGGQLSEELLYLRKCPQV 1141 CTC+ E+CLP VR +T ++ N E E + L +H C C+ RC NR+C+ + + + DC C C+ C+ +L+G FTE + L+G + P C GQL E LY R CP+ Sbjct: 488 CTCALPEEECLPTEVRLKTSPVVVYNTAEGTTTTEVIAL--TEHMGCQCKRRCDNRQCVPPLKLNKYTYDDCYCYCEKGDARCEALLEGQEKFTEKELPTPLNGSFIMPPCYHGQLDEVHLYFRHCPRA 614
BLAST of SMED30006092 vs. TrEMBL
Match: A0A5K3EP67 (Uncharacterized protein OS=Mesocestoides corti OX=53468 PE=4 SV=1) HSP 1 Score: 88.1965 bits (217), Expect = 1.019e-14 Identity = 44/128 (34.38%), Postives = 65/128 (50.78%), Query Frame = 2 Query: 755 CTCSQTHEKCLPRLVRNRTEYIIANNIVETNFVEETLTLNLVDHENCGCRSRCLNRKCISNFEFDYKSQADCSCKCKDNQKLCQKILKGYHNFTEADYLCILSGECLAPDCLGGQLSEELLYLRKCPQ 1138 CTC E+CLP VR + +I N + + E + L +H +CGC+ RC NR+CI + + + DC C C + CQ +L G FT+ + L+G + P C G + E LY R CP+ Sbjct: 445 CTCLLPEEECLPTKVRLKVASVIVYNTSKGSTSTEVIAL--TEHVSCGCQRRCENRRCIPPLQLNNYTYDDCYCSCPEGNTRCQALLDGRAKFTDKELQIPLNGSYILPPCYHGPMDEVHLYHRHCPR 570
BLAST of SMED30006092 vs. TrEMBL
Match: A0A430QAU4 (Uncharacterized protein OS=Schistosoma bovis OX=6184 GN=DC041_0003805 PE=4 SV=1) HSP 1 Score: 86.6557 bits (213), Expect = 4.152e-14 Identity = 46/128 (35.94%), Postives = 66/128 (51.56%), Query Frame = 2 Query: 755 CTCSQTHEKCLPRLVRNRTEYIIANNIVE-TNFVEETLTLNLVDHENCGCRSRCLNRKCISNFEFDYKSQADCSCKCKDNQKLCQKILKGYHNFTEADYLCILSGECLAPDCLGGQLSEELLYLRKCP 1135 C C E+CLP V +T + IV NF T + L +H CGC+ RC NR CI+ +F + +DC+C C+ N K C ++L+G FT + L+G + P C G + + LY R CP Sbjct: 615 CNCETLEEECLPIKVSLKTFAVAVMQIVPFGNFTHSTELIALTNHLQCGCQPRCSNRLCIAPLKFIMHTFSDCACVCQPNDKRCFELLEGKRQFTAEEIPLPLNGSYILPPCRYGVMDDLHLYHRHCP 742
BLAST of SMED30006092 vs. TrEMBL
Match: A0A3Q0KTU2 (Uncharacterized protein OS=Schistosoma mansoni OX=6183 PE=4 SV=1) HSP 1 Score: 85.5001 bits (210), Expect = 8.167e-14 Identity = 46/128 (35.94%), Postives = 65/128 (50.78%), Query Frame = 2 Query: 755 CTCSQTHEKCLPRLVRNRTEYIIANNIVE-TNFVEETLTLNLVDHENCGCRSRCLNRKCISNFEFDYKSQADCSCKCKDNQKLCQKILKGYHNFTEADYLCILSGECLAPDCLGGQLSEELLYLRKCP 1135 C C E+CLP V +T + IV NF T + L +H CGC+ RC NR CI +F + +DC+C C+ N K C ++L+G FT + L+G + P C G + + LY R CP Sbjct: 600 CNCETLEEECLPVKVSLKTFAVAVMQIVPFGNFTHSTELIALTNHLQCGCQPRCSNRLCIPPLKFIMHTFSDCACVCQPNDKRCFELLEGKRQFTAEEIPLPLNGSYILPPCRYGVMDDLHLYHRHCP 727
BLAST of SMED30006092 vs. TrEMBL
Match: A0A158QUI6 (Uncharacterized protein OS=Mesocestoides corti OX=53468 GN=MCOS_LOCUS6294 PE=4 SV=1) HSP 1 Score: 84.7297 bits (208), Expect = 1.199e-13 Identity = 44/138 (31.88%), Postives = 65/138 (47.10%), Query Frame = 2 Query: 755 CTCSQTHEKCLPRLVRNRTEYIIANNIVE----------TNFVEETLTLNLVDHENCGCRSRCLNRKCISNFEFDYKSQADCSCKCKDNQKLCQKILKGYHNFTEADYLCILSGECLAPDCLGGQLSEELLYLRKCPQ 1138 CTC E+CLP VR + +I N+ + T + L +H +CGC+ RC NR+CI + + + DC C C + CQ +L G FT+ + L+G + P C G + E LY R CP+ Sbjct: 403 CTCLLPEEECLPTKVRLKVASVIVYNVSSKINPDLGLPTSKGSTSTEVIALTEHVSCGCQRRCENRRCIPPLQLNNYTYDDCYCSCPEGNTRCQALLDGRAKFTDKELQIPLNGSYILPPCYHGPMDEVHLYHRHCPR 540
BLAST of SMED30006092 vs. Planmine SMEST
Match: SMESG000020729.1 (SMESG000020729.1) HSP 1 Score: 283.493 bits (724), Expect = 8.451e-95 Identity = 134/134 (100.00%), Postives = 134/134 (100.00%), Query Frame = 2 Query: 746 PKDCTCSQTHEKCLPRLVRNRTEYIIANNIVETNFVEETLTLNLVDHENCGCRSRCLNRKCISNFEFDYKSQADCSCKCKDNQKLCQKILKGYHNFTEADYLCILSGECLAPDCLGGQLSEELLYLRKCPQVPY 1147 PKDCTCSQTHEKCLPRLVRNRTEYIIANNIVETNFVEETLTLNLVDHENCGCRSRCLNRKCISNFEFDYKSQADCSCKCKDNQKLCQKILKGYHNFTEADYLCILSGECLAPDCLGGQLSEELLYLRKCPQVPY Sbjct: 2 PKDCTCSQTHEKCLPRLVRNRTEYIIANNIVETNFVEETLTLNLVDHENCGCRSRCLNRKCISNFEFDYKSQADCSCKCKDNQKLCQKILKGYHNFTEADYLCILSGECLAPDCLGGQLSEELLYLRKCPQVPY 135
BLAST of SMED30006092 vs. Planmine SMEST
Match: SMESG000042814.1 (SMESG000042814.1) HSP 1 Score: 119.398 bits (298), Expect = 4.944e-30 Identity = 64/170 (37.65%), Postives = 96/170 (56.47%), Query Frame = 2 Query: 641 ACLERTEIFCVFKYFQEMKVKFYQVV--PKAFLVKRCPKD-CTCSQTHEKCLPRLVRNRTEYIIANNIVETNFVEETLTLNLVDHENCGCRSRCLNRKCISNFEFDYKSQADCSCKCKDNQK-LCQKILKGYHNFTEADYLCILSGECLAPDCLGGQLSEELLYLRKCPQ 1138 C + + FC+ ++F Y V+ P V+RCPKD C C+ +EKCLP ++ + Y++ + + + E T L L H C C+ +CLNRKCI F F C C C +++ C+++L+G F+++DY CI+SG CL PDCL LSEE LY + CP+ Sbjct: 137 VCKPQNQTFCMKRFFSLKPGSEYIVLFRPAVLPVQRCPKDNCQCTNKNEKCLPTTIQKKLHYVVVD---DKSGQEYTYALYLSQHVGCTCKPKCLNRKCIEPF-FKRDKNGSCKCLCPRHKRNECEQVLQGRKKFSKSDYNCIVSGNCLTPDCLNQPLSEESLYNKMCPR 302
BLAST of SMED30006092 vs. Planmine SMEST
Match: SMESG000042814.1 (SMESG000042814.1) HSP 1 Score: 119.013 bits (297), Expect = 8.976e-30 Identity = 65/173 (37.57%), Postives = 97/173 (56.07%), Query Frame = 2 Query: 632 NKQACLERTEIFCVFKYFQEMKVKFYQVV--PKAFLVKRCPKD-CTCSQTHEKCLPRLVRNRTEYIIANNIVETNFVEETLTLNLVDHENCGCRSRCLNRKCISNFEFDYKSQADCSCKCKDNQK-LCQKILKGYHNFTEADYLCILSGECLAPDCLGGQLSEELLYLRKCPQ 1138 N C + + FC+ ++F Y V+ P V+RCPKD C C+ +EKCLP ++ + Y++ + + + E T L L H C C+ +CLNRKCI F F C C C +++ C+++L+G F+++DY CI+SG CL PDCL LSEE LY + CP+ Sbjct: 155 NFGVCKPQNQTFCMKRFFSLKPGSEYIVLFRPAVLPVQRCPKDNCQCTNKNEKCLPTTIQKKLHYVVVD---DKSGQEYTYALYLSQHVGCTCKPKCLNRKCIEPF-FKRDKNGSCKCLCPRHKRNECEQVLQGRKKFSKSDYNCIVSGNCLTPDCLNQPLSEESLYNKMCPR 323
BLAST of SMED30006092 vs. Planmine SMEST
Match: SMESG000042814.1 (SMESG000042814.1) HSP 1 Score: 119.013 bits (297), Expect = 1.194e-29 Identity = 65/173 (37.57%), Postives = 97/173 (56.07%), Query Frame = 2 Query: 632 NKQACLERTEIFCVFKYFQEMKVKFYQVV--PKAFLVKRCPKD-CTCSQTHEKCLPRLVRNRTEYIIANNIVETNFVEETLTLNLVDHENCGCRSRCLNRKCISNFEFDYKSQADCSCKCKDNQK-LCQKILKGYHNFTEADYLCILSGECLAPDCLGGQLSEELLYLRKCPQ 1138 N C + + FC+ ++F Y V+ P V+RCPKD C C+ +EKCLP ++ + Y++ + + + E T L L H C C+ +CLNRKCI F F C C C +++ C+++L+G F+++DY CI+SG CL PDCL LSEE LY + CP+ Sbjct: 158 NFGVCKPQNQTFCMKRFFSLKPGSEYIVLFRPAVLPVQRCPKDNCQCTNKNEKCLPTTIQKKLHYVVVD---DKSGQEYTYALYLSQHVGCTCKPKCLNRKCIEPF-FKRDKNGSCKCLCPRHKRNECEQVLQGRKKFSKSDYNCIVSGNCLTPDCLNQPLSEESLYNKMCPR 326 The following BLAST results are available for this feature:
BLAST of SMED30006092 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30006092 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30006092 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30006092 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30006092 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30006092 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30006092 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30006092 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30006092 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30006092 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30006092 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30006092 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30006092 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30006092 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 4
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30006092 ID=SMED30006092|Name=SMED30006092|organism=Schmidtea mediterranea sexual|type=transcript|length=1462bpback to top protein sequence of SMED30006092-orf-1 >SMED30006092-orf-1 ID=SMED30006092-orf-1|Name=SMED30006092-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=347bp MFTCNLIFHIFFIINFNEVFPCISRNVEDKSKNHKNFEEIQMFQTTLEYIback to top Annotated Terms
The following terms have been associated with this transcript:
|