SMED30035944
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., 2020SMED30035944 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 4
Alignments
SMED30035944 aligns in the following genomic locations:
Homology
BLAST of SMED30035944 vs. TrEMBL
Match: J9LPK8 (Uncharacterized protein OS=Acyrthosiphon pisum OX=7029 PE=4 SV=2) HSP 1 Score: 59.3066 bits (142), Expect = 9.720e-9 Identity = 37/115 (32.17%), Postives = 66/115 (57.39%), Query Frame = -1 Query: 400 LEQYLKILNNQMVAEDRKILLFLDNVSPHPNLNFSNIQLKYLHHNXXXXXXXXXXXXXXXXXXXXXS*CCRTMFMEIENCNSVSALRMKISILIVIQFLKVARQQIPPSTIIKCL 744 +E +L NN++ ++R+++LFLDN + HP+LN SN++L +L NTTS Q + + K + +++ +++ SV+ L KI++L I +L + I P T+ KC Sbjct: 252 MEDWLHTFNNKLKKQNRRVILFLDNATCHPHLNLSNVRLAWLPANTTSLTQPMDQGIIYSIKVNYRKMVLQSLLASMDSIKSVNELSNKINVLDAIYWLNKSVNLIKPDTVKKCF 366 HSP 2 Score: 29.261 bits (64), Expect = 9.720e-9 Identity = 17/31 (54.84%), Postives = 18/31 (58.06%), Query Frame = -3 Query: 755 VIGKAAQPRCFKN----*M*II*MLNKKTWM 835 VIGKA +PRCFKN II N K WM Sbjct: 217 VIGKAQKPRCFKNVDPTKFPIIWRANNKAWM 247
BLAST of SMED30035944 vs. TrEMBL
Match: J9LFH9 (Uncharacterized protein OS=Acyrthosiphon pisum OX=7029 PE=4 SV=2) HSP 1 Score: 57.3806 bits (137), Expect = 1.740e-8 Identity = 40/115 (34.78%), Postives = 63/115 (54.78%), Query Frame = -1 Query: 400 LEQYLKILNNQMVAEDRKILLFLDNVSPHPNLNFSNIQLKYLHHNXXXXXXXXXXXXXXXXXXXXXS*CCRTMFMEIENCNSVSALRMKISILIVIQFLKVARQQIPPSTIIKCL 744 +E +L NN+++ E+RKI+LFLDN S HP L SN++L + NTTS Q + + K + +++ I+ NS S + KI++L IQ+L A + + TI C Sbjct: 231 MENWLIQFNNRLIRENRKIILFLDNASSHPKLILSNLKLAWFPPNTTSLTQPMDQGIIYCVKIYDRRFLMQSLIANIDQINSTSEISKKITVLDAIQWLDGAVKLLKRETIKACF 345 HSP 2 Score: 30.4166 bits (67), Expect = 1.740e-8 Identity = 16/31 (51.61%), Postives = 20/31 (64.52%), Query Frame = -3 Query: 755 VIGKAAQPRCFKN----*M*II*MLNKKTWM 835 VIGK+ +PRCFKN + +I NKK WM Sbjct: 196 VIGKSVKPRCFKNLDVSKLPVIWCANKKAWM 226
BLAST of SMED30035944 vs. TrEMBL
Match: A0A3Q2XIU4 (HTH CENPB-type domain-containing protein OS=Hippocampus comes OX=109280 PE=4 SV=1) HSP 1 Score: 55.8398 bits (133), Expect = 2.196e-7 Identity = 36/113 (31.86%), Postives = 65/113 (57.52%), Query Frame = -1 Query: 400 QYLKILNNQMVAEDRKILLFLDNVSPHPNLNFSNIQLKYLHHNXXXXXXXXXXXXXXXXXXXXXS*CCRTMFMEIENCNSVSALRMKISILIVIQFLKVARQQIPPSTIIKCL 738 ++L LNN+MV ++RKILLF+DN H SNI++ + NTTS + + ++ K + +++ + ++ CN VS L KI++ +++++ A ++ STI KC Sbjct: 273 KWLHQLNNKMVIQNRKILLFMDNCGAHVPATLSNIKIIFFPPNTTSHLHPMDAGVIQNVKLQYRKSMLKSILLNMDECNKVSDLVKKITVRDALEWIEAAWMKLESSTIGKCF 385 HSP 2 Score: 28.4906 bits (62), Expect = 2.196e-7 Identity = 15/31 (48.39%), Postives = 18/31 (58.06%), Query Frame = -3 Query: 755 VIGKAAQPRCF----KN*M*II*MLNKKTWM 835 VIGK+A PRCF K M + N+K WM Sbjct: 236 VIGKSANPRCFTKDYKQQMRVTYEANRKAWM 266
BLAST of SMED30035944 vs. TrEMBL
Match: A0A2B4R4Z9 (Tigger transposable element-derived protein 6 OS=Stylophora pistillata OX=50429 GN=TIGD6 PE=4 SV=1) HSP 1 Score: 56.225 bits (134), Expect = 4.787e-7 Identity = 39/113 (34.51%), Postives = 63/113 (55.75%), Query Frame = -1 Query: 400 QYLKILNNQMVAEDRKILLFLDNVSPHPNLNFSNIQLKYLHHNXXXXXXXXXXXXXXXXXXXXXS*CCRTMFMEIENCNSVSALRMKISILIVIQFLKVARQQIPPSTIIKCL 738 ++L I+NNQM +RKI+L +DN + HP + SNI+L +L NTT+K+Q ++ K + R + + S S+L K++I I +L+ A +P +TI KC Sbjct: 248 EWLDIVNNQMRNSNRKIILIVDNCAAHPQVERSNIKLVFLPPNTTAKLQPCDAGIIQAVKLQYRKKLLRKIAFAFDEVESASSLAKKVTIFDAIMWLRHAWSLLPETTIQKCF 360 HSP 2 Score: 26.5646 bits (57), Expect = 4.787e-7 Identity = 15/31 (48.39%), Postives = 18/31 (58.06%), Query Frame = -3 Query: 755 VIGKAAQPRCFK----N*M*II*MLNKKTWM 835 VIGK+ +PRCFK + II N K WM Sbjct: 211 VIGKSKKPRCFKGKDIGALNIIYRHNSKAWM 241
BLAST of SMED30035944 vs. TrEMBL
Match: A0A3Q2XZU1 (HTH CENPB-type domain-containing protein OS=Hippocampus comes OX=109280 PE=4 SV=1) HSP 1 Score: 54.299 bits (129), Expect = 4.875e-7 Identity = 36/113 (31.86%), Postives = 65/113 (57.52%), Query Frame = -1 Query: 400 QYLKILNNQMVAEDRKILLFLDNVSPHPNLNFSNIQLKYLHHNXXXXXXXXXXXXXXXXXXXXXS*CCRTMFMEIENCNSVSALRMKISILIVIQFLKVARQQIPPSTIIKCL 738 ++L LNN+MV ++RKILLF+DN H SN+++ + NTTS +Q + ++ K + +++ + ++ CN S L KI++ I++++ A ++ STI KC Sbjct: 246 KWLHQLNNKMVIQNRKILLFMDNCGAHVPATLSNMKIIFFPPNTTSHLQPMDAGVIQNVKLQYRKSMLKSILLNMDECNKASDLVKKITVRDAIEWIEAAWMKLESSTISKCF 358 HSP 2 Score: 28.4906 bits (62), Expect = 4.875e-7 Identity = 15/31 (48.39%), Postives = 18/31 (58.06%), Query Frame = -3 Query: 755 VIGKAAQPRCF----KN*M*II*MLNKKTWM 835 VIGK+A PRCF K M + N+K WM Sbjct: 209 VIGKSANPRCFTKDYKQQMRVTYEANRKAWM 239
BLAST of SMED30035944 vs. Planmine SMEST
Match: SMESG000070537.1 (SMESG000070537.1) HSP 1 Score: 102.834 bits (255), Expect = 3.641e-27 Identity = 62/118 (52.54%), Postives = 70/118 (59.32%), Query Frame = -3 Query: 239 TIDAKIIENIKVNNQKLMLQNYVHGN*KLQXXXXXXXXXXXXXXXXXFKSCASTNSTIYDNKMFINCGFGFKDECEESLLEDEKQPNSQIIEVLNLIQCAFGSTIYNTADYVGVDYNI 592 +DA II NIKVN +KLMLQN + + K S K F+NCGFG K+EC+ESL EDEKQPNSQIIEV NL Q AFGS IY+ ADYVGVDYNI Sbjct: 9 PLDAGIIANIKVNYRKLMLQNLHMEIENCNSVSGLTMKILILDAIQFLKVACQQISPYTIIKCFLNCGFGVKNECKESLSEDEKQPNSQIIEVQNLNQSAFGSKIYSAADYVGVDYNI 126 HSP 2 Score: 63.1586 bits (152), Expect = 3.225e-12 Identity = 32/45 (71.11%), Postives = 34/45 (75.56%), Query Frame = -1 Query: 400 RTMFMEIENCNSVSALRMKISILIVIQFLKVARQQIPPSTIIKCL 534 + + MEIENCNSVS L MKI IL IQFLKVA QQI P TIIKC Sbjct: 28 QNLHMEIENCNSVSGLTMKILILDAIQFLKVACQQISPYTIIKCF 72
BLAST of SMED30035944 vs. Planmine SMEST
Match: SMESG000070576.1 (SMESG000070576.1) HSP 1 Score: 103.605 bits (257), Expect = 1.770e-26 Identity = 62/118 (52.54%), Postives = 70/118 (59.32%), Query Frame = -3 Query: 239 TIDAKIIENIKVNNQKLMLQNYVHGN*KLQXXXXXXXXXXXXXXXXXFKSCASTNSTIYDNKMFINCGFGFKDECEESLLEDEKQPNSQIIEVLNLIQCAFGSTIYNTADYVGVDYNI 592 +DA II NIKVN +KLMLQN + + K S K F+NCGFG K+EC+ESL EDEKQPNSQIIEV NL Q AFGS IY+ ADYVGVDYNI Sbjct: 87 PLDAGIIANIKVNYRKLMLQNLHMEIENCNRVSGLTMKILILDAIKFLKVACQQISPYTIIKCFLNCGFGVKNECKESLSEDEKQPNSQIIEVQNLNQSAFGSKIYSAADYVGVDYNI 204 HSP 2 Score: 58.9214 bits (141), Expect = 3.263e-10 Identity = 30/45 (66.67%), Postives = 33/45 (73.33%), Query Frame = -1 Query: 400 RTMFMEIENCNSVSALRMKISILIVIQFLKVARQQIPPSTIIKCL 534 + + MEIENCN VS L MKI IL I+FLKVA QQI P TIIKC Sbjct: 106 QNLHMEIENCNRVSGLTMKILILDAIKFLKVACQQISPYTIIKCF 150
BLAST of SMED30035944 vs. Planmine SMEST
Match: SMESG000002710.1 (SMESG000002710.1) HSP 1 Score: 90.5077 bits (223), Expect = 6.485e-23 Identity = 58/96 (60.42%), Postives = 70/96 (72.92%), Query Frame = -1 Query: 457 LEQYLKILNNQMVAEDRKILLFLDNVSPHPNLNFSNIQLKYLHHNXXXXXXXXXXXXXXXXXXXXXS*CCRTMFMEIENCNSVSALRMKISILIVI 744 EQYL+ LNNQM+AEDRKILLFLDN S HPNL+FS IQLKYL NTTSK+Q L + + K + + +FMEI+NCNSVSAL +K+S L I Sbjct: 6 FEQYLRNLNNQMIAEDRKILLFLDNDSSHPNLSFSYIQLKYLSPNTTSKLQPLDVGIIANIKVNYRKLMLQNLFMEIDNCNSVSALMIKLSFLDAI 101 The following BLAST results are available for this feature:
BLAST of SMED30035944 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30035944 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30035944 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30035944 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30035944 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30035944 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30035944 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30035944 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30035944 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30035944 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30035944 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30035944 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30035944 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30035944 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 3
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30035944 ID=SMED30035944|Name=SMED30035944|organism=Schmidtea mediterranea sexual|type=transcript|length=837bpback to top protein sequence of SMED30035944-orf-1 >SMED30035944-orf-1 ID=SMED30035944-orf-1|Name=SMED30035944-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=135bp MFINCGFGFKDECEESLLEDEKQPNSQIIEVLNLIQCAFGSTIYNTADYVback to top Annotated Terms
The following terms have been associated with this transcript:
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