SMED30019107
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., 2020SMED30019107 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 6
Alignments
SMED30019107 aligns in the following genomic locations:
Homology
BLAST of SMED30019107 vs. Planmine SMEST
Match: SMESG000027122.1 (SMESG000027122.1) HSP 1 Score: 786.949 bits (2031), Expect = 0.000e+0 Identity = 463/468 (98.93%), Postives = 464/468 (99.15%), Query Frame = 3 Query: 282 MKEIVEKLIACAYLFTVSLYILLTYSTFIILNTQVQERCSYCFEFIQWPVNILMMVNVLLIVYNTKMNYKYRNLRFSLQIEQPXXXXXXXXXXXXXXXXXXXXXXXNSISRWFATRIGFVIEIGLAATEFFAVIILILDISGFSDTGEEPFINLVNSITIIVTLISMGILFSKNFILKSRNIFKNSYNNSIYDKSRDDRSILSSKSNLFLNRLKETSILLLLIVLIPYMMIPLRENLRKLWKSLSISKHKEHIGKKYTSYLXXXXXXXXXXXXXXXXXXXXNRNNFIKNPIYFFLMVVQEVSVFPIFYLMLQETNLWTRLMNVNFYNITNIFLHFGTIGQYLQTLNGILFHVIESQMKASTNNIDYFMFGFHXXXXXXXXXXXXXXXAMVERNFKKPLRTFWNCFFSSPVLIFINQWANLIQELMQQVDYKNGFQANAILQGVTSLASPFCILYHLYCSMMFASIFIY 1685 MKEIVEKLIACAYLFTVSL ILLTYSTFIILNTQVQERCSYCFEFIQWPVNILMMVNVLLIVYNTKMNYKYRNLRFSLQIEQPLVFYLICLPLLLVILVALTLLTINSISRWFATRIGFVIEIGLAATEFFAVIILILDISGFSDTGEEPFIN VNS+TIIVTLISMG LFSKNFILKSRNIFKNSYNNSIYDKSRDDRSILS KSNLFLNRLKETSILLLLIVLIPYMMIPLRENLRKLWKSLSISKHKEHIGKKYTSYLTVSGIIIVTVYSIVSIVIGVNRNNFIKNPIYFFLMVVQEVSVFPIFYLMLQETNLWTRLMNVNFYNITNIFLHFGTIGQYLQTLNGILFHVIESQMKASTNNIDYFMFGFHLIKLLKTTITSLLVLAMVERNFKKPLRTFWNCFFSSPVLIFINQWANLIQELMQQVDYKNGFQANAILQGVTSLASPFCILYHLYCSMMFASIFIY Sbjct: 1 MKEIVEKLIACAYLFTVSLSILLTYSTFIILNTQVQERCSYCFEFIQWPVNILMMVNVLLIVYNTKMNYKYRNLRFSLQIEQPLVFYLICLPLLLVILVALTLLTINSISRWFATRIGFVIEIGLAATEFFAVIILILDISGFSDTGEEPFINSVNSVTIIVTLISMGFLFSKNFILKSRNIFKNSYNNSIYDKSRDDRSILSYKSNLFLNRLKETSILLLLIVLIPYMMIPLRENLRKLWKSLSISKHKEHIGKKYTSYLTVSGIIIVTVYSIVSIVIGVNRNNFIKNPIYFFLMVVQEVSVFPIFYLMLQETNLWTRLMNVNFYNITNIFLHFGTIGQYLQTLNGILFHVIESQMKASTNNIDYFMFGFHLIKLLKTTITSLLVLAMVERNFKKPLRTFWNCFFSSPVLIFINQWANLIQELMQQVDYKNGFQANAILQGVTSLASPFCILYHLYCSMMFASIFIY 468
BLAST of SMED30019107 vs. Planmine SMEST
Match: SMESG000025369.1 (SMESG000025369.1) HSP 1 Score: 136.732 bits (343), Expect = 4.958e-34 Identity = 136/473 (28.75%), Postives = 263/473 (55.60%), Query Frame = 3 Query: 321 LFTVSLYILLTYSTFIILNTQVQERCSYCFEFIQWPVNILMMVNVLLIVYNTKMNYKYRNLRFSLQIEQPXXXXXXXXXXXXXXXXXXXXXXXNSISRWFATRIGFVIEIGLAATEFFAVIILILDISGFSDTGEEPFINLVNSITIIVTLISMGILFSKNFILKSRNIFKN----SYNNSIYDKSRDDRSILSSKSNLFLNRLKETSILLLLIVLIPYMMIPLRENLRKLWKSLSISKHKEHIGKKYTSYLXXXXXXXXXXXXXXXXXXXXNRNN------FIKNPIY-------FFLMVVQEVSVFPIFYLMLQETNLWTRLMNVNFYNITNIFLHFGTIGQYLQTLNGILFHVI----ESQMKASTNNIDYFMFGFHXXXXXXXXXXXXXXXAMVERNFKKPLRTFWNCFFSSPVLIFINQWANLIQ-ELMQQVDYKNGFQANAILQGVTSLASPFCILYHLYCSMMFAS 1673 L S+ L YS FI+ T +++RC + I + I+ + N+LLI+YN ++NY++RNLR +E+P++ YLICLPLL++ +++++L +N+ +W + I ++ G + AVI+ ILDISG +TGEE ++ VN II+T+ ++ + K K +I+ N +N S Y++++ +S L+S + + ++E SI++LL+VL PY+++ L ++++ ++K +S + + + + ++L++SG I V V+SI +V+ + + + IY F +V+ VS M+ E LW + FY++ +F++FGT G ++ + + F++ +S + +T +++ H+ +++T + S L+L ++++ K L+ W+ F SP+L+ +N+ +I+ L + F+ N IL G S A P I Y++ C ++ AS Sbjct: 56 LLIFSIVYLTNYSLFIVRFTPLKDRCIGIPKIITCAMVIVKLTNILLIIYNARINYRFRNLRIRNPVERPMILYLICLPLLVISIISISLSALNTTLKWLSDSIDMSVDFGCSILNLIAVILFILDISGCRNTGEEWLMSYVNFCIIIITICTIFMEAMKTLTFKMSSIYSNLIYKYFNISFYEENKFSKSFLTSSAINQIRVIEEDSIIMLLVVLFPYLIVCLDQHMKNMFKDVSKGNNPQTLSVRNLTFLSLSGCITVVVFSIFELVLIIYTHGKPYTEWGCEEWIYRGFDGLKFIFVVINIVS-------MIHEIRLWLTVEENRFYDLKKLFIYFGTFGNIIKAVILVFFNIFQIVSQSVFENTTLSVNCSYIIMHVEDIIQTVLMSSLILLILDKEPKPFLKISWSYEFCSPILLLMNRVNEIIRCSLYMLIPNGKYFEINLILIGSYSFAQPIVIFYNVTCVIILAS 521
BLAST of SMED30019107 vs. Planmine SMEST
Match: SMESG000025344.1 (SMESG000025344.1) HSP 1 Score: 102.449 bits (254), Expect = 7.781e-23 Identity = 123/454 (27.09%), Postives = 223/454 (49.12%), Query Frame = 3 Query: 285 KEIVEKLIACAYLFTVSLYILLTYSTFIILNTQVQERCSYCFEFIQWPVNILMMVNVLLIVYNTKMNYKYRNLRFSLQIEQPXXXXXXXXXXXXXXXXXXXXXXXNSISRWFATRIGFVIEIGLAATEFFAVIILILDISGFSDTGEEPFINLVNSITIIVTLISMGILFSKNFILKSRNIFKNSYNNSIYDK--SRDDRSILSSKSNLFLNRLKETSILLLLIVLIPYMMIPLRENLRKLWK------------SLSISKHKEHIGKKYTSYLXXXXXXXXXXXXXXXXXXXXNRNNFIKNPIYFFLMVVQEVSVFPIFYLMLQETNLWTRLMNVNFYNITNIFLHFGTIGQYLQTLNGILFHVIESQMKA-----STNNIDYFMFGFHXXXXXXXXXXXXXXXAMVERNFKKPLRTFWNCFFSSPVLIFINQWANLIQELMQQV-DYKNGFQ 1586 KEI K + LF + + Y ++ + +R + I + ++ + +V+++LI YNT++N+++RNLR ++EQPL+FYLICLP+L + L+ L ++ + T ++ L E+F IIL++DI+GFSDTGEE F+N NS+TII+T+ S+ I N I+ + F N+ N + + S + +I L LK+ +++ L +V IP+++IPL+ NL L++ LS++K G +I+ +Y + ++ + + IK + FF+ + + M+ E + RL + + N+ NI ++ G GQ+ + I+ ++ Q ST +I F + + +T+L++ + + P + W+ FF SP+ I I Q + L + D +N FQ Sbjct: 12 KEICLKFLISVPLFLFGMVYVTNYGFYVYQISPRGDRKDEYLDKINYSISFVKIVSIILICYNTQINHRFRNLRIKHKLEQPLIFYLICLPMLFISLMGLFVIIFHYTFEKSGTSTN-ILYFALVIFEYFLFIILVIDINGFSDTGEEWFMNYFNSMTIIITMTSVMIQICLNIIMILTDDFTNTMNRTTFVSLFSNHNFTIFDKTCYRTLVFLKKRAVITLSLVFIPFLVIPLKRNLTHLFRFKPKEDLPEDKTVLSMNKVSSITGGFTVGVFLTFIVIVHLLYVMQNVPQVIIASRIIKLLVSFFISCLLGI--------MITEIKISARLNSSQYLNVKNILIYLGAFGQFSVQITNIVVNIYNLQTNGNGLFESTKDILILTSNF-VYLIETILMTTLMLFVLDGKAVSFP-KNSWSIFFYSPINILILQIGVFTEYLTKSFYDEQNSFQ 454
BLAST of SMED30019107 vs. Planmine SMEST
Match: SMESG000025336.1 (SMESG000025336.1) HSP 1 Score: 95.9005 bits (237), Expect = 1.207e-20 Identity = 128/472 (27.12%), Postives = 221/472 (46.82%), Query Frame = 3 Query: 285 KEIVEKLIACAYLFTVSLYILLTYSTFIILNTQVQERCSYCFEFIQWPVNILMMVNVLLIVYNTKMNYKYRNLRFSLQIEQPXXXXXXXXXXXXXXXXXXXXXXXNSISRWFATRIGFVIEIGLAATEFFAVIILILDISGFSDTGEEPFINLVNSITIIVTLISMGILFSKNFILKSRNIFKNSYNN------------SIYDKSRDDRSILSSKSNLFLNRLKETSILLLLIVLIPYMMIPLRENLRKLWKSLSISKHKEHIGKK-----------YTSYLXXXXXXXXXXXXXXXXXXXXNRNNFI--KNPIYFFLMVVQEVSVFPIFYLMLQETNLWTRLMNVNFYNITNIFLHFGTIGQYLQTLNGILFHVIESQMKAS-----TNNIDYFMFGFHXXXXXXXXXXXXXXXAMVERNFKKPLRTFWNCFFSSPVLIFINQWANLIQELMQQVDYK-NGFQANAILQG 1607 KEI K + LF + + Y ++ T + R E I + ++ + +V+++LI YNTK+N+++RNLR ++EQPL+FYLICLP+LL+ L+ + ++ + + L E+F I+L++DI+GFSDTGEE F+N NS+TII+T+ S+ + N I+ F NS N + +DK+ ++ I LK+ +++ L + IP+++IPL+ NL L++ K K+ + + T LTV I + + + R N+I + I +++ + + I M+ E + RL + + N+ NI ++ G GQ+ ++ I+ + ++ NI + F + T +L + E F L W FF +P+ I I Q + + L + V K N FQ I QG Sbjct: 12 KEICLKFLISVPLFLFGMVYVTNYGFYVYRITPNENRNDGYIEKINYSISFVKVVSIILICYNTKINHRFRNLRIKHKLEQPLIFYLICLPILLMSLIGVFVVILYYTFERSVKNPSHITYCSLVIFEYFLFIVLVIDINGFSDTGEEWFMNYFNSMTIIITMTSVIMQICLNIIMILTEEFSNSLNQVLHFNLYSNHSFTFFDKTSYNKIIF----------LKKRTVITLSLAFIPFLVIPLKRNLNHLFQ----FKTKDDLPEDQPILSMNKVSSITGSLTVGVYITLIFIVDLCNFVIHERGNYIYLTSRIIKAFLILFSIGLLAI---MITEIKVSARLNSSQYLNVKNILIYLGAFGQFSISIAYIVVDIYNLEINGIGLFELIQNILLLVSSFEYLIETMLLTTLMLFVLDGETIFF--LENSWTFFFHTPINILILQLSIFSEYLTKPVYGKENSFQIRIIEQG 464
BLAST of SMED30019107 vs. Planmine SMEST
Match: SMESG000025342.1 (SMESG000025342.1) HSP 1 Score: 92.0485 bits (227), Expect = 5.905e-20 Identity = 79/253 (31.23%), Postives = 140/253 (55.34%), Query Frame = 3 Query: 285 KEIVEKLIACAYLFTVSLYILLTYSTFIILNTQVQERCSYCFEFIQWPVNILMMVNVLLIVYNTKMNYKYRNLRFSLQIEQPXXXXXXXXXXXXXXXXXXXXXXXNSISRWFATRIGFVIEIGLAATEFFAVIILILDISGFSDTGEEPFINLVNSITIIVTLISMGILFSKNFILKSRNIFKNSYNN------------SIYDKSRDDRSILSSKSNLFLNRLKETSILLLLIVLIPYMMIPLRENLRKLWK 1007 KEI K + LF + + Y ++ + ++ R E I + ++ + +V+++LI YNTK+N+++RNLR +++QPL+FYLICLP+LL+ L+ + ++ + + L E+F I+L++DI+GFSDTGEE F+N NS+TII+T+ S+ + N I+ + F NS N + +DK+ ++ I LK+ +++ L + IP+++IPL+ NL L++ Sbjct: 12 KEICLKFLISVPLFLFGMVYVTNYGFYVYRISPMENRNDGYIEKINYSISFVKVVSIILICYNTKINHRFRNLRIKHKLKQPLIFYLICLPILLMSLIGVFVVILYYTFERSVKNPSHITYCSLVIFEYFLFIVLVIDINGFSDTGEEWFMNYFNSMTIIITMTSVIMQICLNIIMILTDEFFNSLNQVLHFNLYSNHSFTFFDKTSYNKIIF----------LKKRTVITLSLAFIPFLVIPLKRNLNHLFQ 254 The following BLAST results are available for this feature:
BLAST of SMED30019107 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30019107 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30019107 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30019107 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30019107 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30019107 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30019107 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30019107 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30019107 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30019107 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30019107 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30019107 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30019107 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30019107 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 5
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30019107 ID=SMED30019107|Name=SMED30019107|organism=Schmidtea mediterranea sexual|type=transcript|length=1838bpback to top protein sequence of SMED30019107-orf-1 >SMED30019107-orf-1 ID=SMED30019107-orf-1|Name=SMED30019107-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=469bp MKEIVEKLIACAYLFTVSLYILLTYSTFIILNTQVQERCSYCFEFIQWPVback to top Annotated Terms
The following terms have been associated with this transcript:
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
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