SMED30011393
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., 2020SMED30011393 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 8
Homology
BLAST of SMED30011393 vs. Planmine SMEST
Match: SMESG000001261.1 (SMESG000001261.1) HSP 1 Score: 365.54 bits (937), Expect = 8.106e-125 Identity = 189/240 (78.75%), Postives = 190/240 (79.17%), Query Frame = 3 Query: 588 KASNFSFLPSQIIINRNVTNGTYIFSCKLNILREDFTLTIDVFSDVVKFQIFPNESEHYLIHDQMEVSCTALPITIYYYYPDIRFIYINSTDIKRYNRSVIILGGGNNTNDSICATCGHPEIPAQIIKCYTPYDGDVNVTITPREFELYFYSKHGIMCRFEPKYVVYSRVSFVVIGIPKESYKLSSDLVITINSDKTLVNRNICVVCGNKPNMNNSKCYRLVEVAKSRLTMGRCSIKGHR 1307 KASNFSFLPSQIIINRNVTNGTYIFS VFSDVVKFQIFPNESEHYLIHDQMEVSCTALPITIYYYYPDIRFIYINSTDIKRYNRSVIILGGGNNTNDSICATCGHPEIPAQIIKCYTPYDGDVNVTITPREFELYFYSKHGIMCRFEPKYVVYSR S +CGNKPNMNNSKCYRLVEVAKSRLTMGRCSIKGHR Sbjct: 30 KASNFSFLPSQIIINRNVTNGTYIFSY--------------VFSDVVKFQIFPNESEHYLIHDQMEVSCTALPITIYYYYPDIRFIYINSTDIKRYNRSVIILGGGNNTNDSICATCGHPEIPAQIIKCYTPYDGDVNVTITPREFELYFYSKHGIMCRFEPKYVVYSRRS----------------------------------LCGNKPNMNNSKCYRLVEVAKSRLTMGRCSIKGHR 221 HSP 2 Score: 60.4622 bits (145), Expect = 3.621e-10 Identity = 28/28 (100.00%), Postives = 28/28 (100.00%), Query Frame = 2 Query: 443 MLQNLHFFGAETLSHSKNIFFMDKYNSK 526 MLQNLHFFGAETLSHSKNIFFMDKYNSK Sbjct: 1 MLQNLHFFGAETLSHSKNIFFMDKYNSK 28
BLAST of SMED30011393 vs. Planmine SMEST
Match: SMESG000016214.1 (SMESG000016214.1) HSP 1 Score: 259.61 bits (662), Expect = 8.389e-75 Identity = 142/357 (39.78%), Postives = 209/357 (58.54%), Query Frame = 3 Query: 207 PVRLDITPLARVLTIGRYVTISCSVNPVYVQLQYLYFSSSEFFIKNKNSTDVIISNSIIYHGRCLCFTCNGPYVIVETKCYKIYTSLELKHSPIQKIYFSWTNTTLNVILTDNFKPDRSYIVKCQIDKASNFSFLP-SQIIINRNVTNGTYIFSCKLNILREDFTLTIDVFSDVVKFQIFPNESEHYLIHDQMEVSCTALPITIYYYYPDIRFIYINSTDIKRYNRSVIILGGGN-NTNDSICATCGHPEIPAQIIKCYTPYDGDVNVTITPREFELYFYSKHGIMCRFEPKYVVYSRVSFVVIGIPKESYKLSSDLVITINSDKTLVNRNICVVCGNKPNMNNSKCYRLVEVAKSR 1271 P+ L I P A + I V I C V P + L + S+ + F+ +S++ II NS+++ RCLCF+CN + +CY T L L+ P Q +YF+W T+ + KP R Y+ C + NFS +I I+ + N Y F C + + + LT+ V+S+ V+ +I PN ++ Y+ MEV C P + +P I+F+ INST +I++GG + + D IC CGH +P + +C++PY GD+NVTI P E+E+Y+ H I C+ P++ YS+VSF VIGIPK SYK+SSDL I INSDKTL+N++ICV+CGN+P MN S+CYRL +SR Sbjct: 1309 PINLIIYPPAGTVVIMDTVRIYCEVQPS-LNLGMIILSTMQSFLHGNDSSEKIIPNSVLFRDRCLCFSCNCAKMSSVRQCYNFTTPLILRTKPKQDLYFAWNRVTIETYFINKNKPGRKYLAMCSL-PYENFSVSNLGEIHISPMLVNLVYDFHCTIPTVVDYQILTLFVYSNKVELEIIPNNTDIYIFSMVMEVECIVKPDDLNVVFPVIKFLSINSTQYVYKAFRLILIGGVDYDVKDIICVVCGHDYLPFNVSRCFSPYMGDINVTILPLEWEIYYLMPHTITCKIVPQFSNYSKVSFFVIGIPKSSYKVSSDLTIRINSDKTLINKDICVICGNRPTMNKSRCYRLASDDESR 1663 HSP 2 Score: 67.781 bits (164), Expect = 1.745e-11 Identity = 47/175 (26.86%), Postives = 78/175 (44.57%), Query Frame = 3 Query: 735 QIFPNESEHYLIHDQMEVSCTALPITIYYYYPDIRFIYINSTDIKRY-NRSVIILGGGNNTNDSICATCGHPEIPAQIIKCYTPYDGDVNVTITPREFELYFYSKHGIMCRFEPKYVVYSRVSFVVIGIPKESYK-LSSDLVITINSDKTLVNRNICVVCG-NKPNMNNSKCYRL 1250 +I P + + + D M+V C PI +P + F ++ + K R I + C TC P++P + KCY P+ G VN +TPR L++ H I+C + + + + G+ Y + +++ I I L+NR + VCG N P M + Y L Sbjct: 872 EIIPKVNYYLVYDDTMDVICQVSPIKSLPNFPGLGFTKMSLSYYKVITQRHYKICHPKSRCAGKFCFTCADPQLPT-VFKCYKPWTGTVNFFMTPRNHILFYMEPHLIVCHVDKPFTKNESIKMDINGLKLNEYTYIPAEMTIKILPLHYLLNRRVIAVCGTNFPTMKANHIYNL 1045
BLAST of SMED30011393 vs. Planmine SMEST
Match: SMESG000004613.1 (SMESG000004613.1) HSP 1 Score: 206.068 bits (523), Expect = 1.617e-58 Identity = 126/357 (35.29%), Postives = 178/357 (49.86%), Query Frame = 3 Query: 207 PVRLDITPLARVLTIGRYVTISCSVNPVYVQLQYLYFSSSEFFIKNKNSTDVIISNSIIYHGRCLCFTCNGPYVIVETKCYKIYTSLELKHSPIQKIYFSWTNTTLNVILTDNFKPDRSYIVKCQIDKASNFSFLPSQIIINRNVTNGTYIFSCKLNILREDFTLTIDVFSDVVKFQIFPNESEHYLIHDQMEVSCTALPITIYYYYPDIRFIYINSTDIKRYNRSVIILGGGNNTNDS-ICATCGHPEIPAQIIKCYTPYDGDVNVTITPREFELYFYSKHGIMCRFEPKYVVYSRVSFVVIGIPKESYKLSSDLVITINSDKTLVNRNICVVCGNKPNMNNSKCYRLVEVAKSRL 1274 P+ L +P V+ I VTI+C P + ++ + + F + VI+ NS++ H RC+CF C +KCY I TS L P Q IYF+ + + D +K +RSY C NF F + I I +V NG+Y C + L L I++++ V I P ES+ YL V C PI + Y PDIRF+ INS + II+G N T+ S IC CGH +P IKC+ Y+ DVNVTI P EL F I C F P + S + F +I + E Y + DL+I I D +L+ RN+C +CGN MN +KCY L+ +S++ Sbjct: 250 PMSLIFSPSKSVIIIKSNVTITCQTKPYPIDYSFIIIYTYDTFEHHIIDNTVILENSLLLHDRCICFRCISIGFGDVSKCYNIKTSTGLFLFPYQNIYFALKQDKIQIHFIDKYKLNRSYPTMCSFSIQGNFIFNINLITITSSVPNGSYDIECHIPNLSHRDVLRINIYAIDVTVTITPTESDVYLTDVPFTVQCQVSPIELLYILPDIRFLEINSEYYTNISNRDIIIGEFNQTDYSPICFKCGHQYMPQYDIKCFNSYEDDVNVTIVPLVDELRFMESQVIKCYFWPHFTKASLIQFRMISLQMEYYTKTDDLIILIKKDSSLIGRNVCAICGNITKMNGTKCYVLIGSPESQI 606
BLAST of SMED30011393 vs. Planmine SMEST
Match: SMESG000004613.1 (SMESG000004613.1) HSP 1 Score: 168.703 bits (426), Expect = 3.660e-45 Identity = 114/360 (31.67%), Postives = 165/360 (45.83%), Query Frame = 3 Query: 207 PVRLDITPLARVLTIGRYVTISCSVNPVYVQLQYLYFSSSEFFIKNKNSTDVIISNSIIYHGRCLCFTCNGPYVIVETKCYKIY---TSLELKHSPIQKIYFSWTNTTLNVILTDNFKPDRSYIVKCQIDKASNFSFLPSQIIINRNVTNGTYIFSCKLNILREDFTLTIDVFSDVVKFQIFPNESEHYLIHDQMEVSCTALPITIYYYYPDIRFIYINSTDIKRYNRSVIILGGGNNTNDS-ICATCGHPEIPAQIIKCYTPYDGDVNVTITPREFELYFYSKHGIMCRFEPKYVVYSRVSFVVIGIPKESYKLSSDLVITINSDKTLVNRNICVVCGNKPNMNNSKCYRLVEVAKSRL 1274 P+ L +P V+ I VTI+C P + ++ + + F + I++ YK + +S L P Q IYF+ + + D +K +RSY C NF F + I I +V NG+Y C + L L I++++ V I P ES+ YL V C PI + Y PDIRF+ INS + II+G N T+ S IC CGH +P IKC+ Y+ DVNVTI P EL F I C F P + S + F +I + E Y + DL+I I D +L+ RN+C +CGN MN +KCY L+ +S++ Sbjct: 250 PMSLIFSPSKSVIIIKSNVTITCQTKPYPIDYSFIIIYTYDTF----------------------------EHHIIDNTVYKYWFWRSSTGLFLFPYQNIYFALKQDKIQIHFIDKYKLNRSYPTMCSFSIQGNFIFNINLITITSSVPNGSYDIECHIPNLSHRDVLRINIYAIDVTVTITPTESDVYLTDVPFTVQCQVSPIELLYILPDIRFLEINSEYYTNISNRDIIIGEFNQTDYSPICFKCGHQYMPQYDIKCFNSYEDDVNVTIVPLVDELRFMESQVIKCYFWPHFTKASLIQFRMISLQMEYYTKTDDLIILIKKDSSLIGRNVCAICGNITKMNGTKCYVLIGSPESQI 581
BLAST of SMED30011393 vs. Planmine SMEST
Match: SMESG000004613.1 (SMESG000004613.1) HSP 1 Score: 168.703 bits (426), Expect = 3.381e-44 Identity = 114/360 (31.67%), Postives = 165/360 (45.83%), Query Frame = 3 Query: 207 PVRLDITPLARVLTIGRYVTISCSVNPVYVQLQYLYFSSSEFFIKNKNSTDVIISNSIIYHGRCLCFTCNGPYVIVETKCYKIY---TSLELKHSPIQKIYFSWTNTTLNVILTDNFKPDRSYIVKCQIDKASNFSFLPSQIIINRNVTNGTYIFSCKLNILREDFTLTIDVFSDVVKFQIFPNESEHYLIHDQMEVSCTALPITIYYYYPDIRFIYINSTDIKRYNRSVIILGGGNNTNDS-ICATCGHPEIPAQIIKCYTPYDGDVNVTITPREFELYFYSKHGIMCRFEPKYVVYSRVSFVVIGIPKESYKLSSDLVITINSDKTLVNRNICVVCGNKPNMNNSKCYRLVEVAKSRL 1274 P+ L +P V+ I VTI+C P + ++ + + F + I++ YK + +S L P Q IYF+ + + D +K +RSY C NF F + I I +V NG+Y C + L L I++++ V I P ES+ YL V C PI + Y PDIRF+ INS + II+G N T+ S IC CGH +P IKC+ Y+ DVNVTI P EL F I C F P + S + F +I + E Y + DL+I I D +L+ RN+C +CGN MN +KCY L+ +S++ Sbjct: 570 PMSLIFSPSKSVIIIKSNVTITCQTKPYPIDYSFIIIYTYDTF----------------------------EHHIIDNTVYKYWFWRSSTGLFLFPYQNIYFALKQDKIQIHFIDKYKLNRSYPTMCSFSIQGNFIFNINLITITSSVPNGSYDIECHIPNLSHRDVLRINIYAIDVTVTITPTESDVYLTDVPFTVQCQVSPIELLYILPDIRFLEINSEYYTNISNRDIIIGEFNQTDYSPICFKCGHQYMPQYDIKCFNSYEDDVNVTIVPLVDELRFMESQVIKCYFWPHFTKASLIQFRMISLQMEYYTKTDDLIILIKKDSSLIGRNVCAICGNITKMNGTKCYVLIGSPESQI 901 The following BLAST results are available for this feature:
BLAST of SMED30011393 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30011393 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30011393 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30011393 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30011393 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30011393 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30011393 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30011393 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 0
BLAST of SMED30011393 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30011393 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30011393 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30011393 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30011393 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30011393 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 >SMED30011393 ID=SMED30011393|Name=SMED30011393|organism=Schmidtea mediterranea sexual|type=transcript|length=1676bpback to top protein sequence of SMED30011393-orf-1 >SMED30011393-orf-1 ID=SMED30011393-orf-1|Name=SMED30011393-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=376bp MQIINSVHPVRLDITPLARVLTIGRYVTISCSVNPVYVQLQYLYFSSSEFback to top Annotated Terms
The following terms have been associated with this transcript:
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