SMED30009573
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., 2020SMED30009573 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 4Note: Hover over icons to view figure legend
Homology
BLAST of SMED30009573 vs. Ensembl Human
Match: CENPBD1 (CENPB DNA-binding domain containing 1 [Source:HGNC Symbol;Acc:HGNC:28272]) HSP 1 Score: 71.2478 bits (173), Expect = 1.532e-15 Identity = 37/87 (42.53%), Postives = 65/87 (74.71%), Query Frame = -3 Query: 110 RKSISLETKMQVIRRLDSGERQSQISAALNLPTSTIRTILKNKEKILXXXXXXXXXXXTKITHSRNSIIEEMEKRLSIWIDDEIERN 370 RK+I+L+ K++V+RR ++GE+ SQI+ AL+L ST+ TI +KEKI +S+ T A+++T R++++E ME+ LS+W++D+ + N Sbjct: 19 RKAITLDLKLEVLRRFEAGEKLSQIAKALDLAISTVATIRDSKEKIKASSQIATPLRASRLTRHRSAVMESMEQLLSLWLEDQSQPN 105
BLAST of SMED30009573 vs. Ensembl Human
Match: TIGD1 (tigger transposable element derived 1 [Source:HGNC Symbol;Acc:HGNC:14523]) HSP 1 Score: 51.9878 bits (123), Expect = 5.074e-8 Identity = 31/96 (32.29%), Postives = 57/96 (59.38%), Query Frame = -3 Query: 86 TRKSISLETKMQVIRRLDSGERQSQISAALNLPTSTIRTILKNKEKILXXXXXXXXXXXTKITHSRNSIIEEMEKRLSIWIDDEIERNMPSIQSIL 373 +R S++L K+++I+ + G +++I L L T+ ++ KEK L + T + ++ RNS+I +MEK L +WI+D+ RN+P QS++ Sbjct: 11 SRTSLTLNQKLEMIKLSEEGMSKAEIGRRLGLLRQTVSQVVNAKEKFLKEVKSATPMNT-RMIRKRNSLIADMEKVLVVWIEDQTSRNIPLSQSLI 105
BLAST of SMED30009573 vs. UniProt/SwissProt
Match: sp|B2RD01|CENP1_HUMAN (CENPB DNA-binding domain-containing protein 1 OS=Homo sapiens OX=9606 GN=CENPBD1 PE=2 SV=1) HSP 1 Score: 71.2478 bits (173), Expect = 7.358e-15 Identity = 37/87 (42.53%), Postives = 65/87 (74.71%), Query Frame = -3 Query: 110 RKSISLETKMQVIRRLDSGERQSQISAALNLPTSTIRTILKNKEKILXXXXXXXXXXXTKITHSRNSIIEEMEKRLSIWIDDEIERN 370 RK+I+L+ K++V+RR ++GE+ SQI+ AL+L ST+ TI +KEKI +S+ T A+++T R++++E ME+ LS+W++D+ + N Sbjct: 19 RKAITLDLKLEVLRRFEAGEKLSQIAKALDLAISTVATIRDSKEKIKASSQIATPLRASRLTRHRSAVMESMEQLLSLWLEDQSQPN 105
BLAST of SMED30009573 vs. UniProt/SwissProt
Match: sp|Q96MW7|TIGD1_HUMAN (Tigger transposable element-derived protein 1 OS=Homo sapiens OX=9606 GN=TIGD1 PE=1 SV=1) HSP 1 Score: 51.9878 bits (123), Expect = 6.212e-8 Identity = 31/96 (32.29%), Postives = 57/96 (59.38%), Query Frame = -3 Query: 86 TRKSISLETKMQVIRRLDSGERQSQISAALNLPTSTIRTILKNKEKILXXXXXXXXXXXTKITHSRNSIIEEMEKRLSIWIDDEIERNMPSIQSIL 373 +R S++L K+++I+ + G +++I L L T+ ++ KEK L + T + ++ RNS+I +MEK L +WI+D+ RN+P QS++ Sbjct: 11 SRTSLTLNQKLEMIKLSEEGMSKAEIGRRLGLLRQTVSQVVNAKEKFLKEVKSATPMNT-RMIRKRNSLIADMEKVLVVWIEDQTSRNIPLSQSLI 105 HSP 2 Score: 24.2534 bits (51), Expect = 6.212e-8 Identity = 12/24 (50.00%), Postives = 14/24 (58.33%), Query Frame = -2 Query: 24 FNYIQAE--ARNISETFVASRGWF 89 FN ++AE E F ASRGWF Sbjct: 113 FNSMKAERGVEAAEEKFEASRGWF 136
BLAST of SMED30009573 vs. TrEMBL
Match: A0A3Q0HKR4 (centrosomal protein of 89 kDa isoform X2 OS=Alligator sinensis OX=38654 GN=CEP89 PE=4 SV=1) HSP 1 Score: 86.6557 bits (213), Expect = 6.022e-17 Identity = 46/92 (50.00%), Postives = 66/92 (71.74%), Query Frame = -3 Query: 104 KATRKSISLETKMQVIRRLDSGERQSQISAALNLPTSTIRTILKNKEKILXXXXXXXXXXXTKITHSRNSIIEEMEKRLSIWIDDEIERNMP 379 K RKSI+LE K+ V++R+++GERQ+++ ALNL ST+RTILKNK+KI T +A K++ SR I+ EME+ LS+WI+D +R MP Sbjct: 178 KKQRKSITLELKLDVLKRIEAGERQNEVCRALNLAGSTVRTILKNKDKIKECGRIVTPLNALKLSRSRAPIMLEMERLLSVWIEDTTQRRMP 269
BLAST of SMED30009573 vs. TrEMBL
Match: A0A2Y9E4W0 (tigger transposable element-derived protein 1-like OS=Trichechus manatus latirostris OX=127582 GN=LOC101360615 PE=4 SV=1) HSP 1 Score: 85.8853 bits (211), Expect = 1.012e-16 Identity = 50/109 (45.87%), Postives = 80/109 (73.39%), Query Frame = -3 Query: 68 EKQENKATRKSISLETKMQVIRRLDSGERQSQISAALNLPTSTIRTILKNKEKILXXXXXXXXXXXTKITHSRNSIIEEMEKRLSIWIDDEIERNMPSIQSILITFRLR 394 E + +K RK+I+L+ K++V+RR ++GE+ S+I+ AL L TST+ TI NK+KI +S+ A T +ATK+T SR+ ++E ME+ LS+WI+D+ +RN+P I +LI + R Sbjct: 30 ECRGSKRDRKAINLQVKLEVLRRFEAGEKLSRIAKALGLSTSTVATIRDNKDKIRASSQAATPQAATKLTRSRSLVMENMERLLSVWIEDQNQRNVP-INVVLIQEKAR 137
BLAST of SMED30009573 vs. TrEMBL
Match: F6ZCE3 (Uncharacterized protein OS=Ornithorhynchus anatinus OX=9258 PE=4 SV=1) HSP 1 Score: 85.5001 bits (210), Expect = 1.458e-16 Identity = 34/98 (34.69%), Postives = 65/98 (66.33%), Query Frame = -3 Query: 86 KATRKSISLETKMQVIRRLDSGERQSQISAALNLPTSTIRTILKNKEKILXXXXXXXXXXXTKITHSRNSIIEEMEKRLSIWIDDEIERNMPSIQSIL 379 + K+++ ETKM+++RRLD GERQ Q++ +L LP ST+ TI+KN+ +I+ + + + R ++EEME+ L++W+D + ++ +P Q+++ Sbjct: 9 RRAHKTVTFETKMEILRRLDGGERQGQVARSLGLPHSTVSTIVKNRARIVRYVQSAGSLQSVMVNPKRGVLLEEMERLLTMWLDHQAQKRVPVNQAVI 106
BLAST of SMED30009573 vs. TrEMBL
Match: A0A2Y9ME37 (tigger transposable element-derived protein 1-like OS=Delphinapterus leucas OX=9749 GN=LOC111170024 PE=4 SV=1) HSP 1 Score: 82.4185 bits (202), Expect = 2.286e-15 Identity = 45/109 (41.28%), Postives = 77/109 (70.64%), Query Frame = -3 Query: 68 EKQENKATRKSISLETKMQVIRRLDSGERQSQISAALNLPTSTIRTILKNKEKILXXXXXXXXXXXTKITHSRNSIIEEMEKRLSIWIDDEIERNMPSIQSILITFRLR 394 +++ K RK+I+L+ K++V+RR ++GE+ S+I AL L TST+ TI NK+KI +S+ A T +A K+T SR+ ++E ME+ LS+WI+D+ R++P + +L+ + R Sbjct: 205 QRRSAKRDRKAINLQVKLEVLRRFEAGEKLSRIGRALGLSTSTVATIRDNKDKIRASSQAATPHAACKLTRSRSLVMENMERLLSVWIEDQNRRDVP-VSVVLVQEKAR 312
BLAST of SMED30009573 vs. TrEMBL
Match: A0A341B4F2 (tigger transposable element-derived protein 1-like isoform X3 OS=Neophocaena asiaeorientalis asiaeorientalis OX=1706337 GN=LOC112396907 PE=4 SV=1) HSP 1 Score: 82.4185 bits (202), Expect = 2.308e-15 Identity = 45/109 (41.28%), Postives = 77/109 (70.64%), Query Frame = -3 Query: 68 EKQENKATRKSISLETKMQVIRRLDSGERQSQISAALNLPTSTIRTILKNKEKILXXXXXXXXXXXTKITHSRNSIIEEMEKRLSIWIDDEIERNMPSIQSILITFRLR 394 +++ K RK+I+L+ K++V+RR ++GE+ S+I AL L TST+ TI NK+KI +S+ A T +A K+T SR+ ++E ME+ LS+WI+D+ R++P + +L+ + R Sbjct: 205 QRRSAKRDRKAINLQVKLEVLRRFEAGEKLSRIGRALGLSTSTVATIRDNKDKIRASSQAATPHAACKLTRSRSLVMENMERLLSVWIEDQNRRDVP-VSVVLVQEKAR 312
BLAST of SMED30009573 vs. Ensembl Sea Lamprey
Match: ENSPMAT00000000018.1 (pep scaffold:Pmarinus_7.0:GL482463:8529:10142:1 gene:ENSPMAG00000000016.1 transcript:ENSPMAT00000000018.1 gene_biotype:protein_coding transcript_biotype:protein_coding) HSP 1 Score: 73.559 bits (179), Expect = 1.583e-16 Identity = 38/93 (40.86%), Postives = 59/93 (63.44%), Query Frame = -3 Query: 104 NKATRKSISLETKMQVIRRLDSGERQSQISAALNLPTSTIRTILKNKEKILXXXXXXXXXXXTKITHSRNSIIEEMEKRLSIWIDDEIERNMP 382 +K R +IS E K+ V+ R D+GER IS+ L LP +++RTI N KI A + T +A +I R+ + + ME+ LS+WI+D+ +RN+P Sbjct: 8 SKKPRNTISFEVKLDVLNRFDAGERAVDISSELGLPPTSVRTIRANAHKIREYARSVTTLNAARIIRGRDKVKDNMERLLSLWIEDQGQRNVP 100
BLAST of SMED30009573 vs. Ensembl Sea Lamprey
Match: ENSPMAT00000003106.1 (pep scaffold:Pmarinus_7.0:GL476998:37517:41189:1 gene:ENSPMAG00000002845.1 transcript:ENSPMAT00000003106.1 gene_biotype:protein_coding transcript_biotype:protein_coding) HSP 1 Score: 67.0106 bits (162), Expect = 8.640e-15 Identity = 36/92 (39.13%), Postives = 56/92 (60.87%), Query Frame = -3 Query: 104 KATRKSISLETKMQVIRRLDSGERQSQISAALNLPTSTIRTILKNKEKILXXXXXXXXXXXTKITHSRNSIIEEMEKRLSIWIDDEIERNMP 379 K +RKS++LE K ++I+ D+GE ++I+ L LP +T+ TILK+K +IL A I R +I EMEK L +W+DD+ ++P Sbjct: 9 KRSRKSVTLEIKYKIIKLADNGESNTEIARKLELPRTTVVTILKDKARILEEVKGQAPMQAAYI-RQRAGLIAEMEKHLIVWLDDQTRHHVP 99 HSP 2 Score: 27.7202 bits (60), Expect = 8.640e-15 Identity = 15/38 (39.47%), Postives = 20/38 (52.63%), Query Frame = -2 Query: 24 PIYFNYIQAEARNI-------------SETFVASRGWF 98 P+ IQA+AR++ SETF AS+GWF Sbjct: 99 PVSLAIIQAKARSLFEHLKARRGEGSQSETFQASKGWF 136
BLAST of SMED30009573 vs. Ensembl Sea Lamprey
Match: ENSPMAT00000006798.1 (pep scaffold:Pmarinus_7.0:GL478691:31611:33359:1 gene:ENSPMAG00000006139.1 transcript:ENSPMAT00000006798.1 gene_biotype:protein_coding transcript_biotype:protein_coding) HSP 1 Score: 65.4698 bits (158), Expect = 1.062e-13 Identity = 36/86 (41.86%), Postives = 57/86 (66.28%), Query Frame = -3 Query: 113 RKSISLETKMQVIRRLDSGERQSQISAALNLPTSTIRTILKNKEKILXXXXXXXXXXXTKITHSRNSIIEEMEKRLSIWIDDEIER 370 R +++LE K++++RR ++GE + + A NL STIR I KN KI SS +T SA K T RN ++E+MEK L +W++D+ ++ Sbjct: 12 RTALTLEVKLEILRRAEAGEGPAALGRAFNLGESTIRAINKNSAKIRSSVMHSTPLSAKKTTRVRNPLLEKMEKMLVVWVEDQYQK 97
BLAST of SMED30009573 vs. Ensembl Sea Lamprey
Match: ENSPMAT00000003825.1 (pep scaffold:Pmarinus_7.0:GL476420:1061824:1069341:1 gene:ENSPMAG00000003503.1 transcript:ENSPMAT00000003825.1 gene_biotype:protein_coding transcript_biotype:protein_coding) HSP 1 Score: 60.077 bits (144), Expect = 3.193e-12 Identity = 36/89 (40.45%), Postives = 52/89 (58.43%), Query Frame = -3 Query: 104 RKSISLETKMQVIRRLDSGERQSQISAALNLPTSTIRTILKNKEKILXXXXXXXXXXXTKITHSRNSIIEEMEKRLSIWIDDEIERNMP 370 R I++E KM +IRR + GE + I AL L STI TI+K+KE+I+ + IT ++ ++ EMEKRL +WI+D R P Sbjct: 12 RTIITMEMKMDIIRRSEKGETSAAIGRALGLNRSTIGTIIKDKERIVEHVKIAAPVKSIIIT-KQSGVLSEMEKRLLMWIEDRNRRCAP 99
BLAST of SMED30009573 vs. Ensembl Sea Lamprey
Match: ENSPMAT00000003826.1 (pep scaffold:Pmarinus_7.0:GL476420:1061824:1069341:1 gene:ENSPMAG00000003503.1 transcript:ENSPMAT00000003826.1 gene_biotype:protein_coding transcript_biotype:protein_coding) HSP 1 Score: 60.077 bits (144), Expect = 3.293e-12 Identity = 36/89 (40.45%), Postives = 52/89 (58.43%), Query Frame = -3 Query: 104 RKSISLETKMQVIRRLDSGERQSQISAALNLPTSTIRTILKNKEKILXXXXXXXXXXXTKITHSRNSIIEEMEKRLSIWIDDEIERNMP 370 R I++E KM +IRR + GE + I AL L STI TI+K+KE+I+ + IT ++ ++ EMEKRL +WI+D R P Sbjct: 12 RTIITMEMKMDIIRRSEKGETSAAIGRALGLNRSTIGTIIKDKERIVEHVKIAAPVKSIIIT-KQSGVLSEMEKRLLMWIEDRNRRCAP 99
BLAST of SMED30009573 vs. Planmine SMEST
Match: SMESG000071434.1 (SMESG000071434.1) HSP 1 Score: 51.6026 bits (122), Expect = 2.410e-8 Identity = 38/97 (39.18%), Postives = 55/97 (56.70%), Query Frame = -3 Query: 116 DNEKQENKATRKSISLETKM--QVIRRLDSGERQSQISAALNLPTSTIRTILKNKEKILXXXXXXXXXXXTKITHSRNSIIEEMEKRLSIWIDDEIE 400 D K +N + S L KM Q++ RL GE+ S I+ LNL +T+RTI K +++I + A S+ + R IIE+MEK LSIWI+D + Sbjct: 117 DQTKNDNVKRKWSSKLMMKMKKQILDRLLKGEKASHIAKTLNLNEATVRTIKKKEKEIRCAVAAGCSLSSKYSSRLRVPIIEKMEKALSIWINDSCQ 213 The following BLAST results are available for this feature:
BLAST of SMED30009573 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 2
BLAST of SMED30009573 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30009573 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30009573 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30009573 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30009573 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30009573 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 2
BLAST of SMED30009573 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30009573 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30009573 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 5
BLAST of SMED30009573 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30009573 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30009573 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30009573 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 1
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30009573 ID=SMED30009573|Name=SMED30009573|organism=Schmidtea mediterranea sexual|type=transcript|length=435bpback to top Annotated Terms
The following terms have been associated with this transcript:
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