SMED30007586
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., 2020SMED30007586 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 7
Alignments
SMED30007586 aligns in the following genomic locations:
Homology
BLAST of SMED30007586 vs. Ensembl Xenopus
Match: ephx2 (epoxide hydrolase 2, cytoplasmic [Source:Xenbase;Acc:XB-GENE-947544]) HSP 1 Score: 49.2914 bits (116), Expect = 6.226e-6 Identity = 39/147 (26.53%), Postives = 68/147 (46.26%), Query Frame = 2 Query: 599 KVKSTVISHLKKEFINKYGIDA-SYTRLWNEFQPKHMCCGIDNGADYKSTKWYNSPSNEFPKEGEVPLSCCTMEDEHFINTTACAHSRPEDQSKYIYNKGCWDILRNVVSLTLYWSSIAVFILCGILLFVIIFSCIMNRRINRDILY 1036 KV+ V + + F GI S +R + Q + CCGIDN D+++T W++ N VPLSCC +++ + ++P D +Y++GC ++ + + + A I L ++ +CI+ R RD Y Sbjct: 110 KVEDEVDNTIANVFNQYNGISPDSASRAIDYVQRQLHCCGIDNYLDWENTPWFSEAKNN-----SVPLSCC----RNYVFNCTGSMNKPGD----LYSEGCKALVVEKLQEIMMYVIWAALAFAAIQLLGMLCACIVLCRRTRDPAY 243
BLAST of SMED30007586 vs. TrEMBL
Match: A0A4E0RVG9 (Uncharacterized protein OS=Fasciola hepatica OX=6192 GN=D915_003895 PE=3 SV=1) HSP 1 Score: 68.1662 bits (165), Expect = 1.066e-8 Identity = 30/107 (28.04%), Postives = 56/107 (52.34%), Query Frame = 2 Query: 599 KVKSTVISHLKKEFINKYGIDASYTRLWNEFQPKHMCCGIDNGADYKSTKWYNSPSNEFPK-EGEVPLSCCTMED-EHFINTTACAHSRPEDQSKYIYNKGCWDILR 913 +++ ++ + ++ F YG D + T W+ Q + CCG+ Y S++W P+N P+ G VP SCC D + ++N C S ++ ++Y GC++ +R Sbjct: 177 QIRDSLRNEMEHRFTMNYGFDLALTNAWDSTQWSYHCCGVAGPETYASSRWIRDPNNLSPRSSGLVPDSCCKRYDNQTYVNLDGCYISPLQEAEPFLYVHGCYEFIR 283
BLAST of SMED30007586 vs. TrEMBL
Match: A0A443RHJ7 (Tetraspanin-1-like protein OS=Dinothrombium tinctorium OX=1965070 GN=B4U79_11527 PE=3 SV=1) HSP 1 Score: 66.6254 bits (161), Expect = 2.197e-8 Identity = 49/157 (31.21%), Postives = 72/157 (45.86%), Query Frame = 2 Query: 602 VKSTVISHLKKEFINKYGIDASYTRLWNEFQPKHMCCGIDNGADYKSTKWYNSPSNEFPKEGE-VPLSCCTMEDEHFINTT-ACAHSRPEDQSKYIYNKGCWDILRNVVSLTLYWSSIAVFILCGILLFVII------FSCIMNRRINRDILYGQVV 1048 + + + S LK N+YG D + +W++ Q ++ CCG+D DY T W ++F VP SCC M I +C S ED+ IY GC+D + L+W + ILC +L F +I F CI+ I I QV+ Sbjct: 58 IATNLRSDLKNRLNNEYGFDYIFQTIWDKIQSENQCCGVDGPYDYNMTLWLAKVHSDFSSNAMLVPNSCCRMSSNKNIPLDYSCVDSYSEDK---IYTFGCYDSI-------LHWLQRSANILC-VLGFCVISFLKLCFVCILRYEIKEMIQKIQVL 203
BLAST of SMED30007586 vs. TrEMBL
Match: A0A3S4RD86 (Tetraspanin-1-like protein (Fragment) OS=Dinothrombium tinctorium OX=1965070 GN=B4U79_03618 PE=4 SV=1) HSP 1 Score: 66.6254 bits (161), Expect = 4.111e-8 Identity = 49/157 (31.21%), Postives = 72/157 (45.86%), Query Frame = 2 Query: 602 VKSTVISHLKKEFINKYGIDASYTRLWNEFQPKHMCCGIDNGADYKSTKWYNSPSNEFPKEGE-VPLSCCTMEDEHFINTT-ACAHSRPEDQSKYIYNKGCWDILRNVVSLTLYWSSIAVFILCGILLFVII------FSCIMNRRINRDILYGQVV 1048 + + + S LK N+YG D + +W++ Q ++ CCG+D DY T W ++F VP SCC M I +C S ED+ IY GC+D + L+W + ILC +L F +I F CI+ I I QV+ Sbjct: 106 IATNLRSDLKNRLNNEYGFDYIFQTIWDKIQSENQCCGVDGPYDYNMTLWLAKVHSDFSSNAMLVPNSCCRMSSNKNIPLDYSCVDSYSEDK---IYTFGCYDSI-------LHWLQRSANILC-VLGFCVISFLKLCFVCILRYEIKEMIQKIQVL 251
BLAST of SMED30007586 vs. TrEMBL
Match: A0A3M6V1N1 (Tetraspanin OS=Pocillopora damicornis OX=46731 GN=pdam_00012077 PE=3 SV=1) HSP 1 Score: 63.929 bits (154), Expect = 1.031e-7 Identity = 44/138 (31.88%), Postives = 68/138 (49.28%), Query Frame = 2 Query: 599 KVKSTVISHLKKEFINKYG--IDASYTRLWNEFQPKHMCCGIDNGADYKSTKWYNSPSNEFPKEGEVPLSCCTMEDEHFINTTACAHSRPEDQSKYIYNKGCWDILRNVVSLTLYWSSIAVFILCGILLFVIIFSCIM 1006 +V++ V + LK+E YG ID++ + + Q + CCG N D+ +KW E K+ +VPLSCC ++ NT C D+ K I+ KGC L + V L+ I + GI L +IF+C + Sbjct: 108 RVETEVENRLKEEIKTNYGVKIDSTTNQNVDNLQIRLECCGASNYTDWDESKW-----KEVNKDNKVPLSCCKKDE----NTRTCNKVSNFDKKK-IHTKGCLQSLTDFVDKHLFVLGIVAVSIAGIQLLGMIFACCL 235
BLAST of SMED30007586 vs. TrEMBL
Match: A0A267EA85 (Uncharacterized protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig006964g2 PE=3 SV=1) HSP 1 Score: 62.003 bits (149), Expect = 6.374e-7 Identity = 35/118 (29.66%), Postives = 63/118 (53.39%), Query Frame = 2 Query: 671 TRLWNEFQPKHMCCGIDNGADY-KSTKW--YNSPSNEFPKEGEVPLSCCTMEDEHFINTTACAHSRPEDQSKYIYNKGCWDILRNVVSLTLYWSSIAVFILCGILLFVIIFSCIMNRR 1015 T LWN F CCGI+NG+D+ ST W Y + S ++ PL+CC + N TAC H+ D + +N GC++++ VV + + ++++ + + + ++ FS + R+ Sbjct: 161 TVLWNVFHMSLSCCGINNGSDFLSSTTWPRYVNYSGKYYDSVAYPLTCCKLT-----NWTACLHTNHTDAAYSNWNIGCYNLIDRVVQINIVYAALGTAAVLLLQVLILDFSVHLCRK 273
BLAST of SMED30007586 vs. Ensembl Cavefish
Match: zgc:113223 (tetraspanin-33-like [Source:NCBI gene;Acc:103041228]) HSP 1 Score: 48.9062 bits (115), Expect = 4.352e-6 Identity = 28/98 (28.57%), Postives = 45/98 (45.92%), Query Frame = 2 Query: 623 HLKKEFINKYGIDASYTRLWNEFQPKHMCCGIDNGADYKSTKWYN-SPSNEFPKEGEVPLSCCTMEDEHFINTTACAHSRPEDQ---SKYIYNKGCWD 904 L K+ I Y D + + Q K +CCG+D+ D+ ++N S N + VP SCC + + + C + D+ S+ IY KGC + Sbjct: 112 QLMKKAIVLYREDLDLENVIDFVQKKFLCCGVDDYTDWSQNVYFNCSEKNPSLEACGVPFSCCVRQPNETVFNSMCGYETQRDESSPSERIYTKGCLE 209
BLAST of SMED30007586 vs. Ensembl Cavefish
Match: zgc:113223 (tetraspanin-33-like [Source:NCBI gene;Acc:103041228]) HSP 1 Score: 48.9062 bits (115), Expect = 4.714e-6 Identity = 28/98 (28.57%), Postives = 45/98 (45.92%), Query Frame = 2 Query: 623 HLKKEFINKYGIDASYTRLWNEFQPKHMCCGIDNGADYKSTKWYN-SPSNEFPKEGEVPLSCCTMEDEHFINTTACAHSRPEDQ---SKYIYNKGCWD 904 L K+ I Y D + + Q K +CCG+D+ D+ ++N S N + VP SCC + + + C + D+ S+ IY KGC + Sbjct: 109 QLMKKAIVLYREDLDLENVIDFVQKKFLCCGVDDYTDWSQNVYFNCSEKNPSLEACGVPFSCCVRQPNETVFNSMCGYETQRDESSPSERIYTKGCLE 206
BLAST of SMED30007586 vs. Ensembl Nematostella
Match: EDO35938 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7SK25]) HSP 1 Score: 51.6026 bits (122), Expect = 1.786e-7 Identity = 39/143 (27.27%), Postives = 63/143 (44.06%), Query Frame = 2 Query: 599 KVKSTVISHLKKEFINKYGIDASYTRLWNEFQPKHMCCGIDNGADYKSTKWYNSPSNEFPKEGEVPLSCCTMEDEHFINTTACAHSRPEDQSKYIYNKGCWDILRNVVSLTLYWSSIAVFILCGILLFVIIFSCIMNRRINRD 1027 +V+ + +L ++ N YG D+ N Q + CCG + D+ +KW + K+ VPLSCCT N T C +D K +Y+ GC + L+ V + + + L +IFSC + I+ D Sbjct: 114 QVQEEIKINLDEQIRNTYGYDSEVESHINNLQIRLKCCGGERPGDWLGSKW----KRDLNKDKIVPLSCCTENA----NKTTC---YKDDTYKEVYSSGCVNELKTFVDKHMILIGAIAVGISIVQLLGMIFSCCLFCAIDND 245
BLAST of SMED30007586 vs. Ensembl Medaka
Match: cd63 (CD63 molecule [Source:NCBI gene;Acc:101174188]) HSP 1 Score: 49.2914 bits (116), Expect = 2.971e-6 Identity = 27/112 (24.11%), Postives = 53/112 (47.32%), Query Frame = 2 Query: 683 NEFQPKHMCCGIDNGADYKSTKWYNSPSNEFPKEGEVPLSCCTMEDEHFINTTACAHSRPEDQSKYIYNKGCWDILRNVVSLTLYWSSIAVFILCGILLFVIIFSCIMNRRI 1018 ++ Q CCG+++ +D+ + +S N VP SCC IN T + +Y KGC D++ N++ + W +A ++ + + ++FSC++ + I Sbjct: 138 DQIQENLKCCGVNSSSDWS---YLDSDGNS------VPDSCC-------INKTKGCGKGSMKNAGTVYQKGCHDVIENLLKTNIQWVIVAAIVIALVQILGVVFSCLLMKSI 233
BLAST of SMED30007586 vs. Ensembl Medaka
Match: tspan14 (tetraspanin-14 [Source:NCBI gene;Acc:101174770]) HSP 1 Score: 49.6766 bits (117), Expect = 3.383e-6 Identity = 33/122 (27.05%), Postives = 56/122 (45.90%), Query Frame = 2 Query: 641 INKYGIDASYTRLWNEFQPKHMCCGIDNGADYKSTKWYN-SPSNEFPKEGEVPLSCCTMEDEHFINTTACAH---SRPEDQSKYIYNKGCWDILRNVVSLTLYWSSIAVFILCGILLFVIIF 994 I Y D L + Q + CCG + D+ ++N + +N + VP SCC + + T C + + +D + YI+ KGC L + + LY +I VF++ +L V I+ Sbjct: 199 IRSYRDDIDLQNLIDSLQKMNQCCGAKDPNDWDENLYFNCNMTNRSRESCGVPFSCCISDPTDLVINTQCGYDVRKKKDDWANYIHTKGCITALEDWLPRNLYTVAI-VFVVISLLQMVGIY 319
BLAST of SMED30007586 vs. Planmine SMEST
Match: SMESG000043582.1 (SMESG000043582.1) HSP 1 Score: 314.694 bits (805), Expect = 3.043e-105 Identity = 147/150 (98.00%), Postives = 150/150 (100.00%), Query Frame = 2 Query: 599 KVKSTVISHLKKEFINKYGIDASYTRLWNEFQPKHMCCGIDNGADYKSTKWYNSPSNEFPKEGEVPLSCCTMEDEHFINTTACAHSRPEDQSKYIYNKGCWDILRNVVSLTLYWSSIAVFILCGILLFVIIFSCIMNRRINRDILYGQVV 1048 +VKSTVISHLKKEFINKYGIDASYTRLWNEFQPKHMCCGIDNGADYKSTKWYNSPSNEFPKEGEVPLSCCTM+DEHF+NTTACAHSRPEDQSKYIYNKGCWDILRNVVSLTLYWSSIAVFILCGILLFVIIFSCIMNRRINRDILYGQVV Sbjct: 105 QVKSTVISHLKKEFINKYGIDASYTRLWNEFQPKHMCCGIDNGADYKSTKWYNSPSNEFPKEGEVPLSCCTMKDEHFLNTTACAHSRPEDQSKYIYNKGCWDILRNVVSLTLYWSSIAVFILCGILLFVIIFSCIMNRRINRDILYGQVV 254 The following BLAST results are available for this feature:
BLAST of SMED30007586 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30007586 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30007586 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30007586 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30007586 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 1
BLAST of SMED30007586 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30007586 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30007586 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30007586 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 2
BLAST of SMED30007586 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30007586 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30007586 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 1
BLAST of SMED30007586 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 2
BLAST of SMED30007586 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 >SMED30007586 ID=SMED30007586|Name=SMED30007586|organism=Schmidtea mediterranea sexual|type=transcript|length=1482bpback to top protein sequence of SMED30007586-orf-1 >SMED30007586-orf-1 ID=SMED30007586-orf-1|Name=SMED30007586-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=116bp MCCGIDNGADYKSTKWYNSPSNEFPKEGEVPLSCCTMEDEHFINTTACAHback 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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