SMED30007162
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., 2020SMED30007162 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 7
Alignments
SMED30007162 aligns in the following genomic locations:
Homology
BLAST of SMED30007162 vs. TrEMBL
Match: A0A1S3I2F2 (uncharacterized protein LOC106160400 OS=Lingula unguis OX=7574 GN=LOC106160400 PE=4 SV=1) HSP 1 Score: 90.1225 bits (222), Expect = 1.033e-15 Identity = 89/322 (27.64%), Postives = 137/322 (42.55%), Query Frame = 3 Query: 156 RHNPHPLYVRHVKGFLGQPTQIVETDEDNVILSQGTVEGFIQDSVKRGVWN----YMDSKSFVR---------------KTRDLDEILSLQYFTGLQNFSFKENYLPYLGYREYFSSWRKNLRNLS-INSYQFIKDKTKTKNENKFTRVENSNEWNKTNSDIFRRKSMYSS-SGRLSVYQDRDRKSSFRERIRSQQRISTGISYKSNEKDEDPDFNNFDASVFVLIANLLQTTSPHVVQNWLSQSTDREKAIMISMIXXXXXXXXXXXXXXGDMQTEKETQTSKCNM----TA-----ESALRDIKNNSKNGKSAEDKCDIL 1031 RHNPHP VRH+KG L P V D GF +N Y D+KS R ++ I LQ+FTGL ++ F+E +P +G +WR L+ L+ + Y +D+ + K E K +VE ++ R K+ YSS +GRL R + R+ R +R Y+ + D + VF ++A +LQT P+ VQ WL S +REKA+++ MI+ + ++ G+ Q E M TA ++A+ I ++ G S E I+ Sbjct: 55 RHNPHPRRVRHLKGLLDMPICSVNDD------------GFFASPRYSLFYNSPNSYNDAKSMQRGLGVTLPVNAINVNSTLHPINTITGLQHFTGLNSYPFREKAVPKVGMVPQTEAWRDELKMLTELAQYNPSEDR-RLKPEEK--KVE----------EMTRPKTQYSSETGRLIPPPSR---AMTRQGSRQNKRQQFFSQYEHIAPEPD-----METMVFQMLAQILQTDDPNAVQAWLVSSGEREKALVLDMIRAAITSREEYYNKAGNPQEYVEPSRVGTAMDRIATASVERVQTAMLGITEATQTGASLEGSAQII 343
BLAST of SMED30007162 vs. TrEMBL
Match: A0A1I8JKL9 (Uncharacterized protein OS=Macrostomum lignano OX=282301 PE=4 SV=1) HSP 1 Score: 83.5741 bits (205), Expect = 1.252e-13 Identity = 70/252 (27.78%), Postives = 109/252 (43.25%), Query Frame = 3 Query: 156 RHNPHPLYVRHVKGFLGQPTQIVETDEDNVILSQGTVEGFIQDS------VKRGVWNYMDSKSFVRKTRDLDEILSLQYFTGLQNFSFKENYLPYLGYREYFSSWRKNLRNLSINSYQFIKDKTKTKNENKFTRVENSNEWNKTNSDIFRR---------KSMYS-SSGRLSVYQDRDRKSSFRERIRSQQRISTGISYKSNEKDEDPDFNNFDASVFVLIANLLQTTSPHVVQNWLSQSTDREKAIMISMI 863 RHNPHP H+KG LG P +V D D+ S T F + + + +++ LD + LQYFT L+N+SFKE +P LG SWR+ LR+L+ + F ++ R + + T D R+ + MYS +GRL R R +Y+ D +++VF ++ +LQT + VQ WL ++DREKA+++ +I Sbjct: 41 RHNPHPHRCVHIKGLLGLPIPVVVDDCDDS--SYETHLCFPPNGHNDEKLASQRLLLPVNAIHLNSHKHPLDTVNGLQYFTNLRNYSFKEKAVPRLGLVPVTESWREQLRSLTDQT--FHPEQPVAPAPAADGRGDMNLRREATYPDPARQQQPEQSQTARPMYSRQTGRLIPPPSRAMSRRPLRSSRRSTPAHVLSNYEHISAAPD-----LESAVFSMLCQILQTEDFNAVQAWLVSASDREKALVMDVI 283
BLAST of SMED30007162 vs. TrEMBL
Match: A0A1I8H186 (Uncharacterized protein OS=Macrostomum lignano OX=282301 PE=4 SV=1) HSP 1 Score: 83.1889 bits (204), Expect = 1.489e-13 Identity = 70/252 (27.78%), Postives = 109/252 (43.25%), Query Frame = 3 Query: 156 RHNPHPLYVRHVKGFLGQPTQIVETDEDNVILSQGTVEGFIQDS------VKRGVWNYMDSKSFVRKTRDLDEILSLQYFTGLQNFSFKENYLPYLGYREYFSSWRKNLRNLSINSYQFIKDKTKTKNENKFTRVENSNEWNKTNSDIFRR---------KSMYS-SSGRLSVYQDRDRKSSFRERIRSQQRISTGISYKSNEKDEDPDFNNFDASVFVLIANLLQTTSPHVVQNWLSQSTDREKAIMISMI 863 RHNPHP H+KG LG P +V D D+ S T F + + + +++ LD + LQYFT L+N+SFKE +P LG SWR+ LR+L+ + F ++ R + + T D R+ + MYS +GRL R R +Y+ D +++VF ++ +LQT + VQ WL ++DREKA+++ +I Sbjct: 41 RHNPHPHRCVHIKGLLGLPIPVVVDDCDDS--SYETHLCFPPNGHNDEKLASQRLLLPVNAIHLNSHKHPLDTVNGLQYFTNLRNYSFKEKAVPRLGLVPVTESWREQLRSLTDQT--FHPEQPVAPAPAADGRGDMNLRREATYPDPARQQQPEQSQTARPMYSRQTGRLIPPPSRAMSRRPLRSSRRSTPAHVLSNYEHISAAPD-----LESAVFSMLCQILQTEDFNAVQAWLVSASDREKALVMDVI 283
BLAST of SMED30007162 vs. TrEMBL
Match: A0A267H1S7 (Uncharacterized protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig006934g1 PE=4 SV=1) HSP 1 Score: 82.8037 bits (203), Expect = 2.383e-13 Identity = 70/252 (27.78%), Postives = 109/252 (43.25%), Query Frame = 3 Query: 156 RHNPHPLYVRHVKGFLGQPTQIVETDEDNVILSQGTVEGFIQDS------VKRGVWNYMDSKSFVRKTRDLDEILSLQYFTGLQNFSFKENYLPYLGYREYFSSWRKNLRNLSINSYQFIKDKTKTKNENKFTRVENSNEWNKTNSDIFRR---------KSMYS-SSGRLSVYQDRDRKSSFRERIRSQQRISTGISYKSNEKDEDPDFNNFDASVFVLIANLLQTTSPHVVQNWLSQSTDREKAIMISMI 863 RHNPHP H+KG LG P +V D D+ S T F + + + +++ LD + LQYFT L+N+SFKE +P LG SWR+ LR+L+ + F ++ R + + T D R+ + MYS +GRL R R +Y+ D +++VF ++ +LQT + VQ WL ++DREKA+++ +I Sbjct: 41 RHNPHPHRCVHIKGLLGLPIPVVVDDCDDS--SYETHLCFPPNGHNDEKLASQRLLLPVNAIHLNSHKHPLDTVNGLQYFTNLRNYSFKEKAVPRLGLVPVTESWREQLRSLTDQT--FHPEQPVAPAPAADGRGDMNLRREATYPDPARQQQPEQSQTARPMYSRQTGRLIPPPSRAMSRRPLRSSRRSTPAHVLSNYEHISVAPD-----LESAVFSMLCQILQTEDFNAVQAWLVSASDREKALVMDVI 283
BLAST of SMED30007162 vs. TrEMBL
Match: K1R2A0 (Protein SPATIAL OS=Crassostrea gigas OX=29159 GN=CGI_10026923 PE=4 SV=1) HSP 1 Score: 79.7221 bits (195), Expect = 2.440e-12 Identity = 61/243 (25.10%), Postives = 98/243 (40.33%), Query Frame = 3 Query: 156 RHNPHPLYVRHVKGFLGQPTQIVETDEDNVILSQGTVEGFIQDSVKRGVWNYMDSKSFV------RKTRDLDEILSLQYFTGLQNFSFKENYLPYLGYREYFSSWRKNLRNLSINSYQFIKDKTKTKNENKFTRVENS-NEWNKTNSDIFRRKSMYSSSGRLSVYQDRDRKSSFRERIRSQQRISTGISYKSNEKDEDPDFNNFDASVFVLIANLLQTTSPHVVQNWLSQSTDREKAIMISMI 863 RHNPHP VRH+KG L P I ++D S F ++ N + V + ++ + LQYFTGL ++ F+E +P +G WR L+ L+ + F D+ + E ++++T I S S G+ Q RDR + I +PD V ++ +LQT + VQ WL + +REK +++ +I Sbjct: 61 RHNPHPSRVRHIKGLLDVP--ICAVNDDGYFASPKYSLQFPPNAFNNKQMNKWKGQVPVNAINVNSRLHPINTVTGLQYFTGLNSYPFREKAVPRVGMVPVTEQWRDELQQLT-KAIGFGTDELAPQKPQAPGVPERPKTQYSETTGRIIPPPSRAMSRGKTGSRQGRDRYFGTLQHIAP-----------------EPDMETM---VLQMLCQILQTEDINAVQAWLCSAGEREKTVVMDLI 280
BLAST of SMED30007162 vs. Planmine SMEST
Match: SMESG000081805.1 (SMESG000081805.1) HSP 1 Score: 303.908 bits (777), Expect = 1.753e-103 Identity = 143/146 (97.95%), Postives = 145/146 (99.32%), Query Frame = 3 Query: 63 MTAYQNSFFQNKSLEEEFPYRAIIKRDLPQLRHNPHPLYVRHVKGFLGQPTQIVETDEDNVILSQGTVEGFIQDSVKRGVWNYMDSKSFVRKTRDLDEILSLQYFTGLQNFSFKENYLPYLGYREYFSSWRKNLRNLSINSYQFIK 500 MTAYQNSFFQNKSLEEEFPYRAIIKRDLPQLRHNPHPLYVRHVKGFLGQPTQIVET+EDNVILSQGTVEGFIQD VKRGVWNY+DSKSFVRKTRDLDEILSLQYFTGLQNFSFKENYLPYLGYREYFSSWRKNLRNLSINSYQFIK Sbjct: 1 MTAYQNSFFQNKSLEEEFPYRAIIKRDLPQLRHNPHPLYVRHVKGFLGQPTQIVETEEDNVILSQGTVEGFIQDCVKRGVWNYIDSKSFVRKTRDLDEILSLQYFTGLQNFSFKENYLPYLGYREYFSSWRKNLRNLSINSYQFIK 146
BLAST of SMED30007162 vs. Planmine SMEST
Match: SMESG000081806.1 (SMESG000081806.1) HSP 1 Score: 154.066 bits (388), Expect = 8.688e-46 Identity = 92/93 (98.92%), Postives = 92/93 (98.92%), Query Frame = 3 Query: 912 MQTEKETQTSKCNMTAESALRDIKNNSKNGKSAEDKCDILVIDRKLTGESVEDNPNDFRPPTSSTFRPVXXXXXXXXXXXXXXXXATMWSQGE 1190 MQTEKETQTSKCNMTAESALRDIKNNSKNGKSAEDKCDILVIDRKLTGESVED PNDFRPPTSSTFRPVKTSDRSSSKASKLSSKATMWSQGE Sbjct: 1 MQTEKETQTSKCNMTAESALRDIKNNSKNGKSAEDKCDILVIDRKLTGESVEDKPNDFRPPTSSTFRPVKTSDRSSSKASKLSSKATMWSQGE 93
BLAST of SMED30007162 vs. Planmine SMEST
Match: SMESG000053617.1 (SMESG000053617.1) HSP 1 Score: 109.768 bits (273), Expect = 1.888e-26 Identity = 103/331 (31.12%), Postives = 158/331 (47.73%), Query Frame = 3 Query: 153 LRHNPHPLYVRHVKGFLGQPTQIVETDEDN------VILSQGTVEGFIQDSVKRGVWNYMDSKSFVRKTRDLDEILSLQYFTGLQNFSFKENYLPYLGYREYFSSWRKNLRNLSINSY-QFIKDKTKTKNENKFTRVENSNEWNKTNSDIFRRKSMYSSSGRLSVYQDRDRKSSFRERIRSQQRISTGISYKSNEKDEDPDFNNFDASVFVLIANLLQTTSPHVVQNWLSQSTDREKAIMISMIXXXXXXXXXXXXXXGDMQTEKETQ---TSKCNMTAESALRDIKNNSKNGKSAEDKCDILVIDRKLTGESVEDNPNDFRPPTSSTFRP 1115 ++H+PHP VRH+K G P +V++++ N + + + K + + DS +FV LD I SL YFTGLQ+ SF+ + + W K L+N++ ++ F+K+K + EN+ T +E + S K MYSSSGR+ R + E+ R R+++ S+ S D N D VF L+ +LQT V++ WL +T+REKA+M+ +++ L+++ N+ D E Q T N + S L I NS + +K D LVI E P RPPTSSTFRP Sbjct: 25 VQHSPHPNRVRHIKTLFGNPVCVVDSEDGNTNRKYSLHFPPNNYDDVKLKTTKLNLHSNSDSNAFVSARPTLDTINSLNYFTGLQSMSFRNRPNFNMSRVKSLEGWEKQLKNITDSALDPFLKNKCLS--ENQLTMIETGRD-----SISSPMKRMYSSSGRILPIIGISRPLTSPEK-RPNSRLNSSKSFMSEGGSND---INIDLQVFHLLGGILQTNENEVIKTWLLTATEREKALMVDIVRCALVDKEELNIFVRDSIPNGENQIIYTPAKNFS--SKLPVISENSNS-----EKIDQLVIHSD-PQPKFEVPPT--RPPTSSTFRP 334 The following BLAST results are available for this feature:
BLAST of SMED30007162 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SMED30007162 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SMED30007162 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SMED30007162 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SMED30007162 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SMED30007162 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SMED30007162 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SMED30007162 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SMED30007162 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SMED30007162 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SMED30007162 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SMED30007162 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SMED30007162 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SMED30007162 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 >SMED30007162 ID=SMED30007162|Name=SMED30007162|organism=Schmidtea mediterranea sexual|type=transcript|length=1278bpback to top protein sequence of SMED30007162-orf-1 >SMED30007162-orf-1 ID=SMED30007162-orf-1|Name=SMED30007162-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=383bp MTAYQNSFFQNKSLEEEFPYRAIIKRDLPQLRHNPHPLYVRHVKGFLGQPback to top Annotated Terms
The following terms have been associated with this transcript:
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