SWIM-type domain-containing protein
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., 2020SMED30016870 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 7
Homology
BLAST of SWIM-type domain-containing protein vs. TrEMBL
Match: A0A226EBP5 (MULE domain-containing protein OS=Folsomia candida OX=158441 GN=Fcan01_11709 PE=4 SV=1) HSP 1 Score: 142.124 bits (357), Expect = 2.855e-32 Identity = 119/395 (30.13%), Postives = 178/395 (45.06%), Query Frame = 2 Query: 617 QPKATIREFRKVQEVPKRNQIVSYLGQHKKKIKGPCRINLTELEEMCKSHSKVRKQLLYH**XXXXXXXCSI*NKFYNNYFFITKRLLKFALTAVNMHADATYKLIWQSFPVLMVGTIDKQNHYITFGIAVTTSETGYDFEFIFNSVISGLKAIDISYKPKPKIIMTDAADSISNGFKQVFEVD--------SRCKR-SNHK------------------------------AAELFIDKWYENEEKFTAYFRKEWLDAHVGGYEGFTPGYTSHNNSLGGTNEDLKSSHTITECLPIKD---FL*QQLKL--------SKSGRLVIIQRKIVP*P*PMHTSSFKKIKK---LHVNDSNESNLIYSISAKDLPAITISKVNSYKKKIKNYDWKDFD 1642 +P R ++ + K+ QI +YL K++ +GP I+L EL+ +S++ L N+ + F TKRLL AL +H DATYKL W+ FPVL++G DK H+ GI+VT SET DFEF+F S+++ + + PKI++ DAA++I+N FK VF D CK +HK A LF K+ E+ + F YF+ E + G YEG GY S NN L TN +K T ECL + D F QQ K+ + +L I + M T++F+ + K + S +S +++ ISA P + +N + + + WK FD Sbjct: 132 KPTTIKRALQQQNIIIKKTQIANYLAS-KRRNRGPKIISLGELQAEANKYSQLPHDLDEPYVDNSGLEFEE--NQKWFGVFLSTKRLLDIALQTQVIHCDATYKLSWEGFPVLVIGVSDKDRHFHPLGISVTASETTRDFEFLFRSMVTS-----VGHNYSPKILIADAAEAITNAFKTVFGDDFIRVFCWFHLCKNIDSHKSLVKDKNLWAGIKKNMSQLQLAKSVEEFNVAQTLFCQKYKESAKDFIEYFKNEHIAQRCGWYEGLALGYPSTNNGLESTNGWIKKQGTFRECLSMGDLFRFFMQQCKVWSDERNPATPDAKLFIHTPTLTL---QMQTNAFQWMTKKPDIKYRTSGDS-ILHFISASGKPKLKEDDINKFLRMNEKLSWKSFD 514
BLAST of SWIM-type domain-containing protein vs. TrEMBL
Match: A0A226DW34 (MULE domain-containing protein OS=Folsomia candida OX=158441 GN=Fcan01_15770 PE=4 SV=1) HSP 1 Score: 130.183 bits (326), Expect = 9.614e-28 Identity = 101/316 (31.96%), Postives = 148/316 (46.84%), Query Frame = 2 Query: 857 FFITKRLLKFALTAVNMHADATYKLIWQSFPVLMVGTIDKQNHYITFGIAVTTSETGYDFEFIFNSVISGLKAIDISYKPKPKIIMTDAADSISNGFKQVFEVD--------SRCKRSNHK-------------------------------AAELFIDKWYENEE--KFTAYFRKEWLDAHVGGYEGFTPGYTSHNNSLGGTNEDLKSSHTITECLPIKDFL---*QQLKLSKSGRLVIIQRKIVP*P*P-----MHTSSFKKIK-----KLHVNDSNESNLIYSISAKDLPAITISKVNSYKKKIKNYDWKDFD 1642 + T+RLL+ A + +H+DATYKL WQ +PV++ G D+ + G+AVT++ET DF+FIF S+ G S K KP I++ DAA+SI+NGFK+VF D CK + + A ELF+ K+ + +F AYF++E LD G YEG G+ S NN + GTN +K T E L I L Q ++ R+ I+ + P + TS+F ++ K H D N + Y ISA + P + +N Y + + WK FD Sbjct: 206 YITTRRLLQIAELSTAVHSDATYKLCWQGYPVILTGVSDQDRTFHPTGMAVTSAETSADFKFIFESLKMG-----TSEKYKPTILIADAAESITNGFKEVFGCDITRIYCWFHLCKNIDARQSTIKNKELWRKLRGDVNELQLARSPEDFLAAKELFLKKYRTEADLTQFMAYFKQEHLDTRDGWYEGHCMGFPSTNNGIEGTNAWIKRQGTFRERLSIGQLLQYMTNQTEIWSKERIPGIRDAKLFHEEPSLSLALQTSAFNWVQNKPDIKYHTCDDNITT--YFISAANQPKLKEDDINKYLRLRERRSWKTFD 514
BLAST of SWIM-type domain-containing protein vs. TrEMBL
Match: A0A226D5N1 (Glycerol-3-phosphate dehydrogenase [NAD(P)+] OS=Folsomia candida OX=158441 GN=Fcan01_25381 PE=4 SV=1) HSP 1 Score: 124.02 bits (310), Expect = 5.390e-26 Identity = 117/424 (27.59%), Postives = 178/424 (41.98%), Query Frame = 2 Query: 584 LITTWYSQNIKQPKATIREFRKVQ-EVPKRNQI---VSYL-GQHKKKIKGPCRINLTELEEMCKSHSKVRKQLLYH**XXXXXXXCSI*NKFYNNY-----------FFITKRLLKFALTAVNMHADATYKLIWQSFPVLMVGTIDKQNHYITFGIAVTTSETGYDFEFIFNSVISGLKAIDISYKPKPKIIMTDAADSISNGFKQVFEVD--------------------SRCKRSNHK--------------------AAELFIDKWYENEEK-FTAYFRKEWLDAHVGGYEGFTPGYTSHNNSLGGTNEDLKSSHTITECLPIKDFL*QQLKLSKSGRL----VIIQRKIVP*P*P-----MHTSSF-----KKIKKLHVNDSNESNLIYSISAKDLPAITISKVNSYKKKIKNYDWKDFD 1642 +I + I QPK R+ + P R QI ++YL + + +I ++L ++ ++C+ S++ Q+ + F Y F TKRLL + ADATYKL W+ FPVL+VGT DK +H+ FGIA+T+ ET D F+SV LK D ++ +P++++ D A++I+N F+ VF V+ S+ S K A +LFI KW + K F YF E+L+ G YEG+ PGY NN N +K+ +T + LP+ + K+ L V + KI P + T SF KK L ++Y I+ LPA+ + Y K+ W FD Sbjct: 122 IIDSLRKDGITQPKLIQTNLRRQGIDPPSRTQISNRINYLNSKDENRI-----VSLGQISDLCRRSSEIPTQMD---------------DAFVAGYSIEFEIKRFSLFMSTKRLLSMTSQCKLLQADATYKLNWEGFPVLVVGTSDKDSHFHPFGIAITSGETVED----FSSVFQVLKGYDENF--EPEVLVADCAEAITNAFQTVFRVEFKRVYCWFHVKQNVKKFLKSSKIPESQKKGISFDIDCLQLADNEEEFNIAKKLFIKKWKTGDTKDFYDYFETEYLNQRNGWYEGYAPGYPCTNNGPEAINATIKNENTFRKRLPLGELFVTLKKIVSGWSLDRNPVSLDCKIFATS-PTYSLQLQTKSFNWSIDKKRAPLKSKKGCPGTVVYYITPSGLPALKSEDIIQYNNKMCKKTWTKFD 518
BLAST of SWIM-type domain-containing protein vs. TrEMBL
Match: A0A4Y2WAS5 (SWIM-type domain-containing protein OS=Araneus ventricosus OX=182803 GN=AVEN_1295_1 PE=4 SV=1) HSP 1 Score: 111.694 bits (278), Expect = 6.925e-22 Identity = 75/219 (34.25%), Postives = 102/219 (46.58%), Query Frame = 2 Query: 866 TKRLLKFALTAVNMHADATYKLIWQSFPVLMVGTIDKQNHYITFGIAVTTSETGYDFEFIFNSVISGLKAIDISYKPKPKIIMTDAADSISNGFKQVF---------------EVDSRCKRSNHK---------------------AAELFIDKWYE----NEEKFTAYFRKEWLDAHVGGYEGFTPGYTSHNNSLGGTNEDLKSSHTITECLPIKDFL 1402 TKRLL+ + + DATYKLIWQ +PVL+VG+ D + F IAV +ET DF FIF V I+ + + PKI++ DA+ +I+NGFK VF +D + + K +ELF+ KW E N FT YF+ WL ++ Y G + NN L TN +K HT E LP+ FL Sbjct: 220 TKRLLRLMIKTEGVQTDATYKLIWQGYPVLIVGSSDMNRTFHPFAIAVCNNETESDFAFIFKCVKDSCYKINET-EWNPKILLADASSAITNGFKAVFGFPFRRLMCYFHAVKNIDGKLRGIQDKDEIRNDIECLHLCPDDETFNIVSELFLKKWKEKNDVNITTFTEYFKSVWLTSNRHWYIGSRNYFPITNNGLEATNAVIKKEHTFRERLPVGQFL 437
BLAST of SWIM-type domain-containing protein vs. TrEMBL
Match: A0A4C1WBL2 (MULE domain-containing protein OS=Eumeta variegata OX=151549 GN=EVAR_32812_1 PE=4 SV=1) HSP 1 Score: 103.605 bits (257), Expect = 5.299e-21 Identity = 67/218 (30.73%), Postives = 103/218 (47.25%), Query Frame = 2 Query: 866 TKRLLKFALTAVNMHADATYKLIWQSFPVLMVGTIDKQNHYITFGIAVTTSETGYDFEFIFNSVISGLKAIDISYKPKPKIIMTDAADSISNGFKQVF---------------EVDSRCKRSNHK------------------------AAELFIDKWYENEEKFTAYFRKEWLDAHVGGYEGFTPGYTSHNNSLGGTNEDLKSSHTITECLPIKDFL 1402 TK L++ + A +HADATYKLIWQ FPVL+ GT D+ + + + ++E DF+ +F + ++ I PK+++ DAA SI N F +VF + R +R +K A+E F+ K YE+E +F YFR +WL ++ + G S NN+L N +K S+T+ E P+ FL Sbjct: 3 TKYLIEISKDASVVHADATYKLIWQGFPVLVCGTTDQSRKFHPLCVTIPSNEQKEDFKLMFQGLKDKIQEI-FESSWNPKVLVCDAAKSIQNAFLEVFGEHVVVRMCWAHAKRKFQERIERIKNKELRDNILNDVDSLHSITDANIFDAASEAFVQK-YEDEIEFVTYFRAQWLVQNLNWFLGAASNSPSTNNALESFNRVIKDSNTLRERFPLSRFL 218
BLAST of SWIM-type domain-containing protein vs. Planmine SMEST
Match: SMESG000018926.1 (SMESG000018926.1) HSP 1 Score: 214.927 bits (546), Expect = 3.261e-59 Identity = 103/106 (97.17%), Postives = 104/106 (98.11%), Query Frame = 2 Query: 914 DATYKLIWQSFPVLMVGTIDKQNHYITFGIAVTTSETGYDFEFIFNSVISGLKAIDISYKPKPKIIMTDAADSISNGFKQVFEVDSRCKRSNHKAAELFIDKWYEN 1231 DATYKLIWQSFPVLMVGTIDKQNHYITFGIAVTTSETGYDFEFIFNSVISGLKAIDISYKPKPKIIMTDAADSISNGFKQVFEVDSRCKRSNHKAAELFIDK +N Sbjct: 881 DATYKLIWQSFPVLMVGTIDKQNHYITFGIAVTTSETGYDFEFIFNSVISGLKAIDISYKPKPKIIMTDAADSISNGFKQVFEVDSRCKRSNHKAAELFIDKCLQN 986
BLAST of SWIM-type domain-containing protein vs. Planmine SMEST
Match: SMESG000040512.1 (SMESG000040512.1) HSP 1 Score: 78.5666 bits (192), Expect = 1.140e-16 Identity = 35/73 (47.95%), Postives = 51/73 (69.86%), Query Frame = 2 Query: 854 YFFITKRLLKFALTAVNMHADATYKLIWQSFPVLMVGTIDKQNHYITFGIAVTTSETGYDFEFIFNSVISGLK 1072 +F T RLLK A + ++ADATYKL+WQ +P+L++GT D H+ +FG+ + T+E DF FIF+S+ GLK Sbjct: 89 FFISTIRLLKLASASTILNADATYKLVWQGYPILIIGTTDLDRHFHSFGLGICTNEKTADFNFIFSSINIGLK 161
BLAST of SWIM-type domain-containing protein vs. Planmine SMEST
Match: SMESG000041932.1 (SMESG000041932.1) HSP 1 Score: 60.4622 bits (145), Expect = 4.794e-10 Identity = 27/43 (62.79%), Postives = 33/43 (76.74%), Query Frame = 2 Query: 1190 HKAAELFIDKWYENEEKFTAYFRKEWLDAHVGGYEGFTPGYTS 1318 ++A++LFIDKWYE EEKFTAYFRK+ LDAHV YE + S Sbjct: 42 NEASKLFIDKWYEKEEKFTAYFRKKCLDAHVRWYEDVNSQFKS 84 The following BLAST results are available for this feature:
BLAST of SWIM-type domain-containing protein vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of SWIM-type domain-containing protein vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of SWIM-type domain-containing protein vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of SWIM-type domain-containing protein vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of SWIM-type domain-containing protein vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of SWIM-type domain-containing protein vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of SWIM-type domain-containing protein vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of SWIM-type domain-containing protein vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of SWIM-type domain-containing protein vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of SWIM-type domain-containing protein vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of SWIM-type domain-containing protein vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of SWIM-type domain-containing protein vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of SWIM-type domain-containing protein vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of SWIM-type domain-containing protein 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 >SMED30016870 ID=SMED30016870|Name=SWIM-type domain-containing protein|organism=Schmidtea mediterranea sexual|type=transcript|length=1816bpback to top protein sequence of SMED30016870-orf-1 >SMED30016870-orf-1 ID=SMED30016870-orf-1|Name=SMED30016870-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=167bp MHADATYKLIWQSFPVLMVGTIDKQNHYITFGIAVTTSETGYDFEFIFNSback to top Annotated Terms
The following terms have been associated with this transcript:
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