Retrovirus Pol polyprotein from transposon opus
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., 2020SMED30019573 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 2
Homology
BLAST of Retrovirus Pol polyprotein from transposon opus vs. TrEMBL
Match: A0A4Z2CKZ9 (Uncharacterized protein OS=Schistosoma japonicum OX=6182 GN=EWB00_010164 PE=4 SV=1) HSP 1 Score: 90.1225 bits (222), Expect = 6.283e-20 Identity = 50/131 (38.17%), Postives = 75/131 (57.25%), Query Frame = 1 Query: 97 NEKYQKLLQKFNEYVDFKNLSVKRVIVAGVIHELSGLCLLTGLWYMCYKIRPVGKVIKSLPFYNNASHQKDISLAKQKINQIAIISWFSK--THKRMLISGTESFVLRKLLLPVTIPAKIYFAYHLSGYFC 483 N +KL N +D K S R+ VA + HE G+ LL G W +CYK +P+ ++ S P + K +S + +K++++ + W S R+L+SG ES+VLRK+L P+TIP KIY A +SG C Sbjct: 4 NSATEKLFHHLN--IDTKQWSYSRITVAVLSHESLGIGLLVGFWIICYKKQPIKHLMLSSPVNIQNVYSKGLSWSAKKLDRLPL--WISSRVDPNRILVSGAESYVLRKILSPITIPGKIYLAVLISGLIC 130
BLAST of Retrovirus Pol polyprotein from transposon opus vs. TrEMBL
Match: A0A094ZNN2 (Uncharacterized protein (Fragment) OS=Schistosoma haematobium OX=6185 GN=MS3_02839 PE=4 SV=1) HSP 1 Score: 87.0409 bits (214), Expect = 1.251e-18 Identity = 49/125 (39.20%), Postives = 70/125 (56.00%), Query Frame = 1 Query: 109 QKLLQKFNEYVDFKNLSVKRVIVAGVIHELSGLCLLTGLWYMCYKIRPVGKVIKSLPFYNNASHQKDISLAKQKINQIAIISWFSKTHKRMLISGTESFVLRKLLLPVTIPAKIYFAYHLSGYFC 483 +KL Q FN +D K S R+ VA + HE G+ L G W +CYK +PV + P + K ++ + +K+ Q+ + R+LISG ES+VLRK+L P+TIP KIY A +SG C Sbjct: 8 EKLFQHFN--IDTKQWSYSRITVALLAHESFGIGLALGFWIICYKKQPVRCLTSFAPVAIQNIYSKGLNWSARKLRQLPLFVSSQADPNRILISGAESYVLRKILSPLTIPGKIYIAVLVSGIVC 130
BLAST of Retrovirus Pol polyprotein from transposon opus vs. TrEMBL
Match: A0A5K4F6U6 (Uncharacterized protein OS=Schistosoma mansoni OX=6183 PE=4 SV=1) HSP 1 Score: 86.2705 bits (212), Expect = 2.211e-18 Identity = 47/125 (37.60%), Postives = 69/125 (55.20%), Query Frame = 1 Query: 109 QKLLQKFNEYVDFKNLSVKRVIVAGVIHELSGLCLLTGLWYMCYKIRPVGKVIKSLPFYNNASHQKDISLAKQKINQIAIISWFSKTHKRMLISGTESFVLRKLLLPVTIPAKIYFAYHLSGYFC 483 + L Q FN +D K S R+ VA + HE G+ L G W +CYK +P+ + P + K ++ + +K+ Q+ + R+LISG ES+VLRK+L P+TIP KIY A +SG C Sbjct: 8 ENLFQHFN--IDTKQWSYSRITVALLAHESFGIGLAVGFWIICYKKQPIRYLTSYAPVVIQNIYSKGLNWSARKLRQLPLFVSSQADPNRILISGAESYVLRKILSPLTIPGKIYLAVLVSGIVC 130
BLAST of Retrovirus Pol polyprotein from transposon opus vs. TrEMBL
Match: A0A430Q033 (Uncharacterized protein OS=Schistosoma bovis OX=6184 GN=DC041_0008071 PE=4 SV=1) HSP 1 Score: 85.1149 bits (209), Expect = 5.166e-18 Identity = 48/125 (38.40%), Postives = 70/125 (56.00%), Query Frame = 1 Query: 109 QKLLQKFNEYVDFKNLSVKRVIVAGVIHELSGLCLLTGLWYMCYKIRPVGKVIKSLPFYNNASHQKDISLAKQKINQIAIISWFSKTHKRMLISGTESFVLRKLLLPVTIPAKIYFAYHLSGYFC 483 +KL Q FN +D K S R+ VA + HE G+ L G W +CYK +PV + P + K ++ + +K+ ++ + R+LISG ES+VLRK+L P+TIP KIY A +SG C Sbjct: 8 EKLFQHFN--IDTKQWSYSRITVALLAHESFGIGLALGFWIICYKKQPVRCLTSFAPVAIQNIYSKGLNWSARKLRRLPLFVSSQADPNRILISGAESYVLRKILSPLTIPGKIYIAVLVSGIVC 130
BLAST of Retrovirus Pol polyprotein from transposon opus vs. TrEMBL
Match: A0A4S2L8V1 (Uncharacterized protein OS=Opisthorchis felineus OX=147828 GN=CRM22_009139 PE=4 SV=1) HSP 1 Score: 84.7297 bits (208), Expect = 8.518e-18 Identity = 41/118 (34.75%), Postives = 65/118 (55.08%), Query Frame = 1 Query: 127 FNEYVDFKNLSVKRVIVAGVIHELSGLCLLTGLWYMCYKIRPVGKVIKSLPFYNNASHQKDISLAKQKINQIAIISWFSKTHKRMLISGTESFVLRKLLLPVTIPAKIYFAYHLSGYF 480 F D R+++A HE GL +L G W CYK +P+ ++I P AS+ + ++ + +++ ++ +R+LISG ESFVLRK+L P+T+P KIY A S +F Sbjct: 11 FGRRFDTSKWPYLRIMIAVAAHEALGLGILVGFWVGCYKFQPLRQIIYRAPDPIRASYDRGMAWSSRRLQRVPAYIKHRTDPQRLLISGAESFVLRKVLTPITVPGKIYLAVLFSAFF 128
BLAST of Retrovirus Pol polyprotein from transposon opus vs. Planmine SMEST
Match: SMESG000024333.1 (SMESG000024333.1) HSP 1 Score: 280.026 bits (715), Expect = 3.018e-98 Identity = 134/137 (97.81%), Postives = 137/137 (100.00%), Query Frame = 1 Query: 76 MNEDSNTNEKYQKLLQKFNEYVDFKNLSVKRVIVAGVIHELSGLCLLTGLWYMCYKIRPVGKVIKSLPFYNNASHQKDISLAKQKINQIAIISWFSKTHKRMLISGTESFVLRKLLLPVTIPAKIYFAYHLSGYFCK 486 MN+DSNTNEKYQKLLQKFNEYVDFKNLS+KRVIVAGVIHELSGLCLLTGLWYMCYKIRPVGKVIKSLPFYNNASHQKDISLAKQKINQ+AIISWFSKTHKRMLISGTESFVLRKLLLPVTIPAKIYFAYHLSGYFCK Sbjct: 1 MNKDSNTNEKYQKLLQKFNEYVDFKNLSIKRVIVAGVIHELSGLCLLTGLWYMCYKIRPVGKVIKSLPFYNNASHQKDISLAKQKINQMAIISWFSKTHKRMLISGTESFVLRKLLLPVTIPAKIYFAYHLSGYFCK 137
BLAST of Retrovirus Pol polyprotein from transposon opus vs. Planmine SMEST
Match: SMESG000024306.1 (SMESG000024306.1) HSP 1 Score: 83.5741 bits (205), Expect = 9.453e-21 Identity = 56/145 (38.62%), Postives = 76/145 (52.41%), Query Frame = 1 Query: 76 MNEDSNTNEKYQKLLQKFNEYVDFKNLSVKRVIVAGVIHELSGLCLLTGLWYMCYKIRPVGKVIKSLPFYNNASHQKDISLAKQKINQIAIISWFSKTHKRMLISGTESFVLRKLLLPVTIPAKIYFAYHLSGYFCK*IFIDFLL 510 MNE+S NEKY+ L K E +D N S KR+I+ I+ +S +CL T +CYK +GK+I+ YN+ S Q+ I K + + TH + + ES VLR L+PV PAKIY Y LS Y C I+ L Sbjct: 1 MNENSFFNEKYKNLHYKSYENLDNNNFSSKRIILGVAIYSMSEICLRTVYSCICYKFPQMGKLIRRSWIYNHHSVQEYIIFLNHKRFKKTVD---MNTHMMKMNNLHESSVLRAYLMPVAYPAKIYLGYSLSEYVCNDIYWRLFL 142
BLAST of Retrovirus Pol polyprotein from transposon opus vs. Planmine SMEST
Match: SMESG000024298.1 (SMESG000024298.1) HSP 1 Score: 80.1073 bits (196), Expect = 1.593e-19 Identity = 52/137 (37.96%), Postives = 74/137 (54.01%), Query Frame = 1 Query: 76 MNEDSNTNEKYQKLLQKFNEYVDFKNLSVKRVIVAGVIHELSGLCLLTGLWYMCYKIRPVGKVIKSLPFYNNASHQKDISLAKQKINQIAIISWFSKTHKRMLISGTESF-VLRKLLLPVTIPAKIYFAYHLSGYFC 483 MN++S NEKY+ L K E +D N S KR+I+ +I+ LSG+C+ GL +M +K +G I+ Y H + + I+ I I + + T + L++ F VLR PV PAKIY AY LSGY C Sbjct: 1 MNKNSINNEKYKNLHYKSYENLDNNNFSSKRIILGILIYPLSGICMSAGLMFMLFKKPIIGNYIRRSSLY----HWLEAPKLVKSIDGILSILYVNPTIRLNLVNFVMDFMVLRIYFTPVIFPAKIYSAYSLSGYLC 133
BLAST of Retrovirus Pol polyprotein from transposon opus vs. Planmine SMEST
Match: SMESG000024299.1 (SMESG000024299.1) HSP 1 Score: 77.411 bits (189), Expect = 2.182e-18 Identity = 51/136 (37.50%), Postives = 70/136 (51.47%), Query Frame = 1 Query: 76 MNEDSNTNEKYQKLLQKFNEYVDFKNLSVKRVIVAGVIHELSGLCLLTGLWYMCYKIRPVGKVIKSLPFYNNASHQKDISLAKQKINQIAIISWFSKTHKRMLISGTESFVLRKLLLPVTIPAKIYFAYHLSGYFC 483 MN++S NEKY+ L K E +D N S KR+I+ +I+ LSG+C+ GL +M K +G I+ Y K L K ++ + K +LI+ + VLR PV PAKIY AY LSGY C Sbjct: 1 MNKNSINNEKYKNLHYKSYENLDNNNFSSKRIILGILIYPLSGICMSAGLIFMLSKKPIIGNYIRRSSLYRWLEAPK---LVKYGEGFLSTLISDPKERFYLLIAAADFIVLRIYFTPVIFPAKIYSAYSLSGYLC 133 The following BLAST results are available for this feature:
BLAST of Retrovirus Pol polyprotein from transposon opus vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of Retrovirus Pol polyprotein from transposon opus vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of Retrovirus Pol polyprotein from transposon opus vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of Retrovirus Pol polyprotein from transposon opus vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of Retrovirus Pol polyprotein from transposon opus vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of Retrovirus Pol polyprotein from transposon opus vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of Retrovirus Pol polyprotein from transposon opus vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of Retrovirus Pol polyprotein from transposon opus vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of Retrovirus Pol polyprotein from transposon opus vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of Retrovirus Pol polyprotein from transposon opus vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of Retrovirus Pol polyprotein from transposon opus vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of Retrovirus Pol polyprotein from transposon opus vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of Retrovirus Pol polyprotein from transposon opus vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of Retrovirus Pol polyprotein from transposon opus vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 4
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30019573 ID=SMED30019573|Name=Retrovirus Pol polyprotein from transposon opus|organism=Schmidtea mediterranea sexual|type=transcript|length=531bpback to top protein sequence of SMED30019573-orf-1 >SMED30019573-orf-1 ID=SMED30019573-orf-1|Name=SMED30019573-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=138bp MNEDSNTNEKYQKLLQKFNEYVDFKNLSVKRVIVAGVIHELSGLCLLTGLback 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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