Slc18a-1
Overview
Neoblast Clusters
Zeng et. al., 2018
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 AppEmbryonic 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., 2020SMED30005143 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 2
Homology
BLAST of Slc18a-1 vs. TrEMBL
Match: A0A0H3YJ27 (Slc18a-1 OS=Schmidtea mediterranea OX=79327 GN=slc18a-1 PE=2 SV=1) HSP 1 Score: 115.931 bits (289), Expect = 3.276e-27 Identity = 64/151 (42.38%), Postives = 88/151 (58.28%), Query Frame = 3 Query: 54 MRVNCNIILAILMVSFSFFMMSIPESSLYTILPKYLVDQLXXXXXXXXXXXXXXXXXXXXXXXXLNDRINLRINISKL---CHIQKPPYFIVSMVFLSKNLAQVVSNLIIGCIIEKINHYFILIAAQCFGIGVALIYAFGNSVVAYMCGRV 497 M C+ LA +++ +F+M+ I ESSLYTILPKYLVD+ + + N S+ CH+QKPPYFIVSM+FLSK+LAQ N IIGC ++K+N++ IL+ Q GI +ALIYA NS+ Y+ GR+ Sbjct: 1 MSFKCDDCLAAIVICLNFYMLGIQESSLYTILPKYLVDE----------------------PFNATNNETFKPNTSRTIFQCHLQKPPYFIVSMIFLSKSLAQFFFNSIIGCFVDKVNNFIILLIGQGLGIIIALIYALNNSITMYIVGRL 129
BLAST of Slc18a-1 vs. TrEMBL
Match: A0A0H3YK88 (Slc18a-8 OS=Schmidtea mediterranea OX=79327 GN=slc18a-8 PE=2 SV=1) HSP 1 Score: 94.3597 bits (233), Expect = 1.833e-19 Identity = 54/141 (38.30%), Postives = 83/141 (58.87%), Query Frame = 3 Query: 75 ILAILMVSFSFFMMSIPESSLYTILPKYLVDQLXXXXXXXXXXXXXXXXXXXXXXXXLNDRINLRINISKLCHIQKPPYFIVSMVFLSKNLAQVVSNLIIGCIIEKINHYFILIAAQCFGIGVALIYAFGNSVVAYMCGRV 497 +LA ++VS +FF+M + E+SLY ILPKY +Q + + N+ + + + + C QKPPY +VS +FLSKN+A + N+ IG II K+N Y ILI + GIGV+ IYA+ ++++ Y+ GRV Sbjct: 8 LLAGVVVSLNFFLMVLQENSLYAILPKYFSNQTSISAR--------------------NETVLINSTVPQNCSFQKPPYVVVSQIFLSKNVAMIFLNIFIGIIIYKLNIYIILILSHFVGIGVSFIYAYTDTLLLYIIGRV 128
BLAST of Slc18a-1 vs. Planmine SMEST
Match: SMESG000041535.1 (SMESG000041535.1) HSP 1 Score: 199.519 bits (506), Expect = 1.877e-62 Identity = 127/129 (98.45%), Postives = 127/129 (98.45%), Query Frame = 3 Query: 111 MMSIPESSLYTILPKYLVDQLXXXXXXXXXXXXXXXXXXXXXXXXLNDRINLRINISKLCHIQKPPYFIVSMVFLSKNLAQVVSNLIIGCIIEKINHYFILIAAQCFGIGVALIYAFGNSVVAYMCGRV 497 MMSIPESSLYTILPKYLVDQLNN TANTTANTTVNATINITFNVTLNDRINLRINISKLCHIQKPPYFIVSMVFLSKNLAQVVSNLIIGCIIEKINHYFILIAAQCFGI VALIYAFGNSVVAYMCGRV Sbjct: 1 MMSIPESSLYTILPKYLVDQLNNVTANTTANTTVNATINITFNVTLNDRINLRINISKLCHIQKPPYFIVSMVFLSKNLAQVVSNLIIGCIIEKINHYFILIAAQCFGIVVALIYAFGNSVVAYMCGRV 129
BLAST of Slc18a-1 vs. Planmine SMEST
Match: SMESG000041534.1 (SMESG000041534.1) HSP 1 Score: 145.591 bits (366), Expect = 5.215e-45 Identity = 82/148 (55.41%), Postives = 100/148 (67.57%), Query Frame = 3 Query: 54 MRVNCNIILAILMVSFSFFMMSIPESSLYTILPKYLVDQLXXXXXXXXXXXXXXXXXXXXXXXXLNDRINLRINISKLCHIQKPPYFIVSMVFLSKNLAQVVSNLIIGCIIEKINHYFILIAAQCFGIGVALIYAFGNSVVAYMCGRV 497 M+ NC +L ILMVS + FM++IPES+LYTILPKY VD+ + + N +VT+ND NLRINISKLC ++KPPYF+VSMVFL+KNLAQV+SN I+ AQCFGI V LIY FGNSV+AYMCGRV Sbjct: 1 MQFNCGSVLVILMVSLNSFMITIPESTLYTILPKYFVDK----------HRSSTTNNNTIVDVTVNDTTNLRINISKLCPLKKPPYFMVSMVFLAKNLAQVISNSIV---------------AQCFGIVVTLIYGFGNSVIAYMCGRV 123
BLAST of Slc18a-1 vs. Planmine SMEST
Match: SMESG000041534.1 (SMESG000041534.1) HSP 1 Score: 135.191 bits (339), Expect = 4.921e-41 Identity = 76/136 (55.88%), Postives = 92/136 (67.65%), Query Frame = 3 Query: 90 MVSFSFFMMSIPESSLYTILPKYLVDQLXXXXXXXXXXXXXXXXXXXXXXXXLNDRINLRINISKLCHIQKPPYFIVSMVFLSKNLAQVVSNLIIGCIIEKINHYFILIAAQCFGIGVALIYAFGNSVVAYMCGRV 497 MVS + FM++IPES+LYTILPKY VD+ + + N +VT+ND NLRINISKLC ++KPPYF+VSMVFL+KNLAQV+SN I+ AQCFGI V LIY FGNSV+AYMCGRV Sbjct: 1 MVSLNSFMITIPESTLYTILPKYFVDK----------HRSSTTNNNTIVDVTVNDTTNLRINISKLCPLKKPPYFMVSMVFLAKNLAQVISNSIV---------------AQCFGIVVTLIYGFGNSVIAYMCGRV 111
BLAST of Slc18a-1 vs. Planmine SMEST
Match: SMESG000041534.1 (SMESG000041534.1) HSP 1 Score: 120.553 bits (301), Expect = 2.392e-35 Identity = 69/124 (55.65%), Postives = 82/124 (66.13%), Query Frame = 3 Query: 126 ESSLYTILPKYLVDQLXXXXXXXXXXXXXXXXXXXXXXXXLNDRINLRINISKLCHIQKPPYFIVSMVFLSKNLAQVVSNLIIGCIIEKINHYFILIAAQCFGIGVALIYAFGNSVVAYMCGRV 497 ES+LYTILPKY VD+ + + N +VT+ND NLRINISKLC ++KPPYF+VSMVFL+KNLAQV+SN I+ AQCFGI V LIY FGNSV+AYMCGRV Sbjct: 6 ESTLYTILPKYFVDK----------HRSSTTNNNTIVDVTVNDTTNLRINISKLCPLKKPPYFMVSMVFLAKNLAQVISNSIV---------------AQCFGIVVTLIYGFGNSVIAYMCGRV 104
BLAST of Slc18a-1 vs. Planmine SMEST
Match: SMESG000041557.1 (SMESG000041557.1) HSP 1 Score: 115.931 bits (289), Expect = 9.585e-31 Identity = 64/151 (42.38%), Postives = 88/151 (58.28%), Query Frame = 3 Query: 54 MRVNCNIILAILMVSFSFFMMSIPESSLYTILPKYLVDQLXXXXXXXXXXXXXXXXXXXXXXXXLNDRINLRINISKL---CHIQKPPYFIVSMVFLSKNLAQVVSNLIIGCIIEKINHYFILIAAQCFGIGVALIYAFGNSVVAYMCGRV 497 M C+ LA +++ +F+M+ I ESSLYTILPKYLVD+ + + N S+ CH+QKPPYFIVSM+FLSK+LAQ N IIGC ++K+N++ IL+ Q GI +ALIYA NS+ Y+ GR+ Sbjct: 1 MSFKCDDCLAAIVICLNFYMLGIQESSLYTILPKYLVDE----------------------PFNATNNETFKPNTSRTIFQCHLQKPPYFIVSMIFLSKSLAQFFFNSIIGCFVDKVNNFIILLIGQGLGIIIALIYALNNSITMYIVGRL 129 The following BLAST results are available for this feature:
BLAST of Slc18a-1 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of Slc18a-1 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of Slc18a-1 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of Slc18a-1 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of Slc18a-1 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of Slc18a-1 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of Slc18a-1 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of Slc18a-1 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 2
BLAST of Slc18a-1 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of Slc18a-1 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of Slc18a-1 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of Slc18a-1 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of Slc18a-1 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of Slc18a-1 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 5
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30005143 ID=SMED30005143|Name=Slc18a-1|organism=Schmidtea mediterranea sexual|type=transcript|length=498bpback to top protein sequence of SMED30005143-orf-1 >SMED30005143-orf-1 ID=SMED30005143-orf-1|Name=SMED30005143-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=148bp MRVNCNIILAILMVSFSFFMMSIPESSLYTILPKYLVDQLNNATANTTANback 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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