SMED30015889

Overview
NameSMED30015889
Smed IDSMED30015889
Length (bp)610
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 progenies


We 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

 

t-SNE plot shows two-dimensional representation of global gene expression relationships among all neoblasts (n = 7,088 after filter). Cluster identity was assigned based on the top 10 marker genes of each cluster (Table S2), followed by inspection of RNA in situ hybridization patterns. Neoblast groups, Nb.


Expression of SMED30015889 (SMED30015889) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30015889 (SMED30015889) in cells (dots) of each of the 12 neoblast clusters.

 

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Sub-lethal Irradiated Surviving X1 and X2 Cell Population

 

t-SNE plot of surviving X1 and X2 cells (n = 1,039 after QC filter) after sub-lethal irradiation. Colors indicate unbiased cell classification via graph-based clustering. SL, sub-lethal irradiated cell groups.

Expression of SMED30015889 (SMED30015889) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for SMED30015889 (SMED30015889) in cells (dots) of each of the 10 clusters of sub-leathally irradiated X1 and X2 cells.

 

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Embryonic Expression

Davies et. al., 2017

Hover the mouse over a column in the graph to view average RPKM values per sample.
Sort Descending | Sort Ascending | Only Non-Zero Values | Tile/Chart | Reset

Embryonic Stages: Y: yolk. S2-S8: Stages 2-8. C4: asexual adult. SX: virgin, sexually mature adult.
For further information about sample preparation and analysis for the single animal RNA-Seq experiment, please refer to the Materials and Methods

 

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Anatomical Expression

PAGE et. al., 2020



SMED30015889

has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGE



PAGE Curations: 7

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
prepharyngeal regionSMED30015889SMESG000031796.1 SMESG000031795.1 SmedASXL_007931SmedAsxl_ww_GCZZ01PMID:27034770
Currie et al., 2016		whole organism asexual adult RNA-sequencing evidence
gutSMED30015889SMESG000031796.1 SMESG000031795.1 dd_Smed_v4_704_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neoblastSMED30015889SMESG000031796.1 SMESG000031795.1 dd_Smed_v4_704_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
tail regionSMED30015889SMESG000031796.1 SMESG000031795.1 dd_Smed_v6_704_0_1dd_Smed_v6PMID:28171748
Stückemann et al., 2017		whole organism asexual adult RNA-sequencing evidence
goblet cellSMED30015889SMESG000031796.1 SMESG000031795.1 dd_Smed_v6_704_0dd_Smed_v6PMID:29674432
Plass et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
reproductive organSMED30015889SMESG000022955.1 Contig4028GPL15192PMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
reproductive organSMED30015889SMESG000031796.1 SMESG000031795.1 Contig4028GPL15192PMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
Note: Hover over icons to view figure legend
Alignments
SMED30015889 aligns in the following genomic locations:
Alignment LocationAlignment Score
v31.021214:5988..6592 -2971
v31.026117:4244..4848 -2863
v31.026117:6554..7487 -2734
Homology
[Close]
BLAST of SMED30015889 vs. Ensembl Human
Match: NPC2 (NPC intracellular cholesterol transporter 2 [Source:HGNC Symbol;Acc:HGNC:14537])

HSP 1 Score: 46.9802 bits (110), Expect = 2.568e-6
Identity = 32/132 (24.24%), Postives = 58/132 (43.94%), Query Frame = 2 
Query:  170 ALAFAPNFFECTNNGHVIQSVEVDPCSDRQCKLLSQTEMQIKVKFTANRNINFGKVALTVTALPSIFAMPLKEDNLCLSSDSKCPIAKGADVTHTSKYTFLGGFPDGVQVNMQLKANDEKNKEIYCMIMTFS 565
            A A    F +C +   VI+ V V PC  + C+L       + V FT+N      K  +    +      P+ E + C  S   CPI K    ++ +K      +P  +++ ++ +  D+KN+ ++C  +  S
Sbjct:   17 AQAEPVQFKDCGSVDGVIKEVNVSPCPTQPCQLSKGQSYSVNVTFTSNIQSKSSKAVVHGILMGVPVPFPIPEPDGC-KSGINCPIQKDKTYSYLNKLPVKSEYP-SIKLVVEWQLQDDKNQSLFCWEIPVS 146
[Close]
BLAST of SMED30015889 vs. Ensembl Human
Match: NPC2 (NPC intracellular cholesterol transporter 2 [Source:HGNC Symbol;Acc:HGNC:14537])

HSP 1 Score: 46.595 bits (109), Expect = 3.614e-6
Identity = 31/127 (24.41%), Postives = 56/127 (44.09%), Query Frame = 2 
Query:  170 ALAFAPNFFECTNNGHVIQSVEVDPCSDRQCKLLSQTEMQIKVKFTANRNINFGKVALTVTALPSIFAMPLKEDNLCLSSDSKCPIAKGADVTHTSKYTFLGGFPDGVQVNMQLKANDEKNKEIYCM 550
            A A    F +C +   VI+ V V PC  + C+L       + V FT+N      K  +    +      P+ E + C  S   CPI K    ++ +K      +P  +++ ++ +  D+KN+ ++C 
Sbjct:   17 AQAEPVQFKDCGSVDGVIKEVNVSPCPTQPCQLSKGQSYSVNVTFTSNIQSKSSKAVVHGILMGVPVPFPIPEPDGC-KSGINCPIQKDKTYSYLNKLPVKSEYP-SIKLVVEWQLQDDKNQSLFCW 141
[Close]
BLAST of SMED30015889 vs. Ensembl Human
Match: NPC2 (NPC intracellular cholesterol transporter 2 [Source:HGNC Symbol;Acc:HGNC:14537])

HSP 1 Score: 46.9802 bits (110), Expect = 4.077e-6
Identity = 34/138 (24.64%), Postives = 61/138 (44.20%), Query Frame = 2 
Query:  170 ALAFAPNFFECTNNGHVIQSVEVDPCSDRQCKLLSQTEMQIKVKFTANRNINFGKVALTVTALPSIFAMPLKEDNLCLSSDSKCPIAKGADVTHTSKYTFLGGFPDGVQVNMQLKANDEKNKEIYCM-----IMTFSG 568
            A A    F +C +   VI+ V V PC  + C+L       + V FT+N      K  +    +      P+ E + C  S   CPI K    ++ +K      +P  +++ ++ +  D+KN+ ++C      I++ SG
Sbjct:   17 AQAEPVQFKDCGSVDGVIKEVNVSPCPTQPCQLSKGQSYSVNVTFTSNIQSKSSKAVVHGILMGVPVPFPIPEPDGC-KSGINCPIQKDKTYSYLNKLPVKSEYPS-IKLVVEWQLQDDKNQSLFCWEIPVQIVSLSG 152
[Close]
BLAST of SMED30015889 vs. Ensembl Human
Match: NPC2 (NPC intracellular cholesterol transporter 2 [Source:HGNC Symbol;Acc:HGNC:14537])

HSP 1 Score: 46.595 bits (109), Expect = 5.600e-6
Identity = 29/121 (23.97%), Postives = 54/121 (44.63%), Query Frame = 2 
Query:  188 NFFECTNNGHVIQSVEVDPCSDRQCKLLSQTEMQIKVKFTANRNINFGKVALTVTALPSIFAMPLKEDNLCLSSDSKCPIAKGADVTHTSKYTFLGGFPDGVQVNMQLKANDEKNKEIYCM 550
             F +C +   VI+ V V PC  + C+L       + V FT+N      K  +    +      P+ E + C  S   CPI K    ++ +K      +P  +++ ++ +  D+KN+ ++C 
Sbjct:   23 QFKDCGSVDGVIKEVNVSPCPTQPCQLSKGQSYSVNVTFTSNIQSKSSKAVVHGILMGVPVPFPIPEPDGC-KSGINCPIQKDKTYSYLNKLPVKSEYPS-IKLVVEWQLQDDKNQSLFCW 141
[Close]
BLAST of SMED30015889 vs. Ensembl Zebrafish
Match: npc2 (Niemann-Pick disease, type C2 [Source:NCBI gene;Acc:282673])

HSP 1 Score: 45.8246 bits (107), Expect = 3.702e-6
Identity = 32/142 (22.54%), Postives = 66/142 (46.48%), Query Frame = 2 
Query:  134 LLYAIYFVLFQYALAFAPNFFECTN-NGHVIQSVEVDPCSDRQCKLLSQTEMQIKVKFTANRNINFGKVAL--TVTALPSIFAMPLKEDNLCLSSDSKCPIAKGADVTHTSKYTFLGGFPDGVQVNMQLKANDEKNKEIYCM 550
            +L  +      Y  A    F +C + +G V+Q V++ PCS + CKL       + V F++       K  +   +  +P  F +P+  D+ C  S  +CPI       + ++      +P  ++V ++ +  D+ +K+++C+
Sbjct:    5 VLGVVLLSFLAYTCADPVKFVDCGSVDGKVVQ-VDIKPCSQQPCKLHKGQSYTVNVTFSSGVESQTSKAVVHGVLAGVPVPFPIPI--DDGC-KSGIQCPIVPQKPYNYVTELPVKTEYP-AIKVVVEWELRDDSSKDLFCI 141
[Close]
BLAST of SMED30015889 vs. Ensembl Zebrafish
Match: npc2 (Niemann-Pick disease, type C2 [Source:NCBI gene;Acc:282673])

HSP 1 Score: 45.8246 bits (107), Expect = 3.702e-6
Identity = 32/142 (22.54%), Postives = 66/142 (46.48%), Query Frame = 2 
Query:  134 LLYAIYFVLFQYALAFAPNFFECTN-NGHVIQSVEVDPCSDRQCKLLSQTEMQIKVKFTANRNINFGKVAL--TVTALPSIFAMPLKEDNLCLSSDSKCPIAKGADVTHTSKYTFLGGFPDGVQVNMQLKANDEKNKEIYCM 550
            +L  +      Y  A    F +C + +G V+Q V++ PCS + CKL       + V F++       K  +   +  +P  F +P+  D+ C  S  +CPI       + ++      +P  ++V ++ +  D+ +K+++C+
Sbjct:    5 VLGVVLLSFLAYTCADPVKFVDCGSVDGKVVQ-VDIKPCSQQPCKLHKGQSYTVNVTFSSGVESQTSKAVVHGVLAGVPVPFPIPI--DDGC-KSGIQCPIVPQKPYNYVTELPVKTEYP-AIKVVVEWELRDDSSKDLFCI 141
[Close]
BLAST of SMED30015889 vs. Ensembl Xenopus
Match: npc2 (Niemann-Pick disease, type C2 [Source:NCBI gene;Acc:493351])

HSP 1 Score: 45.8246 bits (107), Expect = 7.226e-6
Identity = 26/122 (21.31%), Postives = 55/122 (45.08%), Query Frame = 2 
Query:  191 FFECTNNGHVIQSVEVDPCSDRQCKLLSQTEMQIKVKFTANRNINFGKVALTVTALPSIFAMPLKEDNLCLSSDSKCPIAKGADVTHTSKYTFLGGFPDGVQVNMQLKANDEKNKEIYCMIM 556
            + +C +    + +++V PC +  C L+  +   +   F +N N       +           P+ E + C S  S CPI  G   T+ +K      +P  +++ ++ +  DE NK+++C ++
Sbjct:   30 YKDCGSQSGKLVTLDVSPCPEEPCPLVRGSTYTVNATFVSNVNSKSASAVVHGIIAGIAVPFPISEPDGCKSGIS-CPINSGQTYTYVTKLPIKSEYP-CIKLVVKWQLQDENNKDLFCWLI 149
[Close]
BLAST of SMED30015889 vs. UniProt/SwissProt
Match: sp|P79345|NPC2_BOVIN (NPC intracellular cholesterol transporter 2 OS=Bos taurus OX=9913 GN=NPC2 PE=1 SV=1)

HSP 1 Score: 54.6842 bits (130), Expect = 1.747e-8
Identity = 38/137 (27.74%), Postives = 62/137 (45.26%), Query Frame = 2 
Query:  146 IYFVLFQYALAFAPNFFECTNNGHVIQSVEVDPCSDRQCKLLSQTEMQIKVKFTANRNINFGKVAL--TVTALPSIFAMPLKEDNLCLSSDSKCPIAKGADVTHTSKYTFLGGFPDGVQVNMQLKANDEKNKEIYCM 550
            ++  L   ALA    F +C +   VI+ V V PC  + CKL       + V FT+N      K  +   V  +P  F  P+ E + C  S  +CPI K     + +K      +P  ++V ++ +  D+KN+  +C 
Sbjct:    9 LFLALSASALAEPVKFKDCGSWVGVIKEVNVSPCPTQPCKLHRGQSYSVNVTFTSNTQSQSSKAVVHGIVMGIPVPF--PIPESDGC-KSGIRCPIEKDKTYNYVNKLPVKNEYPS-IKVVVEWELTDDKNQRFFCW 141
[Close]
BLAST of SMED30015889 vs. TrEMBL
Match: A0A4S2LFW6 (ML domain-containing protein OS=Opisthorchis felineus OX=147828 GN=CRM22_009153 PE=4 SV=1)

HSP 1 Score: 58.9214 bits (141), Expect = 1.786e-7
Identity = 31/138 (22.46%), Postives = 59/138 (42.75%), Query Frame = 2 
Query:  137 LYAIYFVLFQYALAFAPNFFECTNNGHVIQSVEVDPCSDRQCKLLSQTEMQIKVKFTANRNINFGKVALTVTALPSIFAMPLKEDNLCLSSDSKCPIAKGADVTHTSKYTFLGGFPDGVQVNMQLKANDEKNKEIYCM 550
            L +   +++  +L  A NF +C +    ++ V   PC+   C LL      I+++FT  +    G+  +  T      ++P    N C      CPI  G + T+T        +P GV + ++ +  D + +   C+
Sbjct:    6 LLSCSIIIYATSLTDAANFRDCGSTSATVRRVTTSPCNGSPCILLKGAPANIRIRFTTRQRTTIGEAVVFGTLAGERISLPWSHGNACGRVTPPCPIVPGEEYTYTYTGVVPTRYPAGV-MTVRWELLDARMQPFLCV 142
[Close]
BLAST of SMED30015889 vs. TrEMBL
Match: A0A0C2N824 (Mite group 2 allergen Eur m 2 OS=Thelohanellus kitauei OX=669202 GN=RF11_02681 PE=4 SV=1)

HSP 1 Score: 57.7658 bits (138), Expect = 7.305e-7
Identity = 32/137 (23.36%), Postives = 69/137 (50.36%), Query Frame = 2 
Query:  146 IYFVLFQYALAFAPNFFECTNNGHVIQSVEVDPCSDRQCKLLSQTEMQIKVKFTANRNINFGKVALTVTALPSIFA--MPLKEDNLCLSSDSKCPIAKGADVTHTSKYTFLGGFPDGVQVNMQLKANDEKNKEIYCM 550
            ++ +L Q    F+  +   + N   + S+++  C +R C+ +  T + +++ FT+ ++  F K+++ + A  S F   +P  + N+C     KCP+ K    T+  K     G P  + V  ++K  D+ N+++ C+
Sbjct:    5 VFLILCQVEALFSWKYCSGSKNILDVLSLDITNCGERSCEFVEDTAVSLRLIFTSPQH--FDKLSIEIEADASYFKQKIPGIDKNMCNHLSPKCPLEKDQTYTYAIKMKVPAGIPFSIDVTAKVKVLDDNNQDVMCL 139
[Close]
BLAST of SMED30015889 vs. TrEMBL
Match: A0A452F982 (NPC intracellular cholesterol transporter 2 OS=Capra hircus OX=9925 GN=NPC2 PE=4 SV=1)

HSP 1 Score: 55.8398 bits (133), Expect = 1.929e-6
Identity = 38/137 (27.74%), Postives = 62/137 (45.26%), Query Frame = 2 
Query:  146 IYFVLFQYALAFAPNFFECTNNGHVIQSVEVDPCSDRQCKLLSQTEMQIKVKFTANRNINFGKVAL--TVTALPSIFAMPLKEDNLCLSSDSKCPIAKGADVTHTSKYTFLGGFPDGVQVNMQLKANDEKNKEIYCM 550
            ++  L   ALA    F +C +   VI+ V V PC  + CKL       + V FT+N      K  +   V  +P  F  P+ E + C  S  +CPI K     + +K      +P  ++V ++ +  D+KN+  +C 
Sbjct:    9 LFLALSASALAEPVKFKDCGSGVGVIKEVNVSPCPTQPCKLHKGQSYSVNVTFTSNTQSQSSKAVVHGIVMGIPVPF--PIPESDGC-KSGIRCPIEKDKTYNYVNKLPVKSEYPS-IKVVVEWELTDDKNQRFFCW 141
[Close]
BLAST of SMED30015889 vs. TrEMBL
Match: W5NSH8 (NPC intracellular cholesterol transporter 2 OS=Ovis aries OX=9940 GN=NPC2 PE=4 SV=1)

HSP 1 Score: 55.8398 bits (133), Expect = 1.929e-6
Identity = 38/137 (27.74%), Postives = 62/137 (45.26%), Query Frame = 2 
Query:  146 IYFVLFQYALAFAPNFFECTNNGHVIQSVEVDPCSDRQCKLLSQTEMQIKVKFTANRNINFGKVAL--TVTALPSIFAMPLKEDNLCLSSDSKCPIAKGADVTHTSKYTFLGGFPDGVQVNMQLKANDEKNKEIYCM 550
            ++  L   ALA    F +C +   VI+ V V PC  + CKL       + V FT+N      K  +   V  +P  F  P+ E + C  S  +CPI K     + +K      +P  ++V ++ +  D+KN+  +C 
Sbjct:    9 LFLALSASALAEPVKFKDCGSGVGVIKEVNVSPCPTQPCKLHKGQSYSVNVTFTSNTQSQSSKAVVHGIVMGIPVPF--PIPESDGC-KSGIRCPIEKDKTYNYVNKLPVKSEYPS-IKVVVEWELTDDKNQRFFCW 141
[Close]
BLAST of SMED30015889 vs. TrEMBL
Match: A0A267G469 (ML domain-containing protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig027630g2 PE=4 SV=1)

HSP 1 Score: 55.8398 bits (133), Expect = 1.949e-6
Identity = 36/123 (29.27%), Postives = 54/123 (43.90%), Query Frame = 2 
Query:  188 NFFECTNNGHVIQSVEVDPCSDRQCKLLSQTEMQIKVKFTANRNINFGKVAL--TVTALPSIFAMPLKEDNLCLSSDSKCPIAKGADVTHTSKYTFLGGFPDGVQVNMQLKANDEKNKEIYCM 550
             F +C +    I S++V PC    C+L   T  QIK+ FT + N    K  +   V  +P  F  PL + N C S    CP+  G    +TS       +P  V V ++ +  D K  +  C+
Sbjct:   23 KFVDCGSKAGKIDSLDVTPCPKIPCELPRGTNAQIKITFTPSENSTSVKAVVHGIVAKIPVPF--PLPDTNACDSMAPACPLKAGTQAVYTSTLQVKSSYP-AVGVVVKWELADAKEVDFVCL 142
[Close]
BLAST of SMED30015889 vs. Ensembl Nematostella
Match: EDO30774 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7SZV1])

HSP 1 Score: 49.2914 bits (116), Expect = 7.331e-8
Identity = 33/142 (23.24%), Postives = 66/142 (46.48%), Query Frame = 2 
Query:  134 LLYAIYFVLFQYALAFAPNFFECTNNGHVIQSVEVD--PCSDRQCKLLSQTEMQIKVKFTANRNINFGK--VALTVTALPSIFAMPLKEDNLCLSSDSKCPIAKGADVTHTSKYTFLGGFPDGVQVNMQLKANDEKNKEIYC 547
            ++  +   L   A++   +F +C+      + VE+D  PC  + C L   T + + + F  +  ++ GK  V   +  +P  F  PL   ++C +S  KCP+  G    + S       +P  +++ ++ +  D KNK++ C
Sbjct:    1 MILVLLACLVAAAVSSKVDFKDCSGGKGEGEIVELDISPCPTQPCTLHKGTTVSVNITFVPHVTLDSGKAIVHGVIAGIPVPF--PLPNADVCKNSGLKCPLEPGTKYVYQSSLEVKTMYPS-LKLVVRWEIQDNKNKDVLC 139
[Close]
BLAST of SMED30015889 vs. Planmine SMEST
Match: SMESG000031796.1 (SMESG000031796.1)

HSP 1 Score: 301.212 bits (770), Expect = 4.868e-106
Identity = 144/146 (98.63%), Postives = 145/146 (99.32%), Query Frame = 2 
Query:  131 MLLYAIYFVLFQYALAFAPNFFECTNNGHVIQSVEVDPCSDRQCKLLSQTEMQIKVKFTANRNINFGKVALTVTALPSIFAMPLKEDNLCLSSDSKCPIAKGADVTHTSKYTFLGGFPDGVQVNMQLKANDEKNKEIYCMIMTFSG 568
            MLLYAIYFVLFQYALAFAPNFFECTNNGHVIQSVEVDPCSDRQCKLLSQTEMQIKVKFTANRNINFGKVALTVTALPSIFAMPLKEDNLCLSSDSKCPIAKGADVTHTSKYTFLGGFPDGV+V MQLKANDEKNKEIYCMIMTFSG
Sbjct:    1 MLLYAIYFVLFQYALAFAPNFFECTNNGHVIQSVEVDPCSDRQCKLLSQTEMQIKVKFTANRNINFGKVALTVTALPSIFAMPLKEDNLCLSSDSKCPIAKGADVTHTSKYTFLGGFPDGVRVIMQLKANDEKNKEIYCMIMTFSG 146
[Close]
BLAST of SMED30015889 vs. Planmine SMEST
Match: SMESG000031795.1 (SMESG000031795.1)

HSP 1 Score: 286.96 bits (733), Expect = 2.909e-100
Identity = 137/146 (93.84%), Postives = 140/146 (95.89%), Query Frame = 2 
Query:  131 MLLYAIYFVLFQYALAFAPNFFECTNNGHVIQSVEVDPCSDRQCKLLSQTEMQIKVKFTANRNINFGKVALTVTALPSIFAMPLKEDNLCLSSDSKCPIAKGADVTHTSKYTFLGGFPDGVQVNMQLKANDEKNKEIYCMIMTFSG 568
            MLLYAIYFVLFQYALAF+P FFECT++G VIQSVEVDPCSDRQCKLLSQTEMQIKVKF ANRNIN GKVALTVTALP IFAMPLKEDNLCLSSDSKCPIAKGADVTHTSKYTFLGGFPDGVQVNMQLK NDEKNKEIYCMIMTFSG
Sbjct:    1 MLLYAIYFVLFQYALAFSPYFFECTDSGPVIQSVEVDPCSDRQCKLLSQTEMQIKVKFIANRNINLGKVALTVTALPRIFAMPLKEDNLCLSSDSKCPIAKGADVTHTSKYTFLGGFPDGVQVNMQLKVNDEKNKEIYCMIMTFSG 146
[Close]
BLAST of SMED30015889 vs. Planmine SMEST
Match: SMESG000031788.1 (SMESG000031788.1)

HSP 1 Score: 73.559 bits (179), Expect = 1.555e-16
Identity = 35/140 (25.00%), Postives = 76/140 (54.29%), Query Frame = 2 
Query:  131 MLLYAIYFVLFQYALAFAPNFFECTNNGHVIQSVEVDPCSDRQCKLLSQTEMQIKVKFTANRNINFGKVALTVTALPSIFAMPLKEDNLCLSSDSKCPIAKGADVTHTSKYTFLGGFPDGVQVNMQLKANDEKNKEIYCM 550
            ++++A+ F +F    A    + +C + G  ++SV++ PC+++ C+L   T  Q+ +K+ A  +   G V++     P     PL + +LC  S   CPI  G +VT+++  T L  +P  +++ ++ +  D++  ++ C+
Sbjct:    3 VIVFAV-FTIFNTISAAPTVYLDCGSKGGKVESVDITPCNEQPCQLKKGTTPQLTIKYKALEDTKSGTVSVHGKIGPIFVPFPLPDSDLCKFSSPACPITTGEEVTYSNSITVLSSYP-AIRLTVKWELVDDQGNDLICI 140
[Close]
BLAST of SMED30015889 vs. Planmine SMEST
Match: SMESG000031800.1 (SMESG000031800.1)

HSP 1 Score: 63.1586 bits (152), Expect = 1.036e-12
Identity = 37/141 (26.24%), Postives = 71/141 (50.35%), Query Frame = 2 
Query:  134 LLYAIYFVLFQYALAFAPNFFECTNNGHVIQSVEVDPCSDRQCKLLSQTEMQIKVKFTANRNINFGKVALTVTALPSIF--AMPLKEDNLCLSSDSKCPIAKGADVTHTSKYTFLGGFPDGVQVNMQLKANDEKNKEIYCM 550
            L+  I   +  ++      + +C +    +QSVE+ PC+   C+L+  T+  I +K+ +N +++ GKV+  V     IF    PL +++LC  S   CPI    +VT+T+       +P  ++V +  +  D +  +I C+
Sbjct:    3 LISLIALSVISWSFVEPTVYLDCGSKKGQVQSVEISPCNTNPCQLVKGTKPSITIKYKSNEDVSSGKVS--VHGKVGIFNVPFPLPDNDLCKFSTPNCPIKSQTNVTYTNTIEIRKIYPS-LRVTITWELVDGQGNDIVCV 140
[Close]
BLAST of SMED30015889 vs. Planmine SMEST
Match: SMESG000023323.1 (SMESG000023323.1)

HSP 1 Score: 49.2914 bits (116), Expect = 1.563e-7
Identity = 34/140 (24.29%), Postives = 62/140 (44.29%), Query Frame = 2 
Query:  143 AIYFV-LFQYALAFAPN---FFECTNNGHVIQSVEVDPCSDRQCKLLSQTEMQIKVKFTANRNINFGKVALTVTALPSIFAMPLKEDNLCLSSDSKCPIAKGADVTHTSKYTFLGGFPDGVQVNMQLKANDEKNKEIYCM 550
            +I FV +F  +  FA +   F +C +    I++V VDPC+   C +       I + F +  +   GK  +           PL   +LC   + KCPI  G+D  + S   F+      +++ ++ +  D   K++ C+
Sbjct:    7 SISFVFIFAISTIFAKDITHFKDCGSIKGSIKTVSVDPCNSEPCTIQRGQNSTISISFVSKEDCTSGKAKVHALKDGIPIPFPLPNPDLCQFLNPKCPIKTGSDYKY-SYSLFIKKIYPSIRLTLRWELQDSLEKDLVCV 145
The following BLAST results are available for this feature:
BLAST of SMED30015889 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 4
Match NameE-valueIdentityDescription
NPC22.568e-624.24NPC intracellular cholesterol transporter 2 [Sourc... [more]
NPC23.614e-624.41NPC intracellular cholesterol transporter 2 [Sourc... [more]
NPC24.077e-624.64NPC intracellular cholesterol transporter 2 [Sourc... [more]
NPC25.600e-623.97NPC intracellular cholesterol transporter 2 [Sourc... [more]
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BLAST of SMED30015889 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30015889 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30015889 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 2
Match NameE-valueIdentityDescription
npc23.702e-622.54Niemann-Pick disease, type C2 [Source:NCBI gene;Ac... [more]
npc23.702e-622.54Niemann-Pick disease, type C2 [Source:NCBI gene;Ac... [more]
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BLAST of SMED30015889 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 1
Match NameE-valueIdentityDescription
npc27.226e-621.31Niemann-Pick disease, type C2 [Source:NCBI gene;Ac... [more]
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BLAST of SMED30015889 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30015889 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 1
Match NameE-valueIdentityDescription
sp|P79345|NPC2_BOVIN1.747e-827.74NPC intracellular cholesterol transporter 2 OS=Bos... [more]
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BLAST of SMED30015889 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A4S2LFW61.786e-722.46ML domain-containing protein OS=Opisthorchis felin... [more]
A0A0C2N8247.305e-723.36Mite group 2 allergen Eur m 2 OS=Thelohanellus kit... [more]
A0A452F9821.929e-627.74NPC intracellular cholesterol transporter 2 OS=Cap... [more]
W5NSH81.929e-627.74NPC intracellular cholesterol transporter 2 OS=Ovi... [more]
A0A267G4691.949e-629.27ML domain-containing protein OS=Macrostomum lignan... [more]
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BLAST of SMED30015889 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30015889 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30015889 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30015889 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 1
Match NameE-valueIdentityDescription
EDO307747.331e-823.24Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7... [more]
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BLAST of SMED30015889 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30015889 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 5
Match NameE-valueIdentityDescription
SMESG000031796.14.868e-10698.63SMESG000031796.1[more]
SMESG000031795.12.909e-10093.84SMESG000031795.1[more]
SMESG000031788.11.555e-1625.00SMESG000031788.1[more]
SMESG000031800.11.036e-1226.24SMESG000031800.1[more]
SMESG000023323.11.563e-724.29SMESG000023323.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30015889 ID=SMED30015889|Name=SMED30015889|organism=Schmidtea mediterranea sexual|type=transcript|length=610bp
TCTCCTCAAAGTAATTTTGTCATTAAAATAAATAAATAATTCTTATCAAT
TAATTGAATGCGAATTCAGCAGTGGCAATTCGAGGTGTCCCTATATTAAA
GTGGTAAAGATTTTGATATCATTAACAAAAATGTTGCTATATGCTATATA
TTTTGTTTTATTTCAATACGCTCTTGCATTTGCGCCAAATTTCTTTGAAT
GCACTAACAATGGGCATGTAATTCAATCAGTCGAGGTTGACCCTTGTTCT
GATCGCCAATGTAAACTGCTTAGCCAAACTGAAATGCAAATAAAAGTTAA
GTTTACTGCCAACAGAAACATAAACTTCGGAAAAGTAGCGCTGACAGTTA
CCGCTCTTCCTAGTATATTCGCGATGCCTTTAAAAGAAGATAATCTGTGT
CTCTCCTCCGATTCCAAATGTCCTATAGCAAAGGGTGCCGATGTAACCCA
TACTAGCAAATATACATTTCTTGGGGGATTTCCTGACGGTGTTCAAGTGA
ATATGCAATTAAAAGCAAATGATGAAAAAAATAAAGAAATATATTGTATG
ATAATGACATTTTCTGGATAAAATGTTTATGAAATAAATATTTTTTTGTT
TGAAAAAAAA
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protein sequence of SMED30015889-orf-1

>SMED30015889-orf-1 ID=SMED30015889-orf-1|Name=SMED30015889-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=147bp
MLLYAIYFVLFQYALAFAPNFFECTNNGHVIQSVEVDPCSDRQCKLLSQT
EMQIKVKFTANRNINFGKVALTVTALPSIFAMPLKEDNLCLSSDSKCPIA
KGADVTHTSKYTFLGGFPDGVQVNMQLKANDEKNKEIYCMIMTFSG*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000067goblet cell
PLANA:0000419prepharyngeal region
PLANA:0000421tail
PLANA:0002089reproductive organ
Vocabulary: INTERPRO
TermDefinition
IPR039670NPC2-like
IPR003172ML_dom
IPR014756Ig_E-set
Vocabulary: molecular function
TermDefinition
GO:0005515protein binding
GO:0015485cholesterol binding
GO:0019899enzyme binding
Vocabulary: cellular component
TermDefinition
GO:0005576extracellular region
GO:0005615extracellular space
GO:0005764lysosome
GO:0005783endoplasmic reticulum
GO:0070062extracellular exosome
Vocabulary: biological process
TermDefinition
GO:0006629lipid metabolic process
GO:0008202steroid metabolic process
GO:0008203cholesterol metabolic process
GO:0009615response to virus
GO:0030301cholesterol transport
GO:0032366intracellular sterol transport
GO:0032367intracellular cholesterol transport
GO:0033344cholesterol efflux
GO:0042632cholesterol homeostasis
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR003172MD-2-related lipid-recognition domainSMARTSM00737pgtp_13coord: 21..144
e-value: 5.8E-16
score: 69.0
IPR003172MD-2-related lipid-recognition domainPFAMPF02221E1_DerP2_DerF2coord: 20..142
e-value: 2.9E-14
score: 53.6
NoneNo IPR availableGENE3DG3DSA:2.60.40.770coord: 19..145
e-value: 1.3E-21
score: 79.1
NoneNo IPR availablePANTHERPTHR11306:SF36NIEMANN-PICK TYPE C-2C-RELATEDcoord: 9..142
NoneNo IPR availableSIGNALP_EUKSignalP-noTMSignalP-noTMcoord: 1..16
score: 0.826
IPR039670Sterol transport protein NPC2-likePANTHERPTHR11306NIEMANN PICK TYPE C2 PROTEIN NPC2-RELATEDcoord: 9..142
IPR014756Immunoglobulin E-setSUPERFAMILYSSF81296E set domainscoord: 20..144