SMED30017300

Overview
NameSMED30017300
Smed IDSMED30017300
Length (bp)1013
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 SMED30017300 (SMED30017300) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30017300 (SMED30017300) 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 SMED30017300 (SMED30017300) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for SMED30017300 (SMED30017300) 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



SMED30017300

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



PAGE Curations: 16

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
pharynxSMED30017300SMESG000001317.1 dd_Smed_v4_520_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
protonephridiaSMED30017300SMESG000001317.1 dd_Smed_v4_520_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30017300SMESG000001317.1 dd_Smed_v4_520_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30017300SMESG000001317.1 dd_Smed_v4_520_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymal cellSMED30017300SMESG000001317.1 dd_Smed_v4_520_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
muscle cellSMED30017300SMESG000001317.1 dd_Smed_v4_520_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cilated neuronSMED30017300SMESG000001317.1 dd_Smed_v4_520_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30017300SMESG000001317.1 Contig17303uc_Smed_v2PMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30017300SMESG000001317.1 Contig17303newmark_estsPMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30017300SMESG000001317.1 Contig27097uc_Smed_v2PMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30017300SMESG000001317.1 Contig27097newmark_estsPMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30017300SMESG000001317.1 Contig4908newmark_estsPMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30017300SMESG000001317.1 Contig4908uc_Smed_v2PMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30017300SMESG000066864.1 Contig4908newmark_estsPMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30017300SMESG000066864.1 Contig4908uc_Smed_v2PMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Category 2 cellSMED30017300SMESG000001317.1 dd_Smed_v6_520_0dd_Smed_v6PMID:29674432
Plass et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
Note: Hover over icons to view figure legend
Alignments
SMED30017300 aligns in the following genomic locations:
Alignment LocationAlignment Score
v31.033060:1400..2426 -4791
Homology
[Close]
BLAST of SMED30017300 vs. Ensembl Xenopus
Match: ntf4 (neurotrophin 4 [Source:Xenbase;Acc:XB-GENE-1013492])

HSP 1 Score: 51.2174 bits (121), Expect = 1.866e-6
Identity = 26/89 (29.21%), Postives = 46/89 (51.69%), Query Frame = -1 
Query:  279 GFGLRSPWNLRSPLNLRSP*IFLGXXXXXXXXXXXXXXXXXXXXSNLRSPLNLRSPSNLRSPLNLRSPSNLRSPLNLRSPLNLRSPLNL 545
            G  +R P +LR PL++R P    G             S       ++R PL++R P ++R P ++R P ++R P ++R P ++R P ++
Sbjct:  791 GPDMRGPQDLRGPLDMRGPQDMRGPPDMRGPQDMRGPSDMGGPQ-DIRGPLDMRGPQDIRGPSDMRGPQDMRGPPDMRGPQDIRGPPDM 878

HSP 2 Score: 49.6766 bits (117), Expect = 5.370e-6
Identity = 24/86 (27.91%), Postives = 43/86 (50.00%), Query Frame = -1 
Query:  279 LRSPWNLRSPLNLRSP*IFLGXXXXXXXXXXXXXXXXXXXXSNLRSPLNLRSPSNLRSPLNLRSPSNLRSPLNLRSPLNLRSPLNL 536
            +R P +LR P ++R P    G                     +LR PL++R P ++R P ++R P ++R P ++  P ++R PL++
Sbjct:  770 MRGPADLRGPNDMRGPQDMRGGPDMRGPQ-------------DLRGPLDMRGPQDMRGPPDMRGPQDMRGPSDMGGPQDIRGPLDM 842
[Close]
BLAST of SMED30017300 vs. Ensembl Xenopus
Match: ntf4 (neurotrophin 4 [Source:Xenbase;Acc:XB-GENE-1013492])

HSP 1 Score: 50.447 bits (119), Expect = 3.856e-6
Identity = 26/89 (29.21%), Postives = 46/89 (51.69%), Query Frame = -1 
Query:  279 GFGLRSPWNLRSPLNLRSP*IFLGXXXXXXXXXXXXXXXXXXXXSNLRSPLNLRSPSNLRSPLNLRSPSNLRSPLNLRSPLNLRSPLNL 545
            G  +R P +LR PL++R P    G             S       ++R PL++R P ++R P ++R P ++R P ++R P ++R P ++
Sbjct:  791 GPDMRGPQDLRGPLDMRGPQDMRGPPDMRGPQDMRGPSDMGGPQ-DIRGPLDMRGPQDIRGPSDMRGPQDMRGPPDMRGPQDIRGPPDM 878
[Close]
BLAST of SMED30017300 vs. TrEMBL
Match: A0A4Z2EJI4 (Processed variable antigen OS=Liparis tanakae OX=230148 GN=PVA_2 PE=4 SV=1)

HSP 1 Score: 79.337 bits (194), Expect = 1.216e-13
Identity = 48/97 (49.48%), Postives = 55/97 (56.70%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDRRPNPRFNGEHKTN 573
             +GERK +GERK NGERK  GERK +GERK  GERK NGERK  GERK                 +KI GERK +GERK         + NGE K +
Sbjct:    7 MSGERKMSGERKTNGERKMSGERKMSGERKMSGERKTNGERKTNGERK-------------MSRDRKIIGERKMSGERKI-----TERKMNGERKMS 85

HSP 2 Score: 63.1586 bits (152), Expect = 7.018e-8
Identity = 40/92 (43.48%), Postives = 53/92 (57.61%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXX-----XXXXXXXXXXXXXXXIYGERKFNGERKFQGDRRPN 543
             NGERK +GERK +GERK   ERK + ERK   ERK +GERK  GERK+          +     +  V +K+  ERK + ERK  G+R+ +
Sbjct:   78 MNGERKMSGERKMSGERKMSRERKMSRERKMSRERKMSGERKMSGERKMSVQRKMSVQRKMSRERKMSVQRKMSRERKMSRERKMSGERKTS 169

HSP 3 Score: 59.3066 bits (142), Expect = 1.317e-6
Identity = 37/80 (46.25%), Postives = 42/80 (52.50%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKF 522
             +GERK   ERK NGERK  GERK +GERK   ERK + ERK   ERK                   + GERK +GERK 
Sbjct:   67 MSGERKIT-ERKMNGERKMSGERKMSGERKMSRERKMSRERKMSRERK-------------------MSGERKMSGERKM 126
[Close]
BLAST of SMED30017300 vs. TrEMBL
Match: Q9Y1C8 (CG2 omega repeat (Fragment) OS=Plasmodium falciparum OX=5833 GN=cg2 PE=4 SV=1)

HSP 1 Score: 67.0106 bits (162), Expect = 9.082e-10
Identity = 33/99 (33.33%), Postives = 50/99 (50.51%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDRRPN--PRFNGEHKTN 573
             NG+ K NG+ K NG+ K +G+ K NG+ K +G+ K NG+ K  G+ K                   + G+ K NG+ K  GD + N   + NG++K N
Sbjct:    6 MNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNK-------------------MNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMN 85

HSP 2 Score: 62.7734 bits (151), Expect = 2.383e-8
Identity = 30/91 (32.97%), Postives = 44/91 (48.35%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDRRPNPRFN 555
             NG+ K NG+ K NG+ K +G+ K NG+ K +G+ K NG+ K  G+ K                   + G+ K NG+ K  GD + N   N
Sbjct:   42 MNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNK-------------------MNGDNKMNGDNKMNGDNKMNGDDN 113

HSP 3 Score: 62.3882 bits (150), Expect = 3.425e-8
Identity = 31/96 (32.29%), Postives = 48/96 (50.00%), Query Frame = 1 
Query:  292 ERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDRRPN--PRFNGEHKTN 573
            + K NG+ K NG+ K +G+ K NG+ K +G+ K NG+ K  G+ K                   + G+ K NG+ K  GD + N   + NG++K N
Sbjct:    3 DNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNK-------------------MNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMN 79

HSP 4 Score: 62.3882 bits (150), Expect = 3.493e-8
Identity = 30/91 (32.97%), Postives = 43/91 (47.25%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDRRPNPRFN 555
             NG+ K NG+ K NG+ K +G+ K NG+ K +G+ K NG+ K  G+ K                   + G+ K NG+ K  GD   N   N
Sbjct:   48 MNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNK-------------------MNGDNKMNGDNKMNGDDNKNCDDN 119
[Close]
BLAST of SMED30017300 vs. TrEMBL
Match: A0A226DVM6 (Myosin light chain kinase, smooth muscle OS=Folsomia candida OX=158441 GN=Fcan01_15676 PE=4 SV=1)

HSP 1 Score: 68.5514 bits (166), Expect = 2.202e-9
Identity = 42/84 (50.00%), Postives = 43/84 (51.19%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDR 534
            F GER F GER F GER F GER F GER F GER F GER F GER                      GER F GER F G+R
Sbjct:  160 FGGERPFGGERPFGGERPFGGERPFGGERPFGGERPFGGERPFGGERP-------------------FGGERPFGGERPFGGER 224

HSP 2 Score: 68.5514 bits (166), Expect = 2.202e-9
Identity = 42/84 (50.00%), Postives = 43/84 (51.19%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDR 534
            F GER F GER F GER F GER F GER F GER F GER F GER                      GER F GER F G+R
Sbjct:  166 FGGERPFGGERPFGGERPFGGERPFGGERPFGGERPFGGERPFGGERP-------------------FGGERPFGGERPFGGER 230

HSP 3 Score: 68.5514 bits (166), Expect = 2.202e-9
Identity = 42/84 (50.00%), Postives = 43/84 (51.19%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDR 534
            F GER F GER F GER F GER F GER F GER F GER F GER                      GER F GER F G+R
Sbjct:  172 FGGERPFGGERPFGGERPFGGERPFGGERPFGGERPFGGERPFGGERP-------------------FGGERPFGGERPFGGER 236

HSP 4 Score: 66.2402 bits (160), Expect = 1.220e-8
Identity = 41/84 (48.81%), Postives = 42/84 (50.00%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDR 534
            F G R F GER F GER F GER F GER F GER F GER F GER                      GER F GER F G+R
Sbjct:  154 FGGRRPFGGERPFGGERPFGGERPFGGERPFGGERPFGGERPFGGERP-------------------FGGERPFGGERPFGGER 218

HSP 5 Score: 63.929 bits (154), Expect = 7.710e-8
Identity = 40/84 (47.62%), Postives = 41/84 (48.81%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDR 534
            F GE  F G R F GER F GER F GER F GER F GER F GER                      GER F GER F G+R
Sbjct:  148 FGGETPFGGRRPFGGERPFGGERPFGGERPFGGERPFGGERPFGGERP-------------------FGGERPFGGERPFGGER 212

HSP 6 Score: 62.7734 bits (151), Expect = 1.710e-7
Identity = 40/84 (47.62%), Postives = 42/84 (50.00%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDR 534
            F GER F GER F GER F GER F GER F GER F GER F GER                      GER F  E+ F G+R
Sbjct:  184 FGGERPFGGERPFGGERPFGGERPFGGERPFGGERPFGGERPFGGERP-------------------FGGERPFGEEKPFGGER 248

HSP 7 Score: 61.2326 bits (147), Expect = 6.202e-7
Identity = 38/84 (45.24%), Postives = 41/84 (48.81%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDR 534
            F GER F G++ F GE  F G R F GER F GER F GER F GER                      GER F GER F G+R
Sbjct:  136 FGGERPFGGQQPFGGETPFGGRRPFGGERPFGGERPFGGERPFGGERP-------------------FGGERPFGGERPFGGER 200

HSP 8 Score: 59.6918 bits (143), Expect = 1.792e-6
Identity = 37/84 (44.05%), Postives = 42/84 (50.00%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDR 534
            F+GER F GE+ F GER F G++ F GE  F G R F GER F GER                      GER F GER F G+R
Sbjct:  124 FSGERPFGGEKPFGGERPFGGQQPFGGETPFGGRRPFGGERPFGGERP-------------------FGGERPFGGERPFGGER 188

HSP 9 Score: 58.151 bits (139), Expect = 5.820e-6
Identity = 36/84 (42.86%), Postives = 42/84 (50.00%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDR 534
            F GE+ F+GER F GE+ F GER F G++ F GE  F G R F GER                      GER F GER F G+R
Sbjct:  118 FGGEKPFSGERPFGGEKPFGGERPFGGQQPFGGETPFGGRRPFGGERP-------------------FGGERPFGGERPFGGER 182
[Close]
BLAST of SMED30017300 vs. TrEMBL
Match: Q9Y1C9 (CG2 omega repeat (Fragment) OS=Plasmodium falciparum OX=5833 GN=cg2 PE=4 SV=1)

HSP 1 Score: 65.4698 bits (158), Expect = 2.378e-9
Identity = 33/99 (33.33%), Postives = 50/99 (50.51%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDRRPNP--RFNGEHKTN 573
             NG+ K NG+ K NG+ K +G+ K NG+ K +G+ K NG+ K  G+ K                   + G+ K NG+ K  GD + N   + NG++K N
Sbjct:    6 MNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNK-------------------MNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMN 85

HSP 2 Score: 61.2326 bits (147), Expect = 8.288e-8
Identity = 31/96 (32.29%), Postives = 48/96 (50.00%), Query Frame = 1 
Query:  292 ERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDRRPNP--RFNGEHKTN 573
            + K NG+ K NG+ K +G+ K NG+ K +G+ K NG+ K  G+ K                   + G+ K NG+ K  GD + N   + NG++K N
Sbjct:    3 DNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNK-------------------MNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMN 79
[Close]
BLAST of SMED30017300 vs. TrEMBL
Match: Q9Y1D0 (CG2 omega repeat (Fragment) OS=Plasmodium falciparum OX=5833 GN=cg2 PE=4 SV=1)

HSP 1 Score: 62.3882 bits (150), Expect = 2.298e-8
Identity = 32/97 (32.99%), Postives = 48/97 (49.48%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDRRPNPRFNGEHKTN 573
             NG+ K NG+ K NG+ K +G+ K NG+ K +G+ K NG+ K  G+ K                   + G+ K NG+ K  GD     + NG++K N
Sbjct:    6 MNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNK-------------------MNGDNKMNGDNKMNGDN----KMNGDNKMN 79

HSP 2 Score: 58.9214 bits (141), Expect = 3.740e-7
Identity = 30/93 (32.26%), Postives = 45/93 (48.39%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDRRPNPRFNGE 561
             NG+ K NG+ K NG+ K +G+ K NG+ K +G+ K NG+ K  G+ K                   + G+ K NG+ K  GD     + NG+
Sbjct:   18 MNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNKMNGDNK-------------------MNGDNKMNGDNKMNGDDN---KINGD 88
[Close]
BLAST of SMED30017300 vs. Ensembl Cavefish
Match: ENSAMXT00000036126.1 (pep primary_assembly:Astyanax_mexicanus-2.0:APWO02002170.1:43992:45866:1 gene:ENSAMXG00000037999.1 transcript:ENSAMXT00000036126.1 gene_biotype:protein_coding transcript_biotype:protein_coding)

HSP 1 Score: 64.3142 bits (155), Expect = 6.039e-12
Identity = 32/99 (32.32%), Postives = 51/99 (51.52%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDRRPNP--RFNGEHKTN 573
             N +RK N +RK N +RK + +RK N +RK + +RK N +RK   +RK      +     +    +K   +RK N +RK    R+ N   + N + K+N
Sbjct:    7 SNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSNSQRK-SNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSN 104

HSP 2 Score: 64.3142 bits (155), Expect = 6.039e-12
Identity = 32/99 (32.32%), Postives = 51/99 (51.52%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDRRPNP--RFNGEHKTN 573
             N +RK N +RK N +RK + +RK N +RK + +RK N +RK   +RK      +     +    +K   +RK N +RK    R+ N   + N + K+N
Sbjct:   43 SNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSNSQRK-SNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSN 140

HSP 3 Score: 64.3142 bits (155), Expect = 6.039e-12
Identity = 32/99 (32.32%), Postives = 51/99 (51.52%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDRRPNP--RFNGEHKTN 573
             N +RK N +RK N +RK + +RK N +RK + +RK N +RK   +RK      +     +    +K   +RK N +RK    R+ N   + N + K+N
Sbjct:   79 SNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSNSQRK-SNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSN 176

HSP 4 Score: 59.6918 bits (143), Expect = 2.482e-10
Identity = 27/84 (32.14%), Postives = 39/84 (46.43%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDR 534
             N +RK N +RK N +RK + +RK N +RK + +RK N +RK   +RK                      +RK N +RK    R
Sbjct:  115 SNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSNSQRKSNSQRK-------------------SNSQRKSNSQRKSNSQR 179
[Close]
BLAST of SMED30017300 vs. Ensembl Cavefish
Match: ENSAMXT00000055096.1 (pep primary_assembly:Astyanax_mexicanus-2.0:9:35631276:35636199:1 gene:ENSAMXG00000041763.1 transcript:ENSAMXT00000055096.1 gene_biotype:protein_coding transcript_biotype:protein_coding)

HSP 1 Score: 51.2174 bits (121), Expect = 1.129e-7
Identity = 21/84 (25.00%), Postives = 46/84 (54.76%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDR 534
             +G++  NG++  NG++  +G++  NG++  DG++  NG++   G+ K        V  +     K +YG++  NG++  +G +
Sbjct:   36 VDGQKPMNGQKPVNGQKPVNGQKPMNGQKPLDGKKPVNGQKPVNGQ-KPMNGQKPVVWQDPVNKQKPMYGQKPVNGQKPVKGQK 118
[Close]
BLAST of SMED30017300 vs. Ensembl Cavefish
Match: ENSAMXT00000057184.1 (pep primary_assembly:Astyanax_mexicanus-2.0:APWO02000027.1:8208865:8212505:1 gene:ENSAMXG00000031651.1 transcript:ENSAMXT00000057184.1 gene_biotype:protein_coding transcript_biotype:protein_coding)

HSP 1 Score: 51.6026 bits (122), Expect = 1.624e-7
Identity = 23/84 (27.38%), Postives = 41/84 (48.81%), Query Frame = 1 
Query:  283 FNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDR 534
              G+R  NG+R  NG++   G++   G+R  +G+R  NG+R  +G++             +   P  + G+R  NG++   G R
Sbjct:    1 MAGQRPVNGQRPVNGQKPVAGQKPVAGQRSVNGQRSVNGQRPVQGQKP-----VAGQRRMKGQRPVLVNGQRLVNGQKPVPGQR 79
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BLAST of SMED30017300 vs. Planmine SMEST
Match: SMESG000001317.1 (SMESG000001317.1)

HSP 1 Score: 356.295 bits (913), Expect = 3.842e-123
Identity = 281/301 (93.36%), Postives = 286/301 (95.02%), Query Frame = 1 
Query:   70 MAGFKVGSKFSILMDDDFEELDSEHLILKKMKDAKIDAENKKVELEKIXXXXXXXXXXXXXXXXXXXXXXXFNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERK------XXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDRRPNPRFNGEHKTNNXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXITMTLSEWKKSNGIXXXXXXXXXXXPELIKVRFNNANRDARRQFTDRKPFNGAERKPFNAGVKKPFNGEKKFNKTVEEKXXXXXXFNLEDDFPA 954
            MAGFKVGSKFSILMDDDFEELDSEHLILKKMKDAKIDAENKKVELEKIKADNEKEKLKAEAEKAKENKKPKFNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERK      VKE+NTEEVEGEEKVVPKKIYGERKFNGERKFQGDR+PNPRFNGEHKTNNVEAEVAAAVAPEI+EAVIAEV +  +E   E   MTLSEWKKSNGIAVEEKVEEAAKPELIKVRFNNANRDARRQFTDRKPFNGAERKPFNAGVKKPFNGEKKFNKTVEEKVAVAAAFNLEDDFPA
Sbjct:    1 MAGFKVGSKFSILMDDDFEELDSEHLILKKMKDAKIDAENKKVELEKIKADNEKEKLKAEAEKAKENKKPKFNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKFNGERKVKEVNTEEVEGEEKVVPKKIYGERKFNGERKFQGDRKPNPRFNGEHKTNNVEAEVAAAVAPEIIEAVIAEVVEEPKEEVPEEPIMTLSEWKKSNGIAVEEKVEEAAKPELIKVRFNNANRDARRQFTDRKPFNGAERKPFNAGVKKPFNGEKKFNKTVEEKVAVAAAFNLEDDFPA 301
[Close]
BLAST of SMED30017300 vs. Planmine SMEST
Match: SMESG000001317.1 (SMESG000001317.1)

HSP 1 Score: 318.546 bits (815), Expect = 1.086e-108
Identity = 256/295 (86.78%), Postives = 264/295 (89.49%), Query Frame = 1 
Query:   70 MAGFKVGSKFSILMDDDFEELDSEHLILKKMKDAKIDAENKKVELEKIXXXXXXXXXXXXXXXXXXXXXXXFNGERKFNGERKFNGERKFDGERKFNGERKFDGERKFNGERKFEGERKXXXXXXXXXXXXXXXXXXXIYGERKFNGERKFQGDRRPNPRFNGEHKTNNXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXITMTLSEWKKSNGIXXXXXXXXXXXPELIKVRFNNANRDARRQFTDRKPFNGAERKPFNAGVKKPFNGEKKFNKTVEEKXXXXXXFNLEDDFPA 954
            MAGFKVGSKFSILMDDDFEELDSEHLILKKMKDAKIDAENKKVELEKIKADNEKEKLKAEAEKA            K N + KFNGERKF+GERKFNGERKFDGERKFNGERK +      E+NTEEVEGEEKVVPKKIYGERKFNGERKFQGDR+PNPRFNGEHKTNNVEAEVAAAVAPEI+EAVIAEV +  +E   E   MTLSEWKKSNGIAVEEKVEEAAKPELIKVRFNNANRDARRQFTDRKPFNGAERKPFNAGVKKPFNGEKKFNKTVEEKVAVAAAFNLEDDFPA
Sbjct:    1 MAGFKVGSKFSILMDDDFEELDSEHLILKKMKDAKIDAENKKVELEKIKADNEKEKLKAEAEKA------------KENKKPKFNGERKFNGERKFNGERKFDGERKFNGERKVK------EVNTEEVEGEEKVVPKKIYGERKFNGERKFQGDRKPNPRFNGEHKTNNVEAEVAAAVAPEIIEAVIAEVVEEPKEEVPEEPIMTLSEWKKSNGIAVEEKVEEAAKPELIKVRFNNANRDARRQFTDRKPFNGAERKPFNAGVKKPFNGEKKFNKTVEEKVAVAAAFNLEDDFPA 277
The following BLAST results are available for this feature:
BLAST of SMED30017300 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30017300 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 SMED30017300 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 SMED30017300 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30017300 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 2
Match NameE-valueIdentityDescription
ntf41.866e-629.21neurotrophin 4 [Source:Xenbase;Acc:XB-GENE-1013492... [more]
ntf43.856e-629.21neurotrophin 4 [Source:Xenbase;Acc:XB-GENE-1013492... [more]
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BLAST of SMED30017300 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 SMED30017300 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30017300 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A4Z2EJI41.216e-1349.48Processed variable antigen OS=Liparis tanakae OX=2... [more]
Q9Y1C89.082e-1033.33CG2 omega repeat (Fragment) OS=Plasmodium falcipar... [more]
A0A226DVM62.202e-950.00Myosin light chain kinase, smooth muscle OS=Folsom... [more]
Q9Y1C92.378e-933.33CG2 omega repeat (Fragment) OS=Plasmodium falcipar... [more]
Q9Y1D02.298e-832.99CG2 omega repeat (Fragment) OS=Plasmodium falcipar... [more]
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BLAST of SMED30017300 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 3
Match NameE-valueIdentityDescription
ENSAMXT00000036126.16.039e-1232.32pep primary_assembly:Astyanax_mexicanus-2.0:APWO02... [more]
ENSAMXT00000055096.11.129e-725.00pep primary_assembly:Astyanax_mexicanus-2.0:9:3563... [more]
ENSAMXT00000057184.11.624e-727.38pep primary_assembly:Astyanax_mexicanus-2.0:APWO02... [more]
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BLAST of SMED30017300 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 SMED30017300 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 SMED30017300 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30017300 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 SMED30017300 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 2
Match NameE-valueIdentityDescription
SMESG000001317.13.842e-12393.36SMESG000001317.1[more]
SMESG000001317.11.086e-10886.78SMESG000001317.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30017300 ID=SMED30017300|Name=SMED30017300|organism=Schmidtea mediterranea sexual|type=transcript|length=1013bp
TCTAAATAAAAAATTAGTAAAGCATGTTTTTTTCAAATTCTAATCCTAGT
ATTAATTTTTTATTTAGATATGGCTGGATTTAAAGTTGGCTCCAAGTTCT
CCATTTTGATGGATGATGATTTCGAAGAATTGGATTCTGAACATCTTATT
TTAAAAAAAATGAAGGATGCTAAAATAGATGCTGAAAACAAAAAAGTTGA
ATTAGAAAAAATTAAAGCTGATAATGAAAAAGAAAAGCTTAAAGCTGAAG
CTGAGAAAGCAAAAGAAAACAAAAAGCCTAAGTTTAATGGTGAACGTAAA
TTTAACGGTGAACGCAAATTCAATGGTGAACGCAAATTCGACGGTGAACG
TAAATTCAATGGTGAACGTAAATTCGACGGTGAACGCAAATTCAATGGAG
AACGTAAATTCGAAGGTGAACGTAAAGTAAAGGAACTTAATACCGAAGAA
GTTGAAGGAGAAGAAAAAGTAGTTCCTAAGAAAATCTATGGAGAGCGTAA
ATTTAACGGTGAACGTAAATTCCAAGGAGACCGCAGACCAAATCCACGAT
TCAATGGAGAACACAAAACCAATAATGTTGAGGCTGAAGTCGCCGCTGCA
GTCGCACCTGAAATTGTTGAGGCAGTTATTGCTGAAGTTGAACAACCAAA
AGAAGAGGTTCCAGAAGAACCAATCACCATGACTTTGTCCGAATGGAAAA
AGTCTAACGGTATTGCAGTTGAGGAAAAAGTTGAAGAAGCTGCTAAACCA
GAACTTATCAAAGTAAGATTCAACAACGCAAACCGCGATGCAAGAAGACA
ATTTACCGATAGAAAACCATTCAATGGAGCTGAACGAAAGCCTTTTAATG
CCGGTGTCAAAAAACCTTTCAATGGCGAAAAGAAATTCAACAAAACAGTC
GAGGAGAAAGTTGCAGTTGCTGCCGCTTTCAATTTGGAAGACGATTTCCC
AGCTTTATAAATAATTATTATAAAATTTCAATTGAAATTAATATAATTTT
TGGAAATTAAAAA
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protein sequence of SMED30017300-orf-1

>SMED30017300-orf-1 ID=SMED30017300-orf-1|Name=SMED30017300-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=297bp
MAGFKVGSKFSILMDDDFEELDSEHLILKKMKDAKIDAENKKVELEKIKA
DNEKEKLKAEAEKAKENKKPKFNGERKFNGERKFNGERKFDGERKFNGER
KFDGERKFNGERKFEGERKVKELNTEEVEGEEKVVPKKIYGERKFNGERK
FQGDRRPNPRFNGEHKTNNVEAEVAAAVAPEIVEAVIAEVEQPKEEVPEE
PITMTLSEWKKSNGIAVEEKVEEAAKPELIKVRFNNANRDARRQFTDRKP
FNGAERKPFNAGVKKPFNGEKKFNKTVEEKVAVAAAFNLEDDFPAL*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000020protonephridia
PLANA:0000028Category 2 cell
PLANA:0000099neuron
Vocabulary: molecular function
TermDefinition
GO:0001104RNA polymerase II transcription cofactor activity
GO:0003677DNA binding
Vocabulary: biological process
TermDefinition
GO:0006352DNA-templated transcription, initiation
GO:0006357regulation of transcription from RNA polymerase II promoter
Vocabulary: cellular component
TermDefinition
GO:0016592mediator complex
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availableCOILSCoilCoilcoord: 28..69
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 247..268
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 153..173
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 60..84
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 153..168