Tyrosine protein kinase-7

Overview
NameTyrosine protein kinase-7
Smed IDSMED30019800
Length (bp)1118
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 Tyrosine protein kinase-7 (SMED30019800) t-SNE clustered cells

Violin plots show distribution of expression levels for Tyrosine protein kinase-7 (SMED30019800) 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 Tyrosine protein kinase-7 (SMED30019800) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for Tyrosine protein kinase-7 (SMED30019800) 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.
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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



SMED30019800

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



PAGE Curations: 2

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
X1 cellSMED30019800 SmedASXL_066775SmedAsxl_ww_GCZZ01PMID:26114597
Zhu et al., 2015		FACS sorted cell population asexual adult RNA-sequencing evidence
neoblastSMED30019800 dd_Smed_v4_19037_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
Note: Hover over icons to view figure legend
Homology
[Close]
BLAST of Tyrosine protein kinase-7 vs. TrEMBL
Match: I1ZIC7 (Tyrosine protein kinase-7 OS=Schmidtea mediterranea OX=79327 PE=2 SV=1)

HSP 1 Score: 124.79 bits (312), Expect = 4.762e-32
Identity = 62/63 (98.41%), Postives = 62/63 (98.41%), Query Frame = 2 
Query:  491 MLDKRTDPGGTTEGSRSRSQLEQQLTVNKRSEIKDTQSLRLEDRISQLTPDAAMMKLSCPASR 679
            MLDKRTDPGGTTEGSRSRSQLEQQLTVNKRSEIKDTQSLRLEDRI QLTPDAAMMKLSCPASR
Sbjct:    1 MLDKRTDPGGTTEGSRSRSQLEQQLTVNKRSEIKDTQSLRLEDRIGQLTPDAAMMKLSCPASR 63
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BLAST of Tyrosine protein kinase-7 vs. Planmine SMEST
Match: SMESG000027782.1 (SMESG000027782.1)

HSP 1 Score: 144.436 bits (363), Expect = 2.764e-41
Identity = 80/176 (45.45%), Postives = 111/176 (63.07%), Query Frame = 1 
Query:  496 RQKNGSWRDD*RITVQIPARAAAHCQQAL*D*GYTISTAGGSN*PIDPRRRNDEIELPSVSIKREFGRNPGLEARQKAKFVLASLEAKCRKNRWQTAMARNQLARMNADTAAGRIASTDGNAPSYGV-YELDDRILMEMNAPTIVVMSICFLHAPAIERIGVRHYADEHVYARRQP 1020
            R  +GSW D+ R+T+QIP+ +AA  +Q L D GY +ST G S+ P   + + +EIELPS++IKRE G NP  EARQ+A++    +E   RK   +  +AR +LA++N D A+G I STDG  P YGV +ELDD  LM+M APT +V+    + +    R+G R   D H YA R P
Sbjct:   30 RDPHGSWSDNSRVTLQIPSASAARYRQVLWDNGYLLSTYGDSSWPRRSKYQAEEIELPSIAIKREPGHNPAREARQRAEYAAMKMEELERKYHRKAVLARQRLAQVNRDIASGAIPSTDGFPPEYGVSFELDDPRLMQMTAPTKLVLPEKLIQSTLRNRLGSRQTGD-HTYASRHP 204
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BLAST of Tyrosine protein kinase-7 vs. Planmine SMEST
Match: SMESG000044971.1 (SMESG000044971.1)

HSP 1 Score: 150.984 bits (380), Expect = 7.943e-40
Identity = 80/176 (45.45%), Postives = 111/176 (63.07%), Query Frame = 1 
Query:  496 RQKNGSWRDD*RITVQIPARAAAHCQQAL*D*GYTISTAGGSN*PIDPRRRNDEIELPSVSIKREFGRNPGLEARQKAKFVLASLEAKCRKNRWQTAMARNQLARMNADTAAGRIASTDGNAPSYGV-YELDDRILMEMNAPTIVVMSICFLHAPAIERIGVRHYADEHVYARRQP 1020
            R  +G+W D+ R+T+QIP+ +AA  +Q L D GY +ST G S+ P     + +EIELPS++IKRE G NP  EARQ+A++V   +E   RK   +  +AR +LA++N D A+G I STDG  P YGV +ELDD  LM+M APT +V+    + +    R+G R   D H YA R P
Sbjct: 1130 RDPHGNWSDNSRVTLQIPSASAARYRQVLWDNGYLLSTYGDSSWPRRSEYQAEEIELPSIAIKREPGHNPAREARQRAEYVAMKMEELERKYHRKAVLARQRLAQVNRDIASGAIPSTDGFPPEYGVSFELDDPRLMQMTAPTKMVIPEKLVQSTLRNRLGSRQTGD-HTYASRHP 1304
[Close]
BLAST of Tyrosine protein kinase-7 vs. Planmine SMEST
Match: SMESG000046313.1 (SMESG000046313.1)

HSP 1 Score: 145.591 bits (366), Expect = 4.727e-38
Identity = 82/178 (46.07%), Postives = 111/178 (62.36%), Query Frame = 1 
Query:  490 DARQKNGSWRDD*RITVQIPARAAAHCQQAL*D*GYTISTAGGSN*PIDPRRRNDEIELPSVSIKREFGRNPGLEARQKAKFVLASLEAKCRKNRWQTAMARNQLARMNADTAAGRIASTDGNAPSYGV-YELDDRILMEMNAPTIVVMSICFLHAPAIERIGVRHYADEHVYARRQP 1020
            D R  +G WRDD +IT+QI   +AA  +QAL D GYT+ST G S+ P  P+ R DE+ELPS++IKRE GRNP  E  Q+A++    +E   RK   +  +AR +LA++N D A+G I STD   P+YGV +ELDD  L++M APT +V+    +      R+G R   D H YA R P
Sbjct:  662 DRRDPHGGWRDDSQITLQISNASAARYRQALWDNGYTLSTYGESSWPRRPKDREDEVELPSIAIKREPGRNPAREVHQRAEYTSMKMEEMERKYHRKAVLARQRLAQINRDIASGVIPSTDSFPPTYGVSFELDDPRLLQMTAPTKLVIPEELIQPGLRNRLGSRRTGD-HTYASRHP 838
[Close]
BLAST of Tyrosine protein kinase-7 vs. Planmine SMEST
Match: SMESG000046313.1 (SMESG000046313.1)

HSP 1 Score: 145.206 bits (365), Expect = 6.198e-38
Identity = 82/178 (46.07%), Postives = 111/178 (62.36%), Query Frame = 1 
Query:  490 DARQKNGSWRDD*RITVQIPARAAAHCQQAL*D*GYTISTAGGSN*PIDPRRRNDEIELPSVSIKREFGRNPGLEARQKAKFVLASLEAKCRKNRWQTAMARNQLARMNADTAAGRIASTDGNAPSYGV-YELDDRILMEMNAPTIVVMSICFLHAPAIERIGVRHYADEHVYARRQP 1020
            D R  +G WRDD +IT+QI   +AA  +QAL D GYT+ST G S+ P  P+ R DE+ELPS++IKRE GRNP  E  Q+A++    +E   RK   +  +AR +LA++N D A+G I STD   P+YGV +ELDD  L++M APT +V+    +      R+G R   D H YA R P
Sbjct:  666 DRRDPHGGWRDDSQITLQISNASAARYRQALWDNGYTLSTYGESSWPRRPKDREDEVELPSIAIKREPGRNPAREVHQRAEYTSMKMEEMERKYHRKAVLARQRLAQINRDIASGVIPSTDSFPPTYGVSFELDDPRLLQMTAPTKLVIPEELIQPGLRNRLGSRRTGD-HTYASRHP 842
[Close]
BLAST of Tyrosine protein kinase-7 vs. Planmine SMEST
Match: SMESG000057533.1 (SMESG000057533.1)

HSP 1 Score: 144.436 bits (363), Expect = 1.850e-37
Identity = 80/188 (42.55%), Postives = 112/188 (59.57%), Query Frame = 1 
Query:  460 TLYAYLKLEADARQKNGSWRDD*RITVQIPARAAAHCQQAL*D*GYTISTAGGSN*PIDPRRRNDEIELPSVSIKREFGRNPGLEARQKAKFVLASLEAKCRKNRWQTAMARNQLARMNADTAAGRIASTDGNAPSYGV-YELDDRILMEMNAPTIVVMSICFLHAPAIERIGVRHYADEHVYARRQP 1020
            T+Y Y       R  +GSW D+ R+T++IP+ +AA  +Q L D GY +ST G S+ P     + +EIELPS++IKRE G NP  EARQ+AK+    +E   RK   +   AR +LA++N D A+G I STDG  P YGV +ELDD  L +M APT +V+    + +    ++G  H   +H YA R P
Sbjct: 1634 TIYNY------RRDPHGSWSDNSRVTLEIPSASAARYRQVLWDNGYLLSTYGDSSWPRRSEYQAEEIELPSIAIKREPGHNPAREARQRAKYAAMKMEELERKYHRKAVSARQRLAQVNRDIASGSIPSTDGFPPEYGVSFELDDPRLTQMTAPTKMVIPEKLVQSTLRNQLG-SHQTGDHTYASRHP 1814
The following BLAST results are available for this feature:
BLAST of Tyrosine protein kinase-7 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 Tyrosine protein kinase-7 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 Tyrosine protein kinase-7 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 Tyrosine protein kinase-7 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 Tyrosine protein kinase-7 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of Tyrosine protein kinase-7 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 Tyrosine protein kinase-7 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 Tyrosine protein kinase-7 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 1
Match NameE-valueIdentityDescription
I1ZIC74.762e-3298.41Tyrosine protein kinase-7 OS=Schmidtea mediterrane... [more]
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BLAST of Tyrosine protein kinase-7 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 Tyrosine protein kinase-7 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 Tyrosine protein kinase-7 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 Tyrosine protein kinase-7 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 Tyrosine protein kinase-7 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 Tyrosine protein kinase-7 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 5
Match NameE-valueIdentityDescription
SMESG000027782.12.764e-4145.45SMESG000027782.1[more]
SMESG000044971.17.943e-4045.45SMESG000044971.1[more]
SMESG000046313.14.727e-3846.07SMESG000046313.1[more]
SMESG000046313.16.198e-3846.07SMESG000046313.1[more]
SMESG000057533.11.850e-3742.55SMESG000057533.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30019800 ID=SMED30019800|Name=Tyrosine protein kinase-7|organism=Schmidtea mediterranea sexual|type=transcript|length=1118bp
CATATACTCATGACGCAAACTAATATGTAAGTCATGTTAATAAATAGTAA
AAATAAATCATTTTCTTTATTTTAAATGTATAATTTTATGAATCCATGTA
AAAGGTACAATAAAACAAAATGAAATTATTGAAATTATAGTACCTATGGT
AGCAATAGTTACAATAACAGGAATGGAATGTTAATCAGTAATAAAATTGG
ATAATCATACTATTATAAGTTTTACGTTAACAAAGATTAATTTCTTTTAT
ATTTGTATAGAATCTAAAGTAATATGGAGTATTTTCTTCTATTTCGAATA
CCCAATCATGAGAGTCTCACCGAAGATAATAATATTAATCAGGAAGTGAA
ATAATTTTCCTCACGTCAAGGAAGTGACGAGAATGCTAACTTGGGACAGA
AAGAATTGTAAACGGAAAAGATTGATTAGTGCGCCCATTGATAGCAATCC
TCATAATCAACACTTTATGCTTATTTAAAATTAGAGGCTGATGCTCGACA
AAAGAACGGATCCTGGCGGGACGACTGAAGGATCACGGTCCAGATCCCAG
CTCGAGCAGCAGCTCACTGTCAACAAGCGCTCTGAGATTAAGGATACACA
ATCTCTACGGCTGGAGGATCGAATTAGCCAATTGACCCCAGACGCCGCAA
TGATGAAATTGAGTTGCCCAGCGTCTCGATAAAACGAGAGTTTGGTCGGA
ACCCGGGATTAGAGGCGCGTCAGAAAGCCAAATTCGTACTGGCAAGCCTG
GAAGCCAAGTGCAGAAAGAATCGATGGCAGACCGCCATGGCTCGAAACCA
ACTGGCCAGAATGAACGCCGACACAGCAGCCGGTCGGATTGCTAGTACCG
ATGGTAATGCTCCCAGCTATGGCGTATATGAATTAGATGACCGGATCCTG
ATGGAGATGAACGCACCGACCATCGTGGTAATGTCAATATGTTTCCTCCA
CGCACCAGCAATCGAGAGGATCGGCGTAAGGCATTACGCAGACGAGCATG
TCTATGCCAGACGTCAACCGGCCTATCAGCGTCGTGACCAAAGGCAAAGT
TATAGAAGAAATTAGATTGGGTGGAAACTGCGAATTTGTCTGTTAATAAG
AATAATGTTTAGTTGTTA
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000429neoblast
PLANA:0002109X1 cell
Vocabulary: molecular function
TermDefinition
GO:0016301kinase activity
Vocabulary: biological process
TermDefinition
GO:0016310phosphorylation