SMED30027029

Overview
NameSMED30027029
Smed IDSMED30027029
Length (bp)1138
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 SMED30027029 (SMED30027029) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30027029 (SMED30027029) in cells (dots) of each of the 12 neoblast clusters.

 

back to top


 

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 SMED30027029 (SMED30027029) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for SMED30027029 (SMED30027029) in cells (dots) of each of the 10 clusters of sub-leathally irradiated X1 and X2 cells.

 

back to top


 

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

 

back to top
Anatomical Expression

PAGE et. al., 2020




SMED30027029

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



PAGE Curations: 3

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
nervous systemSMED30027029SMESG000036070.1 SMESG000036047.1 SMESG000036045.1 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30027029SMESG000036070.1 SMESG000036047.1 SMESG000036045.1 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30027029SMESG000036070.1 SMESG000036047.1 SMESG000036045.1 dd_Smed_v4_2238_1_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017
whole organism asexual adult single-cell RNA-sequencing evidence
Note: Hover over icons to view figure legend
Alignments
SMED30027029 aligns in the following genomic locations:
Alignment LocationAlignment Score
v31.002750:31776..45458 +5509
Homology
BLAST of SMED30027029 vs. Ensembl Human
Match: USP2 (ubiquitin specific peptidase 2 [Source:HGNC Symbol;Acc:HGNC:12618])

HSP 1 Score: 50.8322 bits (120), Expect = 1.980e-6
Identity = 53/231 (22.94%), Postives = 96/231 (41.56%), Query Frame = 3
Query:  207 TRCFGKKRKNRNKITDIIQQNPDKPMGFNNPKGYCYLNCVIQVLASCGDFTKDIENSDCQQYFVDDIED-----SVFVKGLFNLIQALRKSDKKNLDKSLE---TVQQYITE---------SSFGDDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICDNICNESFQVMKSMPLAVANSKFP-IPLENCVKAF 845
            TR + KKR+N      +         G  N    C++N ++Q L++    T+++ +   Q+ ++ D+       +  V+    LIQ +  S   ++    E    +Q+Y              F   +     N ++RV+   K+N E  +    LP    EK +Q + K+  R    + D F GQL   +TC  C   C+  F     + L +A   +P + L +C++ F
Sbjct:    7 TRPYSKKRQNSKSAQGLA--------GLRNLGNTCFMNSILQCLSN----TRELRDYCLQRLYMRDLHHGSNAHTALVEEFAKLIQTIWTSSPNDVVSPSEFKTQIQRYAPRFVGYNQQDAQEFLRFLLDGLHNEVNRVTLRPKSNPENLD---HLP--DDEKGRQMWRKYLEREDSRIGDLFVGQLKSSLTCTDC-GYCSTVFDPFWDLSLPIAKRGYPEVTLMDCMRLF 219          
BLAST of SMED30027029 vs. Planmine SMEST
Match: SMESG000036117.1 (SMESG000036117.1)

HSP 1 Score: 533.872 bits (1374), Expect = 0.000e+0
Identity = 261/261 (100.00%), Postives = 261/261 (100.00%), Query Frame = 3
Query:   99 SENSIMGKSQKPPTSEGTTRTKVSKSKSNLHIKHIFTRCFGKKRKNRNKITDIIQQNPDKPMGFNNPKGYCYLNCVIQVLASCGDFTKDIENSDCQQYFVDDIEDSVFVKGLFNLIQALRKSDKKNLDKSLETVQQYITESSFGDDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICDNICNESFQVMKSMPLAVANSKFPIPLENCVKAFFSDSQIEVTEPL 881
            SENSIMGKSQKPPTSEGTTRTKVSKSKSNLHIKHIFTRCFGKKRKNRNKITDIIQQNPDKPMGFNNPKGYCYLNCVIQVLASCGDFTKDIENSDCQQYFVDDIEDSVFVKGLFNLIQALRKSDKKNLDKSLETVQQYITESSFGDDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICDNICNESFQVMKSMPLAVANSKFPIPLENCVKAFFSDSQIEVTEPL
Sbjct:  403 SENSIMGKSQKPPTSEGTTRTKVSKSKSNLHIKHIFTRCFGKKRKNRNKITDIIQQNPDKPMGFNNPKGYCYLNCVIQVLASCGDFTKDIENSDCQQYFVDDIEDSVFVKGLFNLIQALRKSDKKNLDKSLETVQQYITESSFGDDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICDNICNESFQVMKSMPLAVANSKFPIPLENCVKAFFSDSQIEVTEPL 663          

HSP 2 Score: 49.6766 bits (117), Expect = 2.882e-6
Identity = 23/23 (100.00%), Postives = 23/23 (100.00%), Query Frame = 3
Query: 1068 LKCACENGSTSVKSLTKLTHGPK 1136
            LKCACENGSTSVKSLTKLTHGPK
Sbjct:  663 LKCACENGSTSVKSLTKLTHGPK 685          
BLAST of SMED30027029 vs. Planmine SMEST
Match: SMESG000036117.1 (SMESG000036117.1)

HSP 1 Score: 533.872 bits (1374), Expect = 0.000e+0
Identity = 261/261 (100.00%), Postives = 261/261 (100.00%), Query Frame = 3
Query:   99 SENSIMGKSQKPPTSEGTTRTKVSKSKSNLHIKHIFTRCFGKKRKNRNKITDIIQQNPDKPMGFNNPKGYCYLNCVIQVLASCGDFTKDIENSDCQQYFVDDIEDSVFVKGLFNLIQALRKSDKKNLDKSLETVQQYITESSFGDDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICDNICNESFQVMKSMPLAVANSKFPIPLENCVKAFFSDSQIEVTEPL 881
            SENSIMGKSQKPPTSEGTTRTKVSKSKSNLHIKHIFTRCFGKKRKNRNKITDIIQQNPDKPMGFNNPKGYCYLNCVIQVLASCGDFTKDIENSDCQQYFVDDIEDSVFVKGLFNLIQALRKSDKKNLDKSLETVQQYITESSFGDDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICDNICNESFQVMKSMPLAVANSKFPIPLENCVKAFFSDSQIEVTEPL
Sbjct:  381 SENSIMGKSQKPPTSEGTTRTKVSKSKSNLHIKHIFTRCFGKKRKNRNKITDIIQQNPDKPMGFNNPKGYCYLNCVIQVLASCGDFTKDIENSDCQQYFVDDIEDSVFVKGLFNLIQALRKSDKKNLDKSLETVQQYITESSFGDDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICDNICNESFQVMKSMPLAVANSKFPIPLENCVKAFFSDSQIEVTEPL 641          

HSP 2 Score: 49.6766 bits (117), Expect = 3.066e-6
Identity = 23/23 (100.00%), Postives = 23/23 (100.00%), Query Frame = 3
Query: 1068 LKCACENGSTSVKSLTKLTHGPK 1136
            LKCACENGSTSVKSLTKLTHGPK
Sbjct:  641 LKCACENGSTSVKSLTKLTHGPK 663          
BLAST of SMED30027029 vs. Planmine SMEST
Match: SMESG000036117.1 (SMESG000036117.1)

HSP 1 Score: 527.324 bits (1357), Expect = 0.000e+0
Identity = 256/256 (100.00%), Postives = 256/256 (100.00%), Query Frame = 3
Query:  114 MGKSQKPPTSEGTTRTKVSKSKSNLHIKHIFTRCFGKKRKNRNKITDIIQQNPDKPMGFNNPKGYCYLNCVIQVLASCGDFTKDIENSDCQQYFVDDIEDSVFVKGLFNLIQALRKSDKKNLDKSLETVQQYITESSFGDDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICDNICNESFQVMKSMPLAVANSKFPIPLENCVKAFFSDSQIEVTEPL 881
            MGKSQKPPTSEGTTRTKVSKSKSNLHIKHIFTRCFGKKRKNRNKITDIIQQNPDKPMGFNNPKGYCYLNCVIQVLASCGDFTKDIENSDCQQYFVDDIEDSVFVKGLFNLIQALRKSDKKNLDKSLETVQQYITESSFGDDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICDNICNESFQVMKSMPLAVANSKFPIPLENCVKAFFSDSQIEVTEPL
Sbjct:    1 MGKSQKPPTSEGTTRTKVSKSKSNLHIKHIFTRCFGKKRKNRNKITDIIQQNPDKPMGFNNPKGYCYLNCVIQVLASCGDFTKDIENSDCQQYFVDDIEDSVFVKGLFNLIQALRKSDKKNLDKSLETVQQYITESSFGDDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICDNICNESFQVMKSMPLAVANSKFPIPLENCVKAFFSDSQIEVTEPL 256          

HSP 2 Score: 50.0618 bits (118), Expect = 1.428e-6
Identity = 23/23 (100.00%), Postives = 23/23 (100.00%), Query Frame = 3
Query: 1068 LKCACENGSTSVKSLTKLTHGPK 1136
            LKCACENGSTSVKSLTKLTHGPK
Sbjct:  256 LKCACENGSTSVKSLTKLTHGPK 278          
BLAST of SMED30027029 vs. Planmine SMEST
Match: SMESG000036117.1 (SMESG000036117.1)

HSP 1 Score: 524.242 bits (1349), Expect = 0.000e+0
Identity = 256/256 (100.00%), Postives = 256/256 (100.00%), Query Frame = 3
Query:  114 MGKSQKPPTSEGTTRTKVSKSKSNLHIKHIFTRCFGKKRKNRNKITDIIQQNPDKPMGFNNPKGYCYLNCVIQVLASCGDFTKDIENSDCQQYFVDDIEDSVFVKGLFNLIQALRKSDKKNLDKSLETVQQYITESSFGDDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICDNICNESFQVMKSMPLAVANSKFPIPLENCVKAFFSDSQIEVTEPL 881
            MGKSQKPPTSEGTTRTKVSKSKSNLHIKHIFTRCFGKKRKNRNKITDIIQQNPDKPMGFNNPKGYCYLNCVIQVLASCGDFTKDIENSDCQQYFVDDIEDSVFVKGLFNLIQALRKSDKKNLDKSLETVQQYITESSFGDDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICDNICNESFQVMKSMPLAVANSKFPIPLENCVKAFFSDSQIEVTEPL
Sbjct:    1 MGKSQKPPTSEGTTRTKVSKSKSNLHIKHIFTRCFGKKRKNRNKITDIIQQNPDKPMGFNNPKGYCYLNCVIQVLASCGDFTKDIENSDCQQYFVDDIEDSVFVKGLFNLIQALRKSDKKNLDKSLETVQQYITESSFGDDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICDNICNESFQVMKSMPLAVANSKFPIPLENCVKAFFSDSQIEVTEPL 256          

HSP 2 Score: 50.0618 bits (118), Expect = 1.283e-6
Identity = 23/23 (100.00%), Postives = 23/23 (100.00%), Query Frame = 3
Query: 1068 LKCACENGSTSVKSLTKLTHGPK 1136
            LKCACENGSTSVKSLTKLTHGPK
Sbjct:  256 LKCACENGSTSVKSLTKLTHGPK 278          
BLAST of SMED30027029 vs. Planmine SMEST
Match: SMESG000036117.1 (SMESG000036117.1)

HSP 1 Score: 521.931 bits (1343), Expect = 0.000e+0
Identity = 256/260 (98.46%), Postives = 256/260 (98.46%), Query Frame = 3
Query:  114 MGKSQKPPTSEGTTRTKVSKSKSNLHIKHIFTRCFGKKRKNRNKITDIIQQNP----DKPMGFNNPKGYCYLNCVIQVLASCGDFTKDIENSDCQQYFVDDIEDSVFVKGLFNLIQALRKSDKKNLDKSLETVQQYITESSFGDDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICDNICNESFQVMKSMPLAVANSKFPIPLENCVKAFFSDSQIEVTEPL 881
            MGKSQKPPTSEGTTRTKVSKSKSNLHIKHIFTRCFGKKRKNRNKITDIIQQNP    DKPMGFNNPKGYCYLNCVIQVLASCGDFTKDIENSDCQQYFVDDIEDSVFVKGLFNLIQALRKSDKKNLDKSLETVQQYITESSFGDDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICDNICNESFQVMKSMPLAVANSKFPIPLENCVKAFFSDSQIEVTEPL
Sbjct:    1 MGKSQKPPTSEGTTRTKVSKSKSNLHIKHIFTRCFGKKRKNRNKITDIIQQNPVSHIDKPMGFNNPKGYCYLNCVIQVLASCGDFTKDIENSDCQQYFVDDIEDSVFVKGLFNLIQALRKSDKKNLDKSLETVQQYITESSFGDDVYKCFMNILSRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQLTFQMTCDICDNICNESFQVMKSMPLAVANSKFPIPLENCVKAFFSDSQIEVTEPL 260          

HSP 2 Score: 50.0618 bits (118), Expect = 1.480e-6
Identity = 23/23 (100.00%), Postives = 23/23 (100.00%), Query Frame = 3
Query: 1068 LKCACENGSTSVKSLTKLTHGPK 1136
            LKCACENGSTSVKSLTKLTHGPK
Sbjct:  260 LKCACENGSTSVKSLTKLTHGPK 282          
The following BLAST results are available for this feature:
BLAST of SMED30027029 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 1
Match NameE-valueIdentityDescription
USP21.980e-622.94ubiquitin specific peptidase 2 [Source:HGNC Symbol... [more]
back to top
BLAST of SMED30027029 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30027029 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30027029 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30027029 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30027029 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30027029 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30027029 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30027029 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30027029 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30027029 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30027029 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30027029 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30027029 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 5
Match NameE-valueIdentityDescription
SMESG000036117.12.882e-6100.00SMESG000036117.1[more]
SMESG000036117.13.066e-6100.00SMESG000036117.1[more]
SMESG000036117.11.428e-6100.00SMESG000036117.1[more]
SMESG000036117.11.283e-6100.00SMESG000036117.1[more]
SMESG000036117.11.480e-698.46SMESG000036117.1[more]
back to top
Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30027029 ID=SMED30027029|Name=SMED30027029|organism=Schmidtea mediterranea sexual|type=transcript|length=1138bp
CCTTGAATTATTTAAATACTTTTATCCTGTAAATTCGATGTTTTGAAATA
ACCATGATTATATAGATACTTCTATTTATCTTATAATTAATTACTAGATC
AGAAAATTCTATTATGGGAAAATCTCAAAAACCACCGACATCTGAAGGTA
CTACCCGTACAAAAGTAAGCAAATCAAAGTCAAATTTACATATTAAACAT
ATTTTTACACGTTGTTTCGGTAAGAAACGTAAAAACCGAAATAAAATCAC
TGATATTATTCAACAAAATCCAGACAAACCGATGGGCTTTAATAATCCTA
AAGGCTACTGCTACCTAAATTGTGTAATTCAAGTACTTGCATCCTGTGGC
GATTTTACAAAAGACATTGAAAATAGTGACTGCCAGCAATATTTTGTTGA
TGATATTGAGGATTCTGTTTTTGTCAAAGGTTTATTCAATTTGATTCAAG
CTTTACGAAAATCAGACAAAAAAAATCTTGATAAATCTTTGGAAACAGTT
CAGCAGTATATTACTGAGTCGTCTTTCGGAGATGACGTATACAAGTGCTT
CATGAATATATTGAGTCGGGTAAGTAAAGTGATCAAGACGAACATTGAAA
GGTCAAATGATTCCTTCAGCCTTCCGGCAACTTCTACTGAAAAGGCTAAG
CAAAATTTCGAAAAATTTAAAAATAGAAATCCTGGATTCGTTTTCGATAA
TTTTTATGGCCAGTTGACATTCCAAATGACTTGTGATATTTGTGACAATA
TTTGCAATGAGTCCTTTCAAGTGATGAAATCCATGCCCCTGGCAGTAGCG
AATTCAAAATTTCCAATACCATTAGAAAATTGTGTTAAAGCATTTTTTAG
CGATTCGCAAATTGAGGTTACGGAGCCTTTGGTAATATTTTTAATAAATA
TTTTTCTATACTTTTATTGTGTAGGATAGAAATAAATTTTATTTCTTTAT
ACACTAAATTACATTGAATGTGTAGAATAAGTAATTTAGTGTATAAAGAG
TAAATAATGAAATTCTTGACATTTCAAAATGCAGATGGTTGAATAGTTAT
AGAAATAAAATTTATTTTTGAAATGTGCATGTGAAAATGGATCAACATCG
GTAAAATCCCTTACAAAATTAACTCATGGACCAAAATA
back to top

protein sequence of SMED30027029-orf-1

>SMED30027029-orf-1 ID=SMED30027029-orf-1|Name=SMED30027029-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=272bp
MGKSQKPPTSEGTTRTKVSKSKSNLHIKHIFTRCFGKKRKNRNKITDIIQ
QNPDKPMGFNNPKGYCYLNCVIQVLASCGDFTKDIENSDCQQYFVDDIED
SVFVKGLFNLIQALRKSDKKNLDKSLETVQQYITESSFGDDVYKCFMNIL
SRVSKVIKTNIERSNDSFSLPATSTEKAKQNFEKFKNRNPGFVFDNFYGQ
LTFQMTCDICDNICNESFQVMKSMPLAVANSKFPIPLENCVKAFFSDSQI
EVTEPLVIFLINIFLYFYCVG*
back to top
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000034epidermis
PLANA:0000099neuron
PLANA:0002032epidermal cell
Vocabulary: INTERPRO
TermDefinition
IPR038765Papain-like_cys_pep_sf
IPR001394Peptidase_C19_UCH
IPR028889USP_dom
Vocabulary: biological process
TermDefinition
GO:0016579protein deubiquitination
Vocabulary: molecular function
TermDefinition
GO:0036459thiol-dependent ubiquitinyl hydrolase activity
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR001394Peptidase C19, ubiquitin carboxyl-terminal hydrolasePFAMPF00443UCHcoord: 58..202
e-value: 1.2E-7
score: 31.5
NoneNo IPR availableGENE3DG3DSA:3.90.70.10coord: 36..255
e-value: 2.4E-16
score: 61.5
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 1..22
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 1..20
IPR028889Ubiquitin specific protease domainPROSITEPS50235USP_3coord: 57..271
score: 12.065
IPR038765Papain-like cysteine peptidase superfamilySUPERFAMILYSSF54001Cysteine proteinasescoord: 54..251