SMED30029724

Overview
NameSMED30029724
Smed IDSMED30029724
Length (bp)1636
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 SMED30029724 (SMED30029724) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30029724 (SMED30029724) 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 SMED30029724 (SMED30029724) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for SMED30029724 (SMED30029724) 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



SMED30029724

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



PAGE Curations: 22

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
Smed sexual biotypeSMED30029724h1SMcG0000979 Contig40113uc_Smed_v2PMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30029724h1SMcG0000979 Contig40113newmark_estsPMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30029724h1SMcG0000979 Contig55921uc_Smed_v2PMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30029724h1SMcG0000979 Contig55921newmark_estsPMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
protonephridiaSMED30029724h1SMcG0000979 dd_Smed_v4_2180_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30029724h1SMcG0000979 dd_Smed_v4_2180_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
gutSMED30029724h1SMcG0000979 dd_Smed_v4_2180_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neoblastSMED30029724h1SMcG0000979 dd_Smed_v4_2180_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymal cellSMED30029724h1SMcG0000979 dd_Smed_v4_2180_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30029724h1SMcG0000979 Contig40113uc_Smed_v2PMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30029724h1SMcG0000979 Contig40113newmark_estsPMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30029724h1SMcG0000979 Contig55921uc_Smed_v2PMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30029724h1SMcG0000979 Contig55921newmark_estsPMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
protonephridiaSMED30029724h1SMcG0000979 dd_Smed_v4_2180_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30029724h1SMcG0000979 dd_Smed_v4_2180_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
gutSMED30029724h1SMcG0000979 dd_Smed_v4_2180_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neoblastSMED30029724h1SMcG0000979 dd_Smed_v4_2180_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymal cellSMED30029724h1SMcG0000979 dd_Smed_v4_2180_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30029724h1SMcG0000979 dd_Smed_v4_2180_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017		whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30029724h1SMcG0000979 dd_Smed_v4_2858_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017		whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30029724h1SMcG0000979 dd_Smed_v4_2180_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017		whole organism asexual adult single-cell RNA-sequencing evidence
epidermisSMED30029724h1SMcG0000979 dd_Smed_v4_2858_0_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
SMED30029724 aligns in the following genomic locations:
Alignment LocationAlignment Score
v31.016130:4374..7614 +8013
Homology
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BLAST of SMED30029724 vs. Ensembl Celegans
Match: lron-1 (ELRR (Extracellular Leucine-Rich Repeat) ONly [Source:UniProtKB/TrEMBL;Acc:Q93377])

HSP 1 Score: 50.0618 bits (118), Expect = 3.660e-6
Identity = 40/136 (29.41%), Postives = 61/136 (44.85%), Query Frame = 2 
Query:  788 ITVLERQIFGHFENLETLDLSFNKLEWFNFDLMSSLCRESIRNLYLNDNRLRTLSSNVIDFQNM----NPSHVDINLSNNQWHCDNELIWMKH----NMEYIRTES----IKCYTPLKFKDLTLNQIPKRFLRQTS 1159
            IT +    F +   L  LDLS N +   +    S L    + +L L+ NRL +L SNVI    M    +P    +++ NN W CD +L+W++     N +     S     KC+TP     L L Q   +   +T+
Sbjct:  354 ITRISHDTFSNLPELSELDLSGNSINAVDDFAFSQL--PMLTSLDLSSNRLESLPSNVIYDSLMQKKTSPVQRKLSIQNNPWRCDKDLMWLRKWLRDNGDVTTAASNSPPAKCWTPSNLSGLDLRQTDSKLPHKTT 487
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BLAST of SMED30029724 vs. Ensembl Cavefish
Match: ENSAMXT00000045116.1 (pep primary_assembly:Astyanax_mexicanus-2.0:24:41663721:41672634:1 gene:ENSAMXG00000039476.1 transcript:ENSAMXT00000045116.1 gene_biotype:protein_coding transcript_biotype:protein_coding)

HSP 1 Score: 49.6766 bits (117), Expect = 4.578e-6
Identity = 36/130 (27.69%), Postives = 60/130 (46.15%), Query Frame = 2 
Query:  812 FGHFENLETLDLSFNKLEWFNFDLMSSLCRESIRNLYLNDNRLRTLSSNVIDFQNMNPSHV--DINLSNNQWHCDNELIWMKHNMEYI-----RTESIKCYTPLKFKDLTLNQIPKRFLRQTSDSSAPDS 1180
            F     L+ LDLSFN L+     L+  L  +++  L L  N++ TL  +V++     P  V   + L  N W+C   +I  KH +E++       +SI+C  P   +   L ++P    R  S    P++
Sbjct:  121 FHSLTQLQHLDLSFNSLDSLPLGLLDGL--QALVWLSLAGNKIGTLQRSVLE-----PLTVLQHLQLEENNWNCSCSIIPFKHWLEWMLYRGGHVDSIQCSLPAILRGRDLRRVPMEMFRHCSQLPIPET 243
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BLAST of SMED30029724 vs. Ensembl Cavefish
Match: lrrc3 (leucine rich repeat containing 3 [Source:NCBI gene;Acc:100001372])

HSP 1 Score: 48.1358 bits (113), Expect = 9.451e-6
Identity = 31/84 (36.90%), Postives = 41/84 (48.81%), Query Frame = 2 
Query:  788 ITVLERQIFGHFENLETLDLSFNKLEWFNFDLMSSLCRESIRNLYLNDNRLRTLSSNVIDFQNMNPSHVDINLSNNQWHCDNEL 1039
            IT +  Q F     L+ LDLS N +E  +      +  ES+R L L+ NRLR L      F  +   H  I L+NN WHC+  L
Sbjct:   82 ITKIPSQAFKELPRLQELDLSRNAIETLDAGAFQGI-SESLRVLDLSHNRLRELPKEA--FARL---HAKIGLANNPWHCECTL 159
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BLAST of SMED30029724 vs. Ensembl Medaka
Match: lrtm2a (leucine-rich repeat and transmembrane domain-containing protein 2 [Source:NCBI gene;Acc:101172780])

HSP 1 Score: 52.7582 bits (125), Expect = 5.819e-7
Identity = 36/122 (29.51%), Postives = 62/122 (50.82%), Query Frame = 2 
Query:  788 ITVLERQIFGHFENLETLDLSFNKLEWFNFDLMSSLCRESIRNLYLNDNRLRTLSSNVIDFQNM-NPSHVDINLSNNQWHCDNELIWMKHNMEYI-----RTESIKCYTPLKFKDLTLNQIP 1135
            +TV++R++F    +L++LDLS N L      L+  L  + +R L L  NRL  L      F+ + N  H++  L +N W CD  L   KH ME++     + ++++C  P   +   +  +P
Sbjct:  135 LTVMDRELFQGLASLQSLDLSLNGLSTVPLGLLDEL--QKLRWLSLAGNRLHGLERAA--FEPLANLQHLE--LGHNPWECDCNLRDFKHWMEWLLYRGGKVDAMECTLPKDLRGRDIRGVP 250
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BLAST of SMED30029724 vs. Planmine SMEST
Match: SMESG000074766.1 (SMESG000074766.1)

HSP 1 Score: 682.945 bits (1761), Expect = 0.000e+0
Identity = 426/427 (99.77%), Postives = 426/427 (99.77%), Query Frame = 2 
Query:  116 MLFYAIHLIFFINFIYGNELNSTHCNRYEIINKRCLVDCISSKSFTSDHLIPFKTCQISLYFQTKSVLGYDLNSEYFQGNYSTFIIDKISWQHICIRKIEKNFLQHLFTDDESKIKLFWSLTVSNSYCLYELNDFTFQPTTHLKFLDLSFNHLRRISDNAFSGXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXXGNSIVNIEHSAXXXXXXXXXXXXXXXXITVLERQIFGHFENLETLDLSFNKLEWFNFDLMSSLCRESIRNLYLNDNRLRTLSSNVIDFQNMNPSHVDINLSNNQWHCDNELIWMKHNMEYIRTESIKCYTPLKFKDLTLNQIPKRFLRQTSDSSAPDSVNELSLKDEXXXXXXXXXXXXXXXXXXFLGYRYRWCRYVXXXXXXXXXXXLVERNSDDNTQLYMIMKEGDKV 1396
            MLFY IHLIFFINFIYGNELNSTHCNRYEIINKRCLVDCISSKSFTSDHLIPFKTCQISLYFQTKSVLGYDLNSEYFQGNYSTFIIDKISWQHICIRKIEKNFLQHLFTDDESKIKLFWSLTVSNSYCLYELNDFTFQPTTHLKFLDLSFNHLRRISDNAFSGLDILEILNLNNNNLIYISNKLFSSLKSLKFLELSGNSIVNIEHSAFRFLTRLKLLKLNRNNITVLERQIFGHFENLETLDLSFNKLEWFNFDLMSSLCRESIRNLYLNDNRLRTLSSNVIDFQNMNPSHVDINLSNNQWHCDNELIWMKHNMEYIRTESIKCYTPLKFKDLTLNQIPKRFLRQTSDSSAPDSVNELSLKDEIIGVIVSVCSVVLILGILFLGYRYRWCRYVKICKFAKKKFKLVERNSDDNTQLYMIMKEGDKV
Sbjct:    1 MLFYTIHLIFFINFIYGNELNSTHCNRYEIINKRCLVDCISSKSFTSDHLIPFKTCQISLYFQTKSVLGYDLNSEYFQGNYSTFIIDKISWQHICIRKIEKNFLQHLFTDDESKIKLFWSLTVSNSYCLYELNDFTFQPTTHLKFLDLSFNHLRRISDNAFSGLDILEILNLNNNNLIYISNKLFSSLKSLKFLELSGNSIVNIEHSAFRFLTRLKLLKLNRNNITVLERQIFGHFENLETLDLSFNKLEWFNFDLMSSLCRESIRNLYLNDNRLRTLSSNVIDFQNMNPSHVDINLSNNQWHCDNELIWMKHNMEYIRTESIKCYTPLKFKDLTLNQIPKRFLRQTSDSSAPDSVNELSLKDEIIGVIVSVCSVVLILGILFLGYRYRWCRYVKICKFAKKKFKLVERNSDDNTQLYMIMKEGDKV 427
The following BLAST results are available for this feature:
BLAST of SMED30029724 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 SMED30029724 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 1
Match NameE-valueIdentityDescription
lron-13.660e-629.41ELRR (Extracellular Leucine-Rich Repeat) ONly [So... [more]
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BLAST of SMED30029724 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 SMED30029724 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 SMED30029724 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 SMED30029724 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 SMED30029724 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 SMED30029724 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of SMED30029724 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 2
Match NameE-valueIdentityDescription
ENSAMXT00000045116.14.578e-627.69pep primary_assembly:Astyanax_mexicanus-2.0:24:416... [more]
lrrc39.451e-636.90leucine rich repeat containing 3 [Source:NCBI gene... [more]
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BLAST of SMED30029724 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 SMED30029724 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 SMED30029724 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 SMED30029724 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 1
Match NameE-valueIdentityDescription
lrtm2a5.819e-729.51leucine-rich repeat and transmembrane domain-conta... [more]
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BLAST of SMED30029724 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 1
Match NameE-valueIdentityDescription
SMESG000074766.10.000e+099.77SMESG000074766.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30029724 ID=SMED30029724|Name=SMED30029724|organism=Schmidtea mediterranea sexual|type=transcript|length=1636bp
GGTGTGTAAAGTTTAAAGTTTATAATTATATTTTTATATTTATTATTTCA
CTATATCACTCATGAAAGTAGATTTCCACCAGAAGAATCATATTTGAAGT
ATGAAAATTTTAATTATGCTCTTTTATGCTATTCATCTGATATTCTTCAT
TAACTTTATTTATGGCAATGAACTAAACTCTACACACTGTAATAGATATG
AAATTATCAATAAAAGATGCTTAGTGGATTGTATAAGTTCTAAAAGTTTT
ACTTCAGATCATTTAATTCCATTCAAGACTTGTCAGATTTCATTGTATTT
TCAAACAAAATCTGTATTAGGTTACGATTTGAATAGTGAATATTTTCAAG
GTAATTATTCAACCTTTATCATTGACAAAATTAGCTGGCAGCATATTTGC
ATTCGAAAAATTGAAAAGAATTTCCTTCAACATTTATTTACTGACGATGA
ATCAAAAATTAAATTATTCTGGAGTTTAACAGTTTCGAATAGTTATTGCT
TATATGAATTGAATGATTTTACTTTTCAACCAACTACACATTTAAAGTTT
TTAGATCTTAGTTTTAATCACCTCCGACGAATATCTGATAATGCTTTTTC
TGGATTAGATATTTTGGAAATATTGAATCTCAACAATAACAATCTAATTT
ATATAAGTAATAAATTGTTCTCATCTTTAAAATCTTTAAAATTTCTTGAA
TTGTCCGGCAATTCAATTGTTAATATTGAGCATTCGGCATTCCGGTTTTT
AACACGACTGAAACTGTTGAAGTTAAATCGGAATAATATCACTGTTTTGG
AGCGTCAGATATTTGGGCATTTCGAAAATCTCGAAACTTTAGATCTGTCA
TTTAATAAGTTGGAGTGGTTTAATTTTGACTTAATGTCTTCATTGTGTCG
AGAGTCTATTAGGAATTTATATTTGAATGATAATCGATTGAGAACCCTTT
CTTCTAATGTTATTGATTTCCAAAATATGAATCCATCTCACGTCGATATA
AATTTGTCAAACAATCAATGGCATTGCGACAATGAACTGATTTGGATGAA
GCACAACATGGAATACATTCGAACCGAATCGATTAAGTGTTATACGCCTT
TGAAATTCAAAGATTTAACATTAAACCAAATTCCAAAAAGATTTCTCAGG
CAAACCTCAGACAGTTCCGCTCCAGATTCGGTAAACGAATTATCACTAAA
AGATGAAATCATTGGTGTCATCGTGTCGGTTTGCAGTGTTGTACTGATTT
TAGGCATTTTATTTCTAGGATATCGCTATCGTTGGTGTAGATATGTCAAA
ATATGTAAATTTGCAAAAAAGAAGTTCAAATTAGTGGAACGCAATTCTGA
TGACAACACTCAATTGTATATGATAATGAAGGAGGGCGATAAAGTTTAAA
GCATATCATGGCATGATTAGTATTTGGGATTATTTTTTACTCATTTCAGT
TGACAACCTTTTATCTAGATTTTTGTTTATTTGTTTGTTTTAATGCATTC
TTATTAATTTTTATTGCAAATTCATATATACTAAAATTCTATTCACTGAA
TTGACATTCTTTATTCACCTTTCTCGATTATTAAAGTATAAATTTATAAT
TGTTTTTATATTGTTTTTATTGTTGTAATAGTGAAA
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protein sequence of SMED30029724-orf-1

>SMED30029724-orf-1 ID=SMED30029724-orf-1|Name=SMED30029724-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=433bp
MKILIMLFYAIHLIFFINFIYGNELNSTHCNRYEIINKRCLVDCISSKSF
TSDHLIPFKTCQISLYFQTKSVLGYDLNSEYFQGNYSTFIIDKISWQHIC
IRKIEKNFLQHLFTDDESKIKLFWSLTVSNSYCLYELNDFTFQPTTHLKF
LDLSFNHLRRISDNAFSGLDILEILNLNNNNLIYISNKLFSSLKSLKFLE
LSGNSIVNIEHSAFRFLTRLKLLKLNRNNITVLERQIFGHFENLETLDLS
FNKLEWFNFDLMSSLCRESIRNLYLNDNRLRTLSSNVIDFQNMNPSHVDI
NLSNNQWHCDNELIWMKHNMEYIRTESIKCYTPLKFKDLTLNQIPKRFLR
QTSDSSAPDSVNELSLKDEIIGVIVSVCSVVLILGILFLGYRYRWCRYVK
ICKFAKKKFKLVERNSDDNTQLYMIMKEGDKV*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000101muscle cell
PLANA:0003001lateral region of the whole animal
Vocabulary: INTERPRO
TermDefinition
IPR003591Leu-rich_rpt_typical-subtyp
IPR001611Leu-rich_rpt
IPR032675LRR_dom_sf
Vocabulary: molecular function
TermDefinition
GO:0005515protein binding
Vocabulary: cellular component
TermDefinition
GO:0016020membrane
GO:0016021integral component of membrane
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR003591Leucine-rich repeat, typical subtypeSMARTSM00369LRR_typ_2coord: 217..240
e-value: 0.014
score: 24.6
coord: 145..168
e-value: 0.11
score: 21.7
coord: 169..192
e-value: 7.0
score: 14.5
coord: 241..264
e-value: 92.0
score: 5.4
coord: 268..290
e-value: 180.0
score: 3.0
coord: 193..216
e-value: 1.3
score: 18.0
IPR001611Leucine-rich repeatPFAMPF13855LRR_8coord: 147..206
e-value: 4.9E-13
score: 48.6
IPR001611Leucine-rich repeatPROSITEPS51450LRRcoord: 243..266
score: 6.241
IPR001611Leucine-rich repeatPROSITEPS51450LRRcoord: 195..216
score: 7.127
IPR001611Leucine-rich repeatPROSITEPS51450LRRcoord: 147..168
score: 7.851
IPR001611Leucine-rich repeatPROSITEPS51450LRRcoord: 171..192
score: 6.757
IPR001611Leucine-rich repeatPROSITEPS51450LRRcoord: 269..290
score: 5.379
IPR001611Leucine-rich repeatPROSITEPS51450LRRcoord: 219..240
score: 5.433
IPR032675Leucine-rich repeat domain superfamilyGENE3DG3DSA:3.80.10.10coord: 93..358
e-value: 1.7E-41
score: 143.7
NoneNo IPR availablePANTHERPTHR24373SLIT RELATED LEUCINE-RICH REPEAT NEURONAL PROTEINcoord: 135..350
NoneNo IPR availableSUPERFAMILYSSF52058L domain-likecoord: 124..341
NoneNo IPR availableTMHMMTMhelixcoord: 371..393