BZIP domain-containing protein

Overview
NameBZIP domain-containing protein
Smed IDSMED30028898
Length (bp)866
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 BZIP domain-containing protein (SMED30028898) t-SNE clustered cells

Violin plots show distribution of expression levels for BZIP domain-containing protein (SMED30028898) 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 BZIP domain-containing protein (SMED30028898) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for BZIP domain-containing protein (SMED30028898) 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




SMED30028898

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



PAGE Curations: 15

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
intestinal phagocyteSMED30028898SMESG000067543.1 Contig3010GPL15192PMID:23079596
Forsthoefel et al., 2012
FACS sorted cell population asexual adult cDNA to DNA expression microarray evidence
pharynxSMED30028898SMESG000067543.1 dd_Smed_v4_1399_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30028898SMESG000067543.1 dd_Smed_v4_1399_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30028898SMESG000067543.1 dd_Smed_v4_1399_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymaSMED30028898SMESG000067543.1 dd_Smed_v4_1399_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
gutSMED30028898SMESG000067543.1 dd_Smed_v4_1399_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30028898SMESG000067543.1 dd_Smed_v4_1399_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neuronSMED30028898SMESG000067543.1 dd_Smed_v4_1399_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
whole organism asexual adult colorimetric in situ hybridization evidence
muscle cellSMED30028898SMESG000067543.1 dd_Smed_v4_1399_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neoblastSMED30028898SMESG000067543.1 dd_Smed_v4_1399_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
parenchymal cellSMED30028898SMESG000067543.1 dd_Smed_v4_1399_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30028898SMESG000080770.1 SMESG000067543.1 SMESG000065333.1 SMESG000059844.1 SMESG000058646.1 SMESG000055266.1 SMESG000054970.1 SMESG000052813.1 SMESG000043147.1 SMESG000037745.1 SMESG000037601.1 SMESG000036070.1 SMESG000034880.1 SMESG000034368.1 SMESG000031415.1 SMESG000019663.1 SMESG000010897.1 SMESG000009005.1 SMESG000005029.1 SMESG000003989.1 SMESG000077800.1 SMESG000054046.1 SMESG000052058.1 Contig36680newmark_estsPMID:29674431
Fincher et al., 2018
FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30028898SMESG000080770.1 SMESG000067543.1 SMESG000065333.1 SMESG000059844.1 SMESG000058646.1 SMESG000055266.1 SMESG000054970.1 SMESG000052813.1 SMESG000043147.1 SMESG000037745.1 SMESG000037601.1 SMESG000036070.1 SMESG000034880.1 SMESG000034368.1 SMESG000031415.1 SMESG000019663.1 SMESG000010897.1 SMESG000009005.1 SMESG000005029.1 SMESG000003989.1 SMESG000077800.1 SMESG000054046.1 SMESG000052058.1 Contig36680uc_Smed_v2PMID:29674431
Fincher et al., 2018
FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
pharynxSMED30028898SMESG000067543.1 dd_Smed_v6_1399_0dd_Smed_v6PMID:29674432
Plass et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
pigment cellSMED30028898SMESG000067543.1 dd_Smed_v6_1399_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
Homology
BLAST of BZIP domain-containing protein vs. TrEMBL
Match: I1ZIA7 (BZIP domain-containing protein OS=Schmidtea mediterranea OX=79327 PE=2 SV=1)

HSP 1 Score: 103.99 bits (258), Expect = 8.609e-25
Identity = 69/69 (100.00%), Postives = 69/69 (100.00%), Query Frame = 1
Query:  583 MILKDRFKRDQXXXXXXXXXXXXXXXFQQMKEESDSLEVENRKLERKIMQINDMIKKYQRKLNESFHKK 789
            MILKDRFKRDQNNESSKKSRANRKRKFQQMKEESDSLEVENRKLERKIMQINDMIKKYQRKLNESFHKK
Sbjct:    1 MILKDRFKRDQNNESSKKSRANRKRKFQQMKEESDSLEVENRKLERKIMQINDMIKKYQRKLNESFHKK 69          
BLAST of BZIP domain-containing protein vs. Planmine SMEST
Match: SMESG000067543.1 (SMESG000067543.1)

HSP 1 Score: 380.178 bits (975), Expect = 2.724e-131
Identity = 245/248 (98.79%), Postives = 247/248 (99.60%), Query Frame = 1
Query:   46 RLFSFKLSSNSHCSYSKTKIFSQWHKVDYPKRYRLSNTDYTQPLAETCVSGISPNSGVPCGXXXXXXXXXXXENLDFGLPFDNDXXXXXXXXXXXXXXXXXXXXXXXXXFFDDRNEFSNISVNTDNDFNSKSKISNVDRGISLFEDHLQYLKEQDQLLSFSETIIADNTTDQLNNTDLHMILKDRFKRDQXXXXXXXXXXXXXXXFQQMKEESDSLEVENRKLERKIMQINDMIKKYQRKLNESFHKK 789
            RLFSFKLSSNSHCSYSKTKIFSQWHKVDYPKRYRLSNTDYTQPLAETCVSGISPNS VPCGQFNNQFNSNFSENLDFGLPFDNDIEILSFNFSSSSDSSINCNIDYNINFFD+RNEF+NISVNTDNDFNSKSKISNVDRGISLFEDHLQYLKEQDQLLSFSETIIADNTTDQLNNTDLHMILKDRFKRDQNNESSKKSRANRKRKFQQMKEESDSLEVENRKLERKIMQINDMIKKYQRKLNESFHKK
Sbjct:  196 RLFSFKLSSNSHCSYSKTKIFSQWHKVDYPKRYRLSNTDYTQPLAETCVSGISPNSAVPCGQFNNQFNSNFSENLDFGLPFDNDIEILSFNFSSSSDSSINCNIDYNINFFDNRNEFANISVNTDNDFNSKSKISNVDRGISLFEDHLQYLKEQDQLLSFSETIIADNTTDQLNNTDLHMILKDRFKRDQNNESSKKSRANRKRKFQQMKEESDSLEVENRKLERKIMQINDMIKKYQRKLNESFHKK 443          
BLAST of BZIP domain-containing protein vs. Planmine SMEST
Match: SMESG000067543.1 (SMESG000067543.1)

HSP 1 Score: 380.563 bits (976), Expect = 6.248e-131
Identity = 245/248 (98.79%), Postives = 247/248 (99.60%), Query Frame = 1
Query:   46 RLFSFKLSSNSHCSYSKTKIFSQWHKVDYPKRYRLSNTDYTQPLAETCVSGISPNSGVPCGXXXXXXXXXXXENLDFGLPFDNDXXXXXXXXXXXXXXXXXXXXXXXXXFFDDRNEFSNISVNTDNDFNSKSKISNVDRGISLFEDHLQYLKEQDQLLSFSETIIADNTTDQLNNTDLHMILKDRFKRDQXXXXXXXXXXXXXXXFQQMKEESDSLEVENRKLERKIMQINDMIKKYQRKLNESFHKK 789
            RLFSFKLSSNSHCSYSKTKIFSQWHKVDYPKRYRLSNTDYTQPLAETCVSGISPNS VPCGQFNNQFNSNFSENLDFGLPFDNDIEILSFNFSSSSDSSINCNIDYNINFFD+RNEF+NISVNTDNDFNSKSKISNVDRGISLFEDHLQYLKEQDQLLSFSETIIADNTTDQLNNTDLHMILKDRFKRDQNNESSKKSRANRKRKFQQMKEESDSLEVENRKLERKIMQINDMIKKYQRKLNESFHKK
Sbjct:  232 RLFSFKLSSNSHCSYSKTKIFSQWHKVDYPKRYRLSNTDYTQPLAETCVSGISPNSAVPCGQFNNQFNSNFSENLDFGLPFDNDIEILSFNFSSSSDSSINCNIDYNINFFDNRNEFANISVNTDNDFNSKSKISNVDRGISLFEDHLQYLKEQDQLLSFSETIIADNTTDQLNNTDLHMILKDRFKRDQNNESSKKSRANRKRKFQQMKEESDSLEVENRKLERKIMQINDMIKKYQRKLNESFHKK 479          
BLAST of BZIP domain-containing protein vs. Planmine SMEST
Match: SMESG000067543.1 (SMESG000067543.1)

HSP 1 Score: 338.191 bits (866), Expect = 4.261e-115
Identity = 228/248 (91.94%), Postives = 231/248 (93.15%), Query Frame = 1
Query:   46 RLFSFKLSSNSHCSYSKTKIFSQWHKVDYPKRYRLSNTDYTQPLAETCVSGISPNSGVPCGXXXXXXXXXXXENLDFGLPFDNDXXXXXXXXXXXXXXXXXXXXXXXXXFFDDRNEFSNISVNTDNDFNSKSKISNVDRGISLFEDHLQYLKEQDQLLSFSETIIADNTTDQLNNTDLHMILKDRFKRDQXXXXXXXXXXXXXXXFQQMKEESDSLEVENRKLERKIMQINDMIKKYQRKLNESFHKK 789
            RLFSFKLSSNSHCSYSKTKIFSQWHKVDYPKRYRLSNTDYTQPLAETCVSGISPNS VPCGQFNNQFNSNFSENLDFGLPFDNDIEILSFNFSSSSDSSINCNIDYNINFFD+RNEF+NISVNTDNDFN                +HLQYLKEQDQLLSFSETIIADNTTDQLNNTDLHMILKDRFKRDQNNESSKKSRANRKRKFQQMKEESDSLEVENRKLERKIMQINDMIKKYQRKLNESFHKK
Sbjct:  196 RLFSFKLSSNSHCSYSKTKIFSQWHKVDYPKRYRLSNTDYTQPLAETCVSGISPNSAVPCGQFNNQFNSNFSENLDFGLPFDNDIEILSFNFSSSSDSSINCNIDYNINFFDNRNEFANISVNTDNDFN----------------NHLQYLKEQDQLLSFSETIIADNTTDQLNNTDLHMILKDRFKRDQNNESSKKSRANRKRKFQQMKEESDSLEVENRKLERKIMQINDMIKKYQRKLNESFHKK 427          
The following BLAST results are available for this feature:
BLAST of BZIP domain-containing protein 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 BZIP domain-containing protein 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 BZIP domain-containing protein 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 BZIP domain-containing protein 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 BZIP domain-containing protein 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 BZIP domain-containing protein 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 BZIP domain-containing protein 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 BZIP domain-containing protein vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 1
Match NameE-valueIdentityDescription
I1ZIA78.609e-25100.00BZIP domain-containing protein OS=Schmidtea medite... [more]
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BLAST of BZIP domain-containing protein 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 BZIP domain-containing protein 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 BZIP domain-containing protein 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 BZIP domain-containing protein 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 BZIP domain-containing protein 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 BZIP domain-containing protein vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 3
Match NameE-valueIdentityDescription
SMESG000067543.12.724e-13198.79SMESG000067543.1[more]
SMESG000067543.16.248e-13198.79SMESG000067543.1[more]
SMESG000067543.14.261e-11591.94SMESG000067543.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30028898 ID=SMED30028898|Name=BZIP domain-containing protein|organism=Schmidtea mediterranea sexual|type=transcript|length=866bp
GGTGGGTTCAATTATAATTTATTTTTTAAAATTATTTTTTATTCTAGGTT
ATTTTCATTTAAATTGTCATCAAACTCCCATTGTAGTTATTCAAAAACTA
AAATATTCTCACAATGGCACAAAGTAGACTATCCGAAAAGATATCGCTTG
TCAAATACCGATTACACTCAACCTCTGGCGGAAACATGTGTCAGCGGTAT
ATCTCCGAATTCGGGAGTTCCATGTGGCCAATTTAACAATCAATTTAATT
CAAACTTCTCAGAAAATTTGGACTTTGGCTTACCTTTTGACAATGACATT
GAAATACTTTCGTTTAATTTTTCTTCATCTTCCGATTCATCAATTAATTG
CAATATCGACTATAATATTAATTTCTTTGATGATAGAAATGAGTTTTCGA
ACATAAGTGTTAATACTGATAATGATTTTAATAGTAAGTCCAAAATATCG
AATGTAGATAGAGGAATTAGTCTTTTTGAAGATCATTTGCAGTATTTGAA
AGAACAAGATCAACTGCTTTCATTTTCAGAAACAATAATTGCCGATAATA
CTACTGATCAGTTAAATAATACAGATTTGCATATGATATTGAAAGATCGT
TTTAAAAGAGATCAAAATAATGAATCGTCTAAAAAATCTCGAGCGAATAG
AAAAAGAAAATTCCAGCAGATGAAAGAAGAAAGTGACTCGTTAGAAGTTG
AAAATAGAAAATTAGAAAGAAAAATTATGCAAATCAACGATATGATAAAG
AAATATCAGAGGAAATTGAACGAATCATTTCATAAGAAATAAATAATGTC
TGTGAATATGTTCTGTAGTATATAATTTTTCTAGCATATTTGTGTTGTAT
TTGATATTGTGATGAA
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protein sequence of SMED30028898-orf-1

>SMED30028898-orf-1 ID=SMED30028898-orf-1|Name=SMED30028898-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=264bp
GGFNYNLFFKIIFYSRLFSFKLSSNSHCSYSKTKIFSQWHKVDYPKRYRL
SNTDYTQPLAETCVSGISPNSGVPCGQFNNQFNSNFSENLDFGLPFDNDI
EILSFNFSSSSDSSINCNIDYNINFFDDRNEFSNISVNTDNDFNSKSKIS
NVDRGISLFEDHLQYLKEQDQLLSFSETIIADNTTDQLNNTDLHMILKDR
FKRDQNNESSKKSRANRKRKFQQMKEESDSLEVENRKLERKIMQINDMIK
KYQRKLNESFHKK*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000016pharynx
PLANA:0000026gut
PLANA:0000070intestinal phagocyte
PLANA:0000099neuron
PLANA:0002032epidermal cell
PLANA:0002075pigment cell
PLANA:0003116parenchymal cell
Vocabulary: INTERPRO
TermDefinition
IPR004827bZIP
Vocabulary: molecular function
TermDefinition
GO:0003700transcription factor activity, sequence-specific DNA binding
GO:0043565sequence-specific DNA binding
Vocabulary: biological process
TermDefinition
GO:0006355regulation of transcription, DNA-templated
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availableCOILSCoilCoilcoord: 212..253
NoneNo IPR availableGENE3DG3DSA:1.20.5.170coord: 196..251
e-value: 5.8E-8
score: 34.8
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 200..231
NoneNo IPR availableSUPERFAMILYSSF57959Leucine zipper domaincoord: 198..247
IPR004827Basic-leucine zipper domainPFAMPF07716bZIP_2coord: 197..243
e-value: 8.1E-6
score: 25.8
IPR004827Basic-leucine zipper domainPROSITEPS50217BZIPcoord: 194..257
score: 8.668