Baculoviral IAP repeat-containing protein 2

Overview
NameBaculoviral IAP repeat-containing protein 2
Smed IDSMED30002385
Length (bp)1653
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 Baculoviral IAP repeat-containing protein 2 (SMED30002385) t-SNE clustered cells

Violin plots show distribution of expression levels for Baculoviral IAP repeat-containing protein 2 (SMED30002385) 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 Baculoviral IAP repeat-containing protein 2 (SMED30002385) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for Baculoviral IAP repeat-containing protein 2 (SMED30002385) 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



SMED30002385

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
parenchymal cellSMED30002385h1SMcG0010277 dd_Smed_v4_4338_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
posterior sideSMED30002385h1SMcG0010277 dd_Smed_v4_4338_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
posterior muscle cellSMED30002385h1SMcG0010277 dd_Smed_v4_4338_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 Baculoviral IAP repeat-containing protein 2 vs. Planmine SMEST
Match: SMESG000064076.1 (SMESG000064076.1)

HSP 1 Score: 298.901 bits (764), Expect = 3.468e-106
Identity = 166/170 (97.65%), Postives = 168/170 (98.82%), Query Frame = 1 
Query:  574 DIDKNRILYEDLFNFIQNFSIYDSQFLYHIRKSICSESIGILSEMNGFRKDLLIFSSLFYYFSNHSICNIEQLLSQFWEINDKRLQDGKFLRMXXXXXXXXXXXXXXXXXXXKVRTKRNLICAECGENSVSVLYLPCGHIIMCSECHGKLKLNKCKQCSCTIDEFHNVHF 1083
            DIDKNRILYEDLFNFIQNFSIYDSQFLYHIRKSICSESIGILSEMNGFRKDLLIFSSLFYYFSNHSICNIEQLLSQFWEINDKRLQDGKFLRMIESNSRELNEL+ENISEILKVRTKRNLICAECGENSVSVLYLPCGHIIMCSECH KLK NKCKQCSCTIDEFHNV+F
Sbjct:  102 DIDKNRILYEDLFNFIQNFSIYDSQFLYHIRKSICSESIGILSEMNGFRKDLLIFSSLFYYFSNHSICNIEQLLSQFWEINDKRLQDGKFLRMIESNSRELNELKENISEILKVRTKRNLICAECGENSVSVLYLPCGHIIMCSECHRKLKFNKCKQCSCTIDEFHNVYF 271

HSP 2 Score: 106.686 bits (265), Expect = 3.468e-106
Identity = 68/86 (79.07%), Postives = 70/86 (81.40%), Query Frame = 3 
Query:  315 EEPSTSSITRVTTNSLSRNFHSFSCTGDRSVNLYRKSSLNELETIYFGLSR--------------QSHNLSMLEIQTPRNFSIESS 530
            ++PSTSSIT VTTNSLSR FHSFSCTGDRSVNLYRKSSLNELETIYFGLSR              QSHNLSMLEIQTPRNFSIESS
Sbjct:   16 KKPSTSSITTVTTNSLSRKFHSFSCTGDRSVNLYRKSSLNELETIYFGLSRNETLDAGSSKELSTQSHNLSMLEIQTPRNFSIESS 101
[Close]
BLAST of Baculoviral IAP repeat-containing protein 2 vs. Planmine SMEST
Match: SMESG000067789.1 (SMESG000067789.1)

HSP 1 Score: 71.2478 bits (173), Expect = 6.090e-14
Identity = 52/156 (33.33%), Postives = 87/156 (55.77%), Query Frame = 1 
Query:  613 NFIQNFSIYDSQFLYHIRKSICSESIGILSEMNGFRKDLLIFSSLFYYFSNHSICNIEQLLSQFWEINDKRLQDGKFLRMXXXXXXXXXXXXXXXXXXXKVRTKRNLICAECGENSVSVLYLPCGHIIMCSECHGKLKLNKCKQCSCTIDEFHNVH 1080
            +FI  +  +  + + +I K   + SI  L ++  + K +L  SS   Y     + N + L   FW+  + RL + ++ R+ +   R+ + +E+ ++E L    KR L C+ C EN VSVLYLPCGH+I+CS+C  K    KC+ CS  I+E+H ++
Sbjct:   58 DFINTYDTFTDKEIINILKIFKNPSIEYLIDIFNYDKCILKLSSYLMYLDKTGMDN-DSLNEYFWDCMELRL-NPEYSRLFKEWIRKSDFIEDKLTEKLNDVKKRYLTCSICKENQVSVLYLPCGHVIVCSKCQDK-NNRKCQACSAPINEYHAIY 210
[Close]
BLAST of Baculoviral IAP repeat-containing protein 2 vs. Planmine SMEST
Match: SMESG000032006.1 (SMESG000032006.1)

HSP 1 Score: 69.3218 bits (168), Expect = 1.757e-13
Identity = 51/162 (31.48%), Postives = 85/162 (52.47%), Query Frame = 1 
Query:  604 DLFNFIQNFSIYDSQFLYHIRKSICSESIGILSEMNGFRKDLLIFSSLFYYFSNHSICNIEQLLSQFWEINDKRLQD--GKFLRMXXXXXXXXXXXXXXXXXXXKVRTKRNLICAECGENSVSVLYLPCGHIIMCSECHGKLKLNKCKQCSCTIDEFHNVHF 1083
            ++F+F++N+ I   + +  I KS  +E + IL E  G+ + +L  +S      N    ++E++   FW+  + RL    GK ++    N   +    + IS  L   +K  L C  C  N VS+LYLPCG I++CSEC+    + KC+ C   +DE H ++F
Sbjct:   28 EIFDFLENYEILPLKTVQRIVKSFANEYVEILHEKFGYEQSVLKLASCVISI-NQIDESLERMNEIFWDCMNLRLDKSCGKIIKSWMLNIDRIVLDLKKISNKL---SKEYLTCCACQLNPVSILYLPCGDIVICSECYND-SVVKCQGCQRHVDEMHKIYF 184
[Close]
BLAST of Baculoviral IAP repeat-containing protein 2 vs. Planmine SMEST
Match: SMESG000031926.1 (SMESG000031926.1)

HSP 1 Score: 65.855 bits (159), Expect = 3.521e-12
Identity = 55/168 (32.74%), Postives = 92/168 (54.76%), Query Frame = 1 
Query:  580 DKNRILYEDLFNFIQNFSIYDSQFLYHIRKSICSESIGILSEMNGFRKDLLIFSSLFYYFSNHSICNIEQLLSQFWEINDKRLQDGKFLRMXXXXXXXXXXXXXXXXXXXKVRTKRNLICAECGENSVSVLYLPCGHIIMCSECHGKLKLNKCKQCSCTIDEFHNVHF 1083
            DK  + +  +  F+ + + +D  FL  + KS   ESI  LS++ G+   +L  SS     ++    +    L  FW   + R+  G++ ++I+     ++ L++NI++ LK  T+  L C+ C  N VSVLYLPCGHI++CS C  K    +C+ C+  IDE+H V+ 
Sbjct:   35 DKWCLTFSIIEKFLSSTNGFDLIFLNKLNKSFNHESIENLSKLFGYNHAMLKLSSCVISLNDIKPTDFNTNLV-FWSCMEFRV--GQYQKLIQYFMANVDNLQQNINDKLKEATRLFLTCSCCETNQVSVLYLPCGHIVVCSSCF-KSTTRRCESCAVDIDEYHFVYL 198
[Close]
BLAST of Baculoviral IAP repeat-containing protein 2 vs. Planmine SMEST
Match: SMESG000067788.1 (SMESG000067788.1)

HSP 1 Score: 65.4698 bits (158), Expect = 6.057e-12
Identity = 49/154 (31.82%), Postives = 73/154 (47.40%), Query Frame = 1 
Query:  622 QNFSIYDSQFLYHIRKSICSESIGILSEMNGFRKDLLIFSSLFYYFSNHSICNIEQLLSQFWEINDKRLQDGKFLRMXXXXXXXXXXXXXXXXXXXKVRTKRNLICAECGENSVSVLYLPCGHIIMCSECHGKLKLNKCKQCSCTIDEFHNVHF 1083
            +N++  +S+ L  I K   + SI    E  G+ K +L   S F    N    N E L   FW   +    DG    M E                 K R K+ L C  C +NSVS+LYLPCGH++MC++C+ ++    C+ C  +I+EFH ++ 
Sbjct:   74 RNYAKLNSKILLEILKLFKNSSIKFCHETFGYNKKILKLCS-FLMERNKVNINHENLNDYFWSFMNLSQLDGIEKEMCEIV---------------KERNKQLLTCMGCQKNSVSILYLPCGHVVMCNKCY-QISTKHCQACGSSIEEFHVIYI 210
The following BLAST results are available for this feature:
BLAST of Baculoviral IAP repeat-containing protein 2 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of Baculoviral IAP repeat-containing protein 2 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 Baculoviral IAP repeat-containing protein 2 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 Baculoviral IAP repeat-containing protein 2 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 Baculoviral IAP repeat-containing protein 2 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 Baculoviral IAP repeat-containing protein 2 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 Baculoviral IAP repeat-containing protein 2 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 Baculoviral IAP repeat-containing protein 2 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 Baculoviral IAP repeat-containing protein 2 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 Baculoviral IAP repeat-containing protein 2 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 Baculoviral IAP repeat-containing protein 2 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 Baculoviral IAP repeat-containing protein 2 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 Baculoviral IAP repeat-containing protein 2 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 Baculoviral IAP repeat-containing protein 2 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 5
Match NameE-valueIdentityDescription
SMESG000064076.13.468e-10697.65SMESG000064076.1[more]
SMESG000067789.16.090e-1433.33SMESG000067789.1[more]
SMESG000032006.11.757e-1331.48SMESG000032006.1[more]
SMESG000031926.13.521e-1232.74SMESG000031926.1[more]
SMESG000067788.16.057e-1231.82SMESG000067788.1[more]
back to top
Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30002385 ID=SMED30002385|Name=Baculoviral IAP repeat-containing protein 2|organism=Schmidtea mediterranea sexual|type=transcript|length=1653bp
TTTTGTAATCTGACAACTACTCTTTGTACATTTCAACTTTCTACAACGGC
AACTAGTTAAAGTTAAAACTTAGTTAAAATCGAATTGAACAATGAATAAG
ATCAAATTTCAAATGGATATGCACTAAATGCTTCTTCTCGCTTTGCTAGT
TGGTGTAACATTTTAGAACAAGTTTGAATTAAATTGTTTCAGATTAAAGG
CTTCATCATTGCAAAATGAAAAAATCTTTCAAAACTTTCTTAAGTAAATT
GTCTCGAAAGAAAAGTAAAAGATCATTGATATATAACTACAATTTAGACA
ATATTGTTATAACTGAAGAACCTTCAACAAGTTCTATCACAAGAGTAACA
ACCAATTCGTTGTCGAGAAATTTTCACAGTTTCAGCTGCACCGGCGACAG
ATCAGTGAATCTCTATCGAAAGAGTTCATTAAATGAGTTGGAGACAATTT
ACTTTGGCTTATCCAGACAAAGTCATAACCTGTCGATGTTGGAAATTCAG
ACTCCGAGAAACTTTTCTATTGAATCCTCAGTAAATTAATACAATTTTTA
AATTGAAAATGTTATTGGTACAGGACATTGATAAAAATCGGATTTTGTAC
GAAGATTTGTTTAATTTCATACAGAACTTTTCTATTTACGACTCCCAATT
TCTTTATCACATTCGTAAATCCATTTGCAGTGAGTCCATTGGCATTCTTT
CTGAAATGAACGGTTTTAGAAAAGATTTACTAATATTTTCTTCTTTATTC
TATTATTTTTCAAACCATTCAATTTGCAATATCGAACAATTGCTTTCACA
ATTTTGGGAAATCAACGATAAAAGACTTCAAGACGGAAAGTTTTTAAGGA
TGATTGAATCGAATTCTCGTGAGTTGAATGAGTTGGAGGAAAATATTTCA
GAAATTCTCAAAGTTCGTACAAAACGTAATTTGATTTGTGCTGAATGTGG
TGAAAATTCTGTGTCCGTTTTGTATCTGCCCTGTGGACATATAATAATGT
GCTCTGAATGTCATGGGAAATTAAAGCTTAATAAATGTAAACAATGTAGT
TGTACGATTGATGAATTTCATAACGTTCATTTTTAAATCTAAATTTGTAA
TAAAGTATTGTGTTAATATTTCTTTGGTTTATAATGACTGTCATTATTGA
TTATTTGTGAATATAACCGATATTATTGTTTAAGATGCTTTGAACTTTAA
TTGATGATAATTTAATTTCCGGTGTGATTTCATCTGGGTTGCTCATGAAA
TTTACTGTTTCTTGAAGTTGCACAAAATATAGTAAAATCACTAAAATTAT
TCGAGGTGATGAAAATCAATTTAAAAGTGAATTAAATAGCAGATTGAAGA
TATCGTACTGGGAAAATCGAGGTTATGTAAATTTGTATACTCTAAATTAT
GTTGCTAAATCAATTTTCCAGGTTTGCTACTCTTAGCTACAATGTTTAGG
TTAATTTGACTGAAAGTTGTCTTAGTTTATATTGTAAAACTTTTTATTTT
TGACATTTAAAGTGAGATTTTCCTGCACCTAATGACGCCTCGTGTCAATT
ATTATTATTGTTTTTGTTTTGACACTTCAGGTGTCTTTTCACAAATTGTT
ACTTAATGTGCTTTTTTAAAAAAAACAATTTTTATAGATATCCCCTAGAG
CAC
back to top

protein sequence of SMED30002385-orf-1

>SMED30002385-orf-1 ID=SMED30002385-orf-1|Name=SMED30002385-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=176bp
MLLVQDIDKNRILYEDLFNFIQNFSIYDSQFLYHIRKSICSESIGILSEM
NGFRKDLLIFSSLFYYFSNHSICNIEQLLSQFWEINDKRLQDGKFLRMIE
SNSRELNELEENISEILKVRTKRNLICAECGENSVSVLYLPCGHIIMCSE
CHGKLKLNKCKQCSCTIDEFHNVHF*
back to top

protein sequence of SMED30002385-orf-2

>SMED30002385-orf-2 ID=SMED30002385-orf-2|Name=SMED30002385-orf-2|organism=Schmidtea mediterranea sexual|type=polypeptide|length=108bp
MKKSFKTFLSKLSRKKSKRSLIYNYNLDNIVITEEPSTSSITRVTTNSLS
RNFHSFSCTGDRSVNLYRKSSLNELETIYFGLSRQSHNLSMLEIQTPRNF
SIESSVN*
back to top
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000101muscle cell
PLANA:0000142posterior region of the whole animal
PLANA:0003116parenchymal cell
Vocabulary: INTERPRO
TermDefinition
IPR017066E3ligase_BOI-like
IPR013083Znf_RING/FYVE/PHD
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availableCOILSCoilCoilcoord: 99..119
NoneNo IPR availablePFAMPF13920zf-C3HC4_3coord: 124..169
e-value: 3.3E-8
score: 33.3
IPR017066E3 ubiquitin-protein ligase BOI-likePIRSFPIRSF036836SBP1_RNase_bindcoord: 76..175
e-value: 3.6E-8
score: 31.1
IPR013083Zinc finger, RING/FYVE/PHD-typeGENE3DG3DSA:3.30.40.10coord: 104..175
e-value: 8.5E-10
score: 39.8