Chromo domain-containing protein
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Overview
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 progeniesWe 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
Sub-lethal Irradiated Surviving X1 and X2 Cell Population
Embryonic Expression
Davies et. al., 2017
Hover the mouse over a column in the graph to view average RPKM values per sample. Embryonic Stages: Y: yolk. S2-S8: Stages 2-8. C4: asexual adult. SX: virgin, sexually mature adult. back to top Anatomical Expression
PAGE et. al., 2020SMED30003568 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 20Note: Hover over icons to view figure legend
Homology
BLAST of Chromo domain-containing protein vs. TrEMBL
Match: A0A3C1P802 (Uncharacterized protein OS=Planktothrix sp. UBA8402 OX=2055759 GN=DCQ63_02380 PE=4 SV=1) HSP 1 Score: 124.79 bits (312), Expect = 5.021e-30 Identity = 70/160 (43.75%), Postives = 99/160 (61.88%), Query Frame = 3
Query: 3 SSHRGLNVLRPVDI---------------SSKTRVQSKKVTITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKD-SDNNVIQGKFYEQELQVI--SKPTVFRIQKILKTKMVGKDKQYYVKWHGYQ--KPSWISSKDLVK 422
+SHR L PVD+ T V+ ++ T+ Y VG VRIS+IS SPF KNFD NWS+E+F+I ++ PVMYV+KD + + +I+GKFY +ELQ + S P V+RI+KI++TK G+ KQY+VKW+G+ + SWI+ LVK
Sbjct: 211 ASHRSLKGKSPVDLYVNDPNNLNDWLHQQQKDTNVRKRRQTL----YSVGSLVRISRISTSPFRKNFDQNWSEEIFRIASVDKASKPVMYVLKDVATDELIEGKFYHEELQDVGDSLPNVYRIEKIIRTKGKGEHKQYFVKWYGFNDSRNSWITKDQLVK 366
BLAST of Chromo domain-containing protein vs. TrEMBL
Match: A0A1Y1KRZ5 (Chromo domain-containing protein (Fragment) OS=Photinus pyralis OX=7054 PE=4 SV=1) HSP 1 Score: 100.138 bits (248), Expect = 1.513e-22 Identity = 58/117 (49.57%), Postives = 81/117 (69.23%), Query Frame = 3
Query: 84 TKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNVIQGKFYEQELQVIS--KPTVFRIQKILKTKMVGKDKQYYVKWHGYQKP--SWISSKDLVK 422
+PKYKVG HVRI++ S F K ++SN+S EVF+I K+ ++ PV Y I D + I+G FYE+ELQV++ + TVF+I KIL+ K GK+K+Y VKW GY + SWIS+ +L K
Sbjct: 46 AQPKYKVGQHVRIAR-SKHHFEKGYESNFSQEVFKIVKVINRRPPV-YRIVDLNGEDIEGTFYEEELQVVTLDENTVFKIDKILEEKGRGKNKKYLVKWKGYSEKFNSWISASELKK 160
BLAST of Chromo domain-containing protein vs. TrEMBL
Match: A0A5N4AMP8 (Uncharacterized protein OS=Photinus pyralis OX=7054 GN=PPYR_09536 PE=4 SV=1) HSP 1 Score: 99.3673 bits (246), Expect = 1.107e-20 Identity = 58/117 (49.57%), Postives = 81/117 (69.23%), Query Frame = 3
Query: 84 TKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNVIQGKFYEQELQVIS--KPTVFRIQKILKTKMVGKDKQYYVKWHGYQKP--SWISSKDLVK 422
+PKYKVG HVRI++ S F K ++SN+S EVF+I K+ ++ PV Y I D + I+G FYE+ELQV++ + TVF+I KIL+ K GK+K+Y VKW GY + SWIS+ +L K
Sbjct: 236 AQPKYKVGQHVRIAR-SKHHFEKGYESNFSQEVFKIVKVINRRPPV-YRIVDLNGEDIEGTFYEEELQVVTLDENTVFKIDKILEEKGRGKNKKYLVKWKGYSEKFNSWISASELKK 350
BLAST of Chromo domain-containing protein vs. TrEMBL
Match: A0A151IZ96 (Chromo domain-containing protein OS=Trachymyrmex cornetzi OX=471704 GN=ALC57_13584 PE=4 SV=1) HSP 1 Score: 93.2041 bits (230), Expect = 5.914e-20 Identity = 50/132 (37.88%), Postives = 81/132 (61.36%), Query Frame = 3
Query: 39 DISSKTRVQSKKVTITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNVIQGKFYEQELQVISK---PTVFRIQKILKTKMVGKDKQYYVKWHGYQK--PSWISSKDLV 419
+I+ + + ++ K + K KY+VGDHVRIS+ A+ F K +++NWS+E+FQI ++ ++P +Y ++D VI G FYEQEL + K F + +++K+K G +KQ V W GY SWI + L+
Sbjct: 17 NIARRWKNETLKKRVRKVKYRVGDHVRISRAKAA-FEKGYEANWSEEIFQIYRVLDWRNPRVYELRDLAGEVIDGIFYEQELARVEKNVEEEQFIVDRVIKSKGRGANKQVLVSWRGYPSKFDSWIPASSLI 147
BLAST of Chromo domain-containing protein vs. TrEMBL
Match: A0A1Y1N5I8 (Uncharacterized protein OS=Photinus pyralis OX=7054 PE=4 SV=1) HSP 1 Score: 93.9745 bits (232), Expect = 1.209e-18 Identity = 54/115 (46.96%), Postives = 77/115 (66.96%), Query Frame = 3
Query: 84 TKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNVIQGKFYEQELQVIS--KPTVFRIQKILKTKMVGKDKQYYVKWHGYQKP--SWISSKDL 416
T+P YKVG HVRI++ + F K ++SN+S EVF+I K+ K+ P +Y I D I+G FYE+ELQ ++ + TVF+I +IL+ K GK+K+Y VKW GY SWIS+ +L
Sbjct: 236 TRPIYKVGQHVRITR-TKYHFEKGYESNFSQEVFKIIKV-IKRRPPVYRIVDLSGEDIEGTFYEEELQAVTIDEDTVFKIDEILEEKGRGKNKKYLVKWRGYSDKFNSWISAAEL 348
BLAST of Chromo domain-containing protein vs. Ensembl Cavefish
Match: ENSAMXT00000055500.1 (pep primary_assembly:Astyanax_mexicanus-2.0:APWO02001032.1:12601:13692:-1 gene:ENSAMXG00000041341.1 transcript:ENSAMXT00000055500.1 gene_biotype:protein_coding transcript_biotype:protein_coding) HSP 1 Score: 78.1814 bits (191), Expect = 2.200e-16 Identity = 46/113 (40.71%), Postives = 70/113 (61.95%), Query Frame = 3
Query: 93 KYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNVIQGKFYEQELQ--VISKPTVFRIQKILKTKMVGKDKQYYVKWHGYQKP--SWISSKDLV 419
K+K+GD VRIS++ A F K ++ N++DE F I++ + PV Y + D+D I G FYE ELQ ++ K F+I+KI++ +M + K VKW G+ SWI +KD+V
Sbjct: 248 KFKIGDVVRISRLKAH-FEKGYEQNYTDEYFTISERIPRDPPV-YKLHDADGEEITGTFYEPELQKIIVGKDKSFKIEKIIQERMQNRKKMCLVKWVGWPDKFNSWIPAKDIV 358
BLAST of Chromo domain-containing protein vs. Planmine SMEST
Match: SMESG000029226.1 (SMESG000029226.1) HSP 1 Score: 261.536 bits (667), Expect = 1.051e-103 Identity = 128/131 (97.71%), Postives = 129/131 (98.47%), Query Frame = 3
Query: 3 SSHRGLNVLRPVDISSKTRVQSKKVTITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNVIQGKFYEQELQVISKPTVFRIQKILKTKMVGKDKQYYVKWHGYQKPS 395
SSHRGLN LRPVDISSKTRVQSKKVTITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNN+IQGKFYEQELQVISKPTVFRIQKILK KMVGKDKQYYVKWHGYQKPS
Sbjct: 399 SSHRGLNGLRPVDISSKTRVQSKKVTITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYEQELQVISKPTVFRIQKILKIKMVGKDKQYYVKWHGYQKPS 529 HSP 2 Score: 91.6633 bits (226), Expect = 1.051e-103 Identity = 54/67 (80.60%), Postives = 58/67 (86.57%), Query Frame = 2
Query: 443 PSNSCPLIHPENQASKFMVDLQNPIYLHGNWEVALQXXXXXXXXXXXXSQCKINYKRNVRKKSSCIL 643
PSNSCPLIHPENQASKFMV+LQNP+YLHGNWEVALQDFTF Y+TFPFYS CKI YK+ V K S I
Sbjct: 528 PSNSCPLIHPENQASKFMVNLQNPMYLHGNWEVALQDFTFVYNTFPFYSHCKIGYKKRVPKTCSGIF 594 HSP 3 Score: 63.929 bits (154), Expect = 1.051e-103 Identity = 27/36 (75.00%), Postives = 32/36 (88.89%), Query Frame = 1
Query: 643 ERYYHIPNQLLDEHCQMFYRDGLNISCDFSPFTIIF 750
ERY HIPNQ+LDE+ MF++DGLN+SCDFSPFTI F
Sbjct: 600 ERYCHIPNQILDENSGMFFKDGLNVSCDFSPFTIKF 635
BLAST of Chromo domain-containing protein vs. Planmine SMEST
Match: SMESG000029226.1 (SMESG000029226.1) HSP 1 Score: 261.922 bits (668), Expect = 1.088e-103 Identity = 128/131 (97.71%), Postives = 129/131 (98.47%), Query Frame = 3
Query: 3 SSHRGLNVLRPVDISSKTRVQSKKVTITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNVIQGKFYEQELQVISKPTVFRIQKILKTKMVGKDKQYYVKWHGYQKPS 395
SSHRGLN LRPVDISSKTRVQSKKVTITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNN+IQGKFYEQELQVISKPTVFRIQKILK KMVGKDKQYYVKWHGYQKPS
Sbjct: 198 SSHRGLNGLRPVDISSKTRVQSKKVTITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYEQELQVISKPTVFRIQKILKIKMVGKDKQYYVKWHGYQKPS 328 HSP 2 Score: 91.6633 bits (226), Expect = 1.088e-103 Identity = 54/67 (80.60%), Postives = 58/67 (86.57%), Query Frame = 2
Query: 443 PSNSCPLIHPENQASKFMVDLQNPIYLHGNWEVALQXXXXXXXXXXXXSQCKINYKRNVRKKSSCIL 643
PSNSCPLIHPENQASKFMV+LQNP+YLHGNWEVALQDFTF Y+TFPFYS CKI YK+ V K S I
Sbjct: 327 PSNSCPLIHPENQASKFMVNLQNPMYLHGNWEVALQDFTFVYNTFPFYSHCKIGYKKRVPKTCSGIF 393 HSP 3 Score: 63.929 bits (154), Expect = 1.088e-103 Identity = 27/37 (72.97%), Postives = 32/37 (86.49%), Query Frame = 1
Query: 640 FERYYHIPNQLLDEHCQMFYRDGLNISCDFSPFTIIF 750
ERY HIPNQ+LDE+ MF++DGLN+SCDFSPFTI F
Sbjct: 398 IERYCHIPNQILDENSGMFFKDGLNVSCDFSPFTIKF 434
BLAST of Chromo domain-containing protein vs. Planmine SMEST
Match: SMESG000029226.1 (SMESG000029226.1) HSP 1 Score: 261.536 bits (667), Expect = 1.142e-103 Identity = 128/131 (97.71%), Postives = 129/131 (98.47%), Query Frame = 3
Query: 3 SSHRGLNVLRPVDISSKTRVQSKKVTITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNVIQGKFYEQELQVISKPTVFRIQKILKTKMVGKDKQYYVKWHGYQKPS 395
SSHRGLN LRPVDISSKTRVQSKKVTITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNN+IQGKFYEQELQVISKPTVFRIQKILK KMVGKDKQYYVKWHGYQKPS
Sbjct: 198 SSHRGLNGLRPVDISSKTRVQSKKVTITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYEQELQVISKPTVFRIQKILKIKMVGKDKQYYVKWHGYQKPS 328 HSP 2 Score: 91.6633 bits (226), Expect = 1.142e-103 Identity = 54/67 (80.60%), Postives = 58/67 (86.57%), Query Frame = 2
Query: 443 PSNSCPLIHPENQASKFMVDLQNPIYLHGNWEVALQXXXXXXXXXXXXSQCKINYKRNVRKKSSCIL 643
PSNSCPLIHPENQASKFMV+LQNP+YLHGNWEVALQDFTF Y+TFPFYS CKI YK+ V K S I
Sbjct: 327 PSNSCPLIHPENQASKFMVNLQNPMYLHGNWEVALQDFTFVYNTFPFYSHCKIGYKKRVPKTCSGIF 393 HSP 3 Score: 63.929 bits (154), Expect = 1.142e-103 Identity = 27/37 (72.97%), Postives = 32/37 (86.49%), Query Frame = 1
Query: 640 FERYYHIPNQLLDEHCQMFYRDGLNISCDFSPFTIIF 750
ERY HIPNQ+LDE+ MF++DGLN+SCDFSPFTI F
Sbjct: 398 IERYCHIPNQILDENSGMFFKDGLNVSCDFSPFTIKF 434
BLAST of Chromo domain-containing protein vs. Planmine SMEST
Match: SMESG000029226.1 (SMESG000029226.1) HSP 1 Score: 253.447 bits (646), Expect = 3.079e-101 Identity = 124/127 (97.64%), Postives = 125/127 (98.43%), Query Frame = 3
Query: 15 GLNVLRPVDISSKTRVQSKKVTITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNVIQGKFYEQELQVISKPTVFRIQKILKTKMVGKDKQYYVKWHGYQKPS 395
GLN LRPVDISSKTRVQSKKVTITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNN+IQGKFYEQELQVISKPTVFRIQKILK KMVGKDKQYYVKWHGYQKPS
Sbjct: 130 GLNGLRPVDISSKTRVQSKKVTITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYEQELQVISKPTVFRIQKILKIKMVGKDKQYYVKWHGYQKPS 256 HSP 2 Score: 91.6633 bits (226), Expect = 3.079e-101 Identity = 54/67 (80.60%), Postives = 58/67 (86.57%), Query Frame = 2
Query: 443 PSNSCPLIHPENQASKFMVDLQNPIYLHGNWEVALQXXXXXXXXXXXXSQCKINYKRNVRKKSSCIL 643
PSNSCPLIHPENQASKFMV+LQNP+YLHGNWEVALQDFTF Y+TFPFYS CKI YK+ V K S I
Sbjct: 255 PSNSCPLIHPENQASKFMVNLQNPMYLHGNWEVALQDFTFVYNTFPFYSHCKIGYKKRVPKTCSGIF 321 HSP 3 Score: 63.929 bits (154), Expect = 3.079e-101 Identity = 27/37 (72.97%), Postives = 32/37 (86.49%), Query Frame = 1
Query: 640 FERYYHIPNQLLDEHCQMFYRDGLNISCDFSPFTIIF 750
ERY HIPNQ+LDE+ MF++DGLN+SCDFSPFTI F
Sbjct: 326 IERYCHIPNQILDENSGMFFKDGLNVSCDFSPFTIKF 362
BLAST of Chromo domain-containing protein vs. Planmine SMEST
Match: SMESG000065288.1 (SMESG000065288.1) HSP 1 Score: 272.707 bits (696), Expect = 1.059e-83 Identity = 132/139 (94.96%), Postives = 136/139 (97.84%), Query Frame = 3
Query: 3 SSHRGLNVLRPVDISSKTRVQSKKVTITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNVIQGKFYEQELQVISKPTVFRIQKILKTKMVGKDKQYYVKWHGYQKPSWISSKDLV 419
SSHRGLN LRPVDISSKTRVQSKKV IT PKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNN+I+GKFYEQELQVISKPTVFRIQKILKTKMVGKDKQYYVKWHGYQKPSWISS+DL+
Sbjct: 349 SSHRGLNGLRPVDISSKTRVQSKKVAITTPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIKGKFYEQELQVISKPTVFRIQKILKTKMVGKDKQYYVKWHGYQKPSWISSRDLI 487 The following BLAST results are available for this feature:
BLAST of Chromo domain-containing protein vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of Chromo domain-containing protein vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of Chromo domain-containing protein vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of Chromo domain-containing protein vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of Chromo domain-containing protein vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of Chromo domain-containing protein vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of Chromo domain-containing protein vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of Chromo domain-containing protein vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
BLAST of Chromo domain-containing protein vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 1
BLAST of Chromo domain-containing protein vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of Chromo domain-containing protein vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of Chromo domain-containing protein vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of Chromo domain-containing protein vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of Chromo domain-containing protein vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 5
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30003568 ID=SMED30003568|Name=Chromo domain-containing protein|organism=Schmidtea mediterranea sexual|type=transcript|length=751bpback to top protein sequence of SMED30003568-orf-1 >SMED30003568-orf-1 ID=SMED30003568-orf-1|Name=SMED30003568-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=141bp SSHRGLNVLRPVDISSKTRVQSKKVTITKPKYKVGDHVRISKISASPFIKback to top Annotated Terms
The following terms have been associated with this transcript:
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