Chromo domain-containing protein
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., 2020SMED30032829 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 20
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: 73.9442 bits (180), Expect = 4.203e-12 Identity = 39/78 (50.00%), Postives = 56/78 (71.79%), Query Frame = 3 Query: 336 KILSPVMYVIKD-SDNNVIQGKFYEQELQVI--SKPTVFRIQKILKTKMVGKDKQYYVKWHGYQ--KPSWISSKDLVK 554 K PVMYV+KD + + +I+GKFY +ELQ + S P V+RI+KI++TK G+ KQY+VKW+G+ + SWI+ LVK Sbjct: 289 KASKPVMYVLKDVATDELIEGKFYHEELQDVGDSLPNVYRIEKIIRTKGKGEHKQYFVKWYGFNDSRNSWITKDQLVK 366 HSP 2 Score: 26.5646 bits (57), Expect = 4.203e-12 Identity = 11/20 (55.00%), Postives = 15/20 (75.00%), Query Frame = 2 Query: 290 GDHVRISKISASPYIKDFES 349 G VRIS+IS SP+ K+F+ Sbjct: 256 GSLVRISRISTSPFRKNFDQ 275
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: 64.3142 bits (155), Expect = 7.740e-9 Identity = 36/73 (49.32%), Postives = 50/73 (68.49%), Query Frame = 3 Query: 348 PVMYVIKDSDNNVIQGKFYEQELQVIS--KPTVFRIQKILKTKMVGKDKQYYVKWHGYQKP--SWISSKDLVK 554 P +Y I D + I+G FYE+ELQV++ + TVF+I KIL+ K GK+K+Y VKW GY + SWIS+ +L K Sbjct: 88 PPVYRIVDLNGEDIEGTFYEEELQVVTLDENTVFKIDKILEEKGRGKNKKYLVKWKGYSEKFNSWISASELKK 160
BLAST of Chromo domain-containing protein vs. TrEMBL
Match: A0A2G8JCA9 (Uncharacterized protein OS=Stichopus japonicus OX=307972 GN=BSL78_29815 PE=4 SV=1) HSP 1 Score: 66.6254 bits (161), Expect = 1.476e-8 Identity = 35/79 (44.30%), Postives = 48/79 (60.76%), Query Frame = 3 Query: 309 VKYLLHLTSKILSPVMYVIKDSDNNVIQGKFYEQELQVISKPT-VFRIQKILKTKMVGKDKQYYVKWHGYQKP--SWIS 536 KY H +P +Y +KD + + I+G FYEQELQ ISK +RI+K+L+ + G KQY+VKW GY SW+S Sbjct: 309 TKYYHHRKRIARTPPVYELKDYNQDNIEGHFYEQELQRISKADHTYRIEKVLRRRTRGGRKQYFVKWKGYPTKFNSWVS 387
BLAST of Chromo domain-containing protein vs. TrEMBL
Match: A0A2G8L531 (Uncharacterized protein OS=Stichopus japonicus OX=307972 GN=BSL78_07777 PE=4 SV=1) HSP 1 Score: 65.4698 bits (158), Expect = 3.062e-8 Identity = 31/65 (47.69%), Postives = 45/65 (69.23%), Query Frame = 3 Query: 345 SPVMYVIKDSDNNVIQGKFYEQELQVISKPT-VFRIQKILKTKMVGKDKQYYVKWHGYQKPSWIS 536 +P +Y +KD + + I+G FYEQELQ ISK +RI+K+L+ + G KQY+VKW GYQ+ S + Sbjct: 285 TPPVYELKDYNQDNIEGHFYEQELQRISKADHTYRIEKVLRRRTRGGRKQYFVKWKGYQQNSTVG 349
BLAST of Chromo domain-containing protein vs. TrEMBL
Match: A0A1I8BIE1 (Integrase catalytic domain-containing protein OS=Meloidogyne hapla OX=6305 PE=4 SV=1) HSP 1 Score: 51.9878 bits (123), Expect = 6.196e-8 Identity = 24/69 (34.78%), Postives = 43/69 (62.32%), Query Frame = 3 Query: 315 YLLHLTSKILSPVMYVIKDSDNNVIQGKFYEQELQVISKPTVFRIQKILKTKMVGKD-KQYYVKWHGYQ 518 + +++ + +P+ Y +KD + N+I+G FY +EL + T RI +ILKT+ KQ++V+W GY+ Sbjct: 281 FRVYIVNDTRNPITYKLKDLEGNIIEGVFYREELVPTQEDTTHRIAEILKTRTTRAGIKQHFVRWVGYK 349 HSP 2 Score: 34.2686 bits (77), Expect = 6.196e-8 Identity = 17/49 (34.69%), Postives = 28/49 (57.14%), Query Frame = 2 Query: 557 SFYTILPSNSCPLIHPENQASKFMVDLQNPIYLHGNWEVALQDFTFVYN 703 SFY +LPSN+ + N SKF V + + + L +W VAL + + ++ Sbjct: 359 SFYVVLPSNTGNV--EGNTTSKFTVRMPDTLELDSSWTVALSNIIYPFS 405
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: 53.5286 bits (127), Expect = 9.543e-8 Identity = 29/72 (40.28%), Postives = 43/72 (59.72%), Query Frame = 3 Query: 348 PVMYVIKDSDNNVIQGKFYEQELQ--VISKPTVFRIQKILKTKMVGKDKQYYVKWHGYQKP--SWISSKDLV 551 P +Y + D+D I G FYE ELQ ++ K F+I+KI++ +M + K VKW G+ SWI +KD+V Sbjct: 287 PPVYKLHDADGEEITGTFYEPELQKIIVGKDKSFKIEKIIQERMQNRKKMCLVKWVGWPDKFNSWIPAKDIV 358
BLAST of Chromo domain-containing protein vs. Planmine SMEST
Match: SMESG000048922.1 (SMESG000048922.1) HSP 1 Score: 204.142 bits (518), Expect = 7.093e-59 Identity = 94/94 (100.00%), Postives = 94/94 (100.00%), Query Frame = 2 Query: 503 MAWISKTLMDIIKRPSKMSFYTILPSNSCPLIHPENQASKFMVDLQNPIYLHGNWEVALQDFTFVYNTFPFYSHCKIGYKKRVPKTCSGIFSIN 784 MAWISKTLMDIIKRPSKMSFYTILPSNSCPLIHPENQASKFMVDLQNPIYLHGNWEVALQDFTFVYNTFPFYSHCKIGYKKRVPKTCSGIFSIN Sbjct: 1 MAWISKTLMDIIKRPSKMSFYTILPSNSCPLIHPENQASKFMVDLQNPIYLHGNWEVALQDFTFVYNTFPFYSHCKIGYKKRVPKTCSGIFSIN 94 HSP 2 Score: 74.7146 bits (182), Expect = 1.497e-14 Identity = 38/61 (62.30%), Postives = 44/61 (72.13%), Query Frame = 1 Query: 733 RLQETCSQNM*WYFLNQCHIDR*CHIPNQSLDENSSMFFKDRLNVSCDYSPFTIKFESIED 915 R+ +TCS + + +R CHIPNQ LDEN MFFKD LNVSCDYSPFTIKF+SIED Sbjct: 82 RVPKTCSG-----IFSINNFERYCHIPNQILDENCGMFFKDGLNVSCDYSPFTIKFKSIED 137
BLAST of Chromo domain-containing protein vs. Planmine SMEST
Match: SMESG000048922.1 (SMESG000048922.1) HSP 1 Score: 203.756 bits (517), Expect = 8.913e-59 Identity = 94/94 (100.00%), Postives = 94/94 (100.00%), Query Frame = 2 Query: 503 MAWISKTLMDIIKRPSKMSFYTILPSNSCPLIHPENQASKFMVDLQNPIYLHGNWEVALQDFTFVYNTFPFYSHCKIGYKKRVPKTCSGIFSIN 784 MAWISKTLMDIIKRPSKMSFYTILPSNSCPLIHPENQASKFMVDLQNPIYLHGNWEVALQDFTFVYNTFPFYSHCKIGYKKRVPKTCSGIFSIN Sbjct: 1 MAWISKTLMDIIKRPSKMSFYTILPSNSCPLIHPENQASKFMVDLQNPIYLHGNWEVALQDFTFVYNTFPFYSHCKIGYKKRVPKTCSGIFSIN 94 HSP 2 Score: 74.7146 bits (182), Expect = 1.507e-14 Identity = 38/61 (62.30%), Postives = 44/61 (72.13%), Query Frame = 1 Query: 733 RLQETCSQNM*WYFLNQCHIDR*CHIPNQSLDENSSMFFKDRLNVSCDYSPFTIKFESIED 915 R+ +TCS + + +R CHIPNQ LDEN MFFKD LNVSCDYSPFTIKF+SIED Sbjct: 82 RVPKTCSG-----IFSINNFERYCHIPNQILDENCGMFFKDGLNVSCDYSPFTIKFKSIED 137
BLAST of Chromo domain-containing protein vs. Planmine SMEST
Match: SMESG000031049.1 (SMESG000031049.1) HSP 1 Score: 202.986 bits (515), Expect = 1.540e-58 Identity = 93/94 (98.94%), Postives = 94/94 (100.00%), Query Frame = 2 Query: 503 MAWISKTLMDIIKRPSKMSFYTILPSNSCPLIHPENQASKFMVDLQNPIYLHGNWEVALQDFTFVYNTFPFYSHCKIGYKKRVPKTCSGIFSIN 784 MAWISKTLMDIIKRPSKMSFYTILPSNSCPLIHPENQASKFMVDLQNPIYLHGNWEVALQDFTFVYNTFPFYSHCKIGYKKRVPKTCSGIF+IN Sbjct: 1 MAWISKTLMDIIKRPSKMSFYTILPSNSCPLIHPENQASKFMVDLQNPIYLHGNWEVALQDFTFVYNTFPFYSHCKIGYKKRVPKTCSGIFTIN 94 HSP 2 Score: 78.9518 bits (193), Expect = 5.403e-16 Identity = 40/61 (65.57%), Postives = 44/61 (72.13%), Query Frame = 1 Query: 733 RLQETCSQNM*WYFLNQCHIDR*CHIPNQSLDENSSMFFKDRLNVSCDYSPFTIKFESIED 915 R+ +TCS + +R CHIPNQ LDENS MFFKD LNVSCDYSPFTIKFESIED Sbjct: 82 RVPKTCSG-----IFTINNFERYCHIPNQILDENSGMFFKDGLNVSCDYSPFTIKFESIED 137
BLAST of Chromo domain-containing protein vs. Planmine SMEST
Match: SMESG000057427.1 (SMESG000057427.1) HSP 1 Score: 200.675 bits (509), Expect = 9.561e-58 Identity = 92/94 (97.87%), Postives = 93/94 (98.94%), Query Frame = 2 Query: 503 MAWISKTLMDIIKRPSKMSFYTILPSNSCPLIHPENQASKFMVDLQNPIYLHGNWEVALQDFTFVYNTFPFYSHCKIGYKKRVPKTCSGIFSIN 784 MAWISKTLMDIIKRPSKMSFYTILP NSCPLIHPENQASKFMVDLQNPIYLHGNWEVALQDFTFVYNTFPFYSHCKIGYKKRVPKTCSGIF+IN Sbjct: 1 MAWISKTLMDIIKRPSKMSFYTILPINSCPLIHPENQASKFMVDLQNPIYLHGNWEVALQDFTFVYNTFPFYSHCKIGYKKRVPKTCSGIFTIN 94 HSP 2 Score: 73.9442 bits (180), Expect = 2.786e-14 Identity = 38/61 (62.30%), Postives = 43/61 (70.49%), Query Frame = 1 Query: 733 RLQETCSQNM*WYFLNQCHIDR*CHIPNQSLDENSSMFFKDRLNVSCDYSPFTIKFESIED 915 R+ +TCS + +R CHIPNQ LDENS MFFKD L VSCD+SPFTIKFESIED Sbjct: 82 RVPKTCSG-----IFTINNFERYCHIPNQILDENSGMFFKDGLIVSCDFSPFTIKFESIED 137
BLAST of Chromo domain-containing protein vs. Planmine SMEST
Match: SMESG000057427.1 (SMESG000057427.1) HSP 1 Score: 200.675 bits (509), Expect = 1.124e-57 Identity = 92/94 (97.87%), Postives = 93/94 (98.94%), Query Frame = 2 Query: 503 MAWISKTLMDIIKRPSKMSFYTILPSNSCPLIHPENQASKFMVDLQNPIYLHGNWEVALQDFTFVYNTFPFYSHCKIGYKKRVPKTCSGIFSIN 784 MAWISKTLMDIIKRPSKMSFYTILP NSCPLIHPENQASKFMVDLQNPIYLHGNWEVALQDFTFVYNTFPFYSHCKIGYKKRVPKTCSGIF+IN Sbjct: 1 MAWISKTLMDIIKRPSKMSFYTILPINSCPLIHPENQASKFMVDLQNPIYLHGNWEVALQDFTFVYNTFPFYSHCKIGYKKRVPKTCSGIFTIN 94 HSP 2 Score: 73.9442 bits (180), Expect = 2.941e-14 Identity = 38/61 (62.30%), Postives = 43/61 (70.49%), Query Frame = 1 Query: 733 RLQETCSQNM*WYFLNQCHIDR*CHIPNQSLDENSSMFFKDRLNVSCDYSPFTIKFESIED 915 R+ +TCS + +R CHIPNQ LDENS MFFKD L VSCD+SPFTIKFESIED Sbjct: 82 RVPKTCSG-----IFTINNFERYCHIPNQILDENSGMFFKDGLIVSCDFSPFTIKFESIED 137 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 >SMED30032829 ID=SMED30032829|Name=Chromo domain-containing protein|organism=Schmidtea mediterranea sexual|type=transcript|length=916bpback to top protein sequence of SMED30032829-orf-1 >SMED30032829-orf-1 ID=SMED30032829-orf-1|Name=SMED30032829-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=108bp MAWISKTLMDIIKRPSKMSFYTILPSNSCPLIHPENQASKFMVDLQNPIYback to top Annotated Terms
The following terms have been associated with this transcript:
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