Chromo domain-containing protein

Overview
NameChromo domain-containing protein
Smed IDSMED30003855
Length (bp)1498
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 Chromo domain-containing protein (SMED30003855) t-SNE clustered cells

Violin plots show distribution of expression levels for Chromo domain-containing protein (SMED30003855) 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 Chromo domain-containing protein (SMED30003855) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for Chromo domain-containing protein (SMED30003855) 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.
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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



SMED30003855

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



PAGE Curations: 18

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
Smed sexual biotypeSMED30003855h1SMcG0008134 Contig19631uc_Smed_v2PMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30003855h1SMcG0008134 Contig19631newmark_estsPMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30003855 Contig15996uc_Smed_v2PMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
Smed sexual biotypeSMED30003855 Contig15996newmark_estsPMID:29674431
Fincher et al., 2018		FACS sorted cell population adult hermaphrodite single-cell RNA-sequencing evidence
neuronSMED30003855h1SMcG0006558 Contig11424uc_Smed_v2PMID:27612384
Roberts-Galbraith et al., 2016		whole organism asexual adult colorimetric in situ hybridization evidence
neuronSMED30003855h1SMcG0006558 Contig11424newmark_estsPMID:27612384
Roberts-Galbraith et al., 2016		whole organism asexual adult colorimetric in situ hybridization evidence
whole organismSMED30003855h1SMcG0006558 Contig11424uc_Smed_v2PMID:27612384
Roberts-Galbraith et al., 2016		whole organism asexual adult colorimetric in situ hybridization evidence
whole organismSMED30003855h1SMcG0006558 Contig11424newmark_estsPMID:27612384
Roberts-Galbraith et al., 2016		whole organism asexual adult colorimetric in situ hybridization evidence
reproductive organSMED30003855h1SMcG0013084 Contig12059uc_Smed_v2PMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
reproductive organSMED30003855h1SMcG0013084 Contig12059newmark_estsPMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
oocyteSMED30003855 Contig11835uc_Smed_v2PMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
oocyteSMED30003855 Contig11835newmark_estsPMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
vitelline glandSMED30003855 Contig11835uc_Smed_v2PMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
vitelline glandSMED30003855 Contig11835newmark_estsPMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
oocyteSMED30003855 Contig15904uc_Smed_v2PMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
oocyteSMED30003855 Contig15904newmark_estsPMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
vitelline glandSMED30003855 Contig15904uc_Smed_v2PMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
vitelline glandSMED30003855 Contig15904newmark_estsPMID:28434803
Rouhana et al., 2017		whole organism adult hermaphrodite RNA-sequencing evidence
Note: Hover over icons to view figure legend
Homology
[Close]
BLAST of Chromo domain-containing protein vs. UniProt/SwissProt
Match: sp|P34457|YMD3_CAEEL (Putative uncharacterized transposon-derived protein F54H12.3 OS=Caenorhabditis elegans OX=6239 GN=F54H12.3 PE=5 SV=1)

HSP 1 Score: 80.8777 bits (198), Expect = 1.298e-15
Identity = 50/148 (33.78%), Postives = 83/148 (56.08%), Query Frame = 3 
Query:   18 INHYSVHSQYKAAHVERFNRTLRDRLKKYFVHQGNKIWINVLPKILVSYNNSSHRGLNGLRPVDISSKTLAKSVRSKTVAITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYEQEL 461
            +N +S  S+ K A VER NRTL+ RL KY   + N+ +++VL +++   NNS +RG+ G +PVD+     +  +   +V I   K++VGDHVRI+      F K ++  W+ EV+     N+  +P  +    S+ ++I GK   Q +
Sbjct:   78 VNLFSPKSEIKCAIVERANRTLKTRLAKYMTQKYNRRYVDVLQQVVNGINNSVNRGI-GKKPVDVERGDFSTPMPVDSVKI---KFRVGDHVRIAA-KRGQFDKGYEQGWTTEVYM---SNSTTTPTAHA--PSEESIINGKSIPQPM 215
[Close]
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: 193.741 bits (491), Expect = 2.351e-53
Identity = 102/212 (48.11%), Postives = 142/212 (66.98%), Query Frame = 3 
Query:   15 KINHYSVHSQYKAAHVERFNRTLRDRLKKYFVHQGNKIWINVLPKILVSYNNSSHRGLNGLRPVD------------ISSKTLAKSVRSKTVAITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKD-SDNNLIQGKFYEQELQVI--SKPTVFRIQKILKTKMVGKDKQYYVKWHGYQNP--TWISAKDLIK 599
            KI HY+V SQ+KAA VERFNRTLR+RL ++F HQ NK W+ VLPK++ +YN++SHR L G  PVD            +  +    +VR +   +    Y VG  VRIS+IS SPF KNFD NWS+E+F+I  ++    PVMYV+KD + + LI+GKFY +ELQ +  S P V+RI+KI++TK  G+ KQY+VKW+G+ +   +WI+   L+K
Sbjct:  159 KIIHYTVQSQFKAAVVERFNRTLRERLNRFFTHQRNKKWLLVLPKLIHAYNHASHRSLKGKSPVDLYVNDPNNLNDWLHQQQKDTNVRKRRQTL----YSVGSLVRISRISTSPFRKNFDQNWSEEIFRIASVDKASKPVMYVLKDVATDELIEGKFYHEELQDVGDSLPNVYRIEKIIRTKGKGEHKQYFVKWYGFNDSRNSWITKDQLVK 366
[Close]
BLAST of Chromo domain-containing protein vs. TrEMBL
Match: A0A4Y2T0D2 (Uncharacterized transposon-derived protein F54H12.3 OS=Araneus ventricosus OX=182803 GN=F54H12.3_15 PE=4 SV=1)

HSP 1 Score: 148.673 bits (374), Expect = 8.610e-38
Identity = 90/211 (42.65%), Postives = 134/211 (63.51%), Query Frame = 3 
Query:    3 LDRIKINHYSVHSQYKAAHVERFNRTLRDRLKKYFVHQGNKIWINVLPKILVSYNNSSHRGLNGLRPVDISSKTLAKSVRSKTVAI-TKPKY--KVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYEQELQVISKP---TVFRIQKILKTKMVGKDKQYYVKWHGYQNP--TWISAKDLIKLNFY 611
            L + KINHYS HS++KA+ VERFNRTL+++L + F H+G+  +I+VL K++ SYNNS HR   G  P D++S  L   +  K  A  T+ +Y   VGD VRISK +   F + +  NWSDEVF I K     +P  Y++KD     ++G+FY  ELQ + K    T++RI+K+L+TK  G++K+Y+VKW G+ N   +W+  K + +L  +
Sbjct:   36 LKKNKINHYSSHSEHKASVVERFNRTLKNKLFRIFTHRGSYKYIDVLDKVIKSYNNSIHR-TTGFAPNDVTS-NLEPLIFEKVYAYKTEIRYTFNVGDQVRISK-AKKTFRRGYLPNWSDEVFTIDK-RFATNPPTYILKDLKGETLKGRFYANELQKVRKSSSDTLWRIEKVLRTKGKGENKEYFVKWRGFDNRFNSWVKKKWMSRLQIF 242
[Close]
BLAST of Chromo domain-containing protein vs. TrEMBL
Match: A0A4Y2HQ68 (Uncharacterized transposon-derived protein F54H12.3 OS=Araneus ventricosus OX=182803 GN=F54H12.3_86 PE=4 SV=1)

HSP 1 Score: 147.517 bits (371), Expect = 2.274e-37
Identity = 89/211 (42.18%), Postives = 133/211 (63.03%), Query Frame = 3 
Query:    3 LDRIKINHYSVHSQYKAAHVERFNRTLRDRLKKYFVHQGNKIWINVLPKILVSYNNSSHRGLNGLRPVDISSKTLAKSVRSKTVAI-TKPKY--KVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYEQELQVISKP---TVFRIQKILKTKMVGKDKQYYVKWHGYQNP--TWISAKDLIKLNFY 611
            L + KINHYS HS++KA+ VERFNRTL+++L + F H+G+  +I+VL K++ SYNNS HR   G  P D++S  L   +  K     T+ +Y   VGD VRISK +   F + +  NWSDEVF I K     +P  Y++KD     ++G+FY  ELQ + K    T++RI+K+L+TK  G++K+Y+VKW G+ N   +W+  K + +L  +
Sbjct:   36 LKKNKINHYSSHSEHKASVVERFNRTLKNKLFRIFTHRGSYKYIDVLDKVIKSYNNSIHR-TTGFAPNDVTS-NLEPLIFEKVYGYKTEIRYTFNVGDQVRISK-AKKTFRRGYLPNWSDEVFTIDK-RFATNPPTYILKDLKGETLKGRFYANELQRVRKSSSDTLWRIEKVLRTKGKGENKEYFVKWRGFDNRFNSWVKKKWMSRLQIF 242
[Close]
BLAST of Chromo domain-containing protein vs. TrEMBL
Match: A0A4Y2UGM2 (Uncharacterized transposon-derived protein F54H12.3 OS=Araneus ventricosus OX=182803 GN=F54H12.3_50 PE=4 SV=1)

HSP 1 Score: 147.132 bits (370), Expect = 2.825e-37
Identity = 89/211 (42.18%), Postives = 133/211 (63.03%), Query Frame = 3 
Query:    3 LDRIKINHYSVHSQYKAAHVERFNRTLRDRLKKYFVHQGNKIWINVLPKILVSYNNSSHRGLNGLRPVDISSKTLAKSVRSKTVAI-TKPKY--KVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYEQELQVISKP---TVFRIQKILKTKMVGKDKQYYVKWHGYQNP--TWISAKDLIKLNFY 611
            L + KINHYS HS++KA+ VERFNRTL+++L + F H+G+  +I+VL K++ SYNNS HR   G  P D++S  L   +  K     T+ +Y   VGD VRISK +   F + +  NWSDEVF I K     +P  Y++KD     ++G+FY  ELQ + K    T++RI+K+L+TK  G++K+Y+VKW G+ N   +W+  K + +L  +
Sbjct:   36 LKKNKINHYSSHSEHKASVVERFNRTLKNKLFRIFTHRGSYKYIDVLDKVIKSYNNSIHR-TTGFAPNDVTS-NLEPLIFEKVYGYKTEIRYTFNVGDQVRISK-AKKTFRRGYLPNWSDEVFTIDK-RFATNPPTYILKDLKGETLKGRFYANELQKVRKSSSDTLWRIEKVLRTKGKGENKEYFVKWRGFDNRFNSWVKKKWMSRLQIF 242
[Close]
BLAST of Chromo domain-containing protein vs. TrEMBL
Match: A0A4Y2BNX6 (Uncharacterized transposon-derived protein F54H12.3 OS=Araneus ventricosus OX=182803 GN=F54H12.3_18 PE=4 SV=1)

HSP 1 Score: 145.976 bits (367), Expect = 7.439e-37
Identity = 88/211 (41.71%), Postives = 133/211 (63.03%), Query Frame = 3 
Query:    3 LDRIKINHYSVHSQYKAAHVERFNRTLRDRLKKYFVHQGNKIWINVLPKILVSYNNSSHRGLNGLRPVDISSKTLAKSVRSKTVAI-TKPKY--KVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYEQELQVISKP---TVFRIQKILKTKMVGKDKQYYVKWHGYQNP--TWISAKDLIKLNFY 611
            L + KINHYS HS++KA+ VERFNRTL+++L + F H+G+  +I+VL K++ SYNNS HR   G  P D++S  L   +  K     T+ +Y   VGD VRISK +   F + +  NWSDE+F I K     +P  Y++KD     ++G+FY  ELQ + K    T++RI+K+L+TK  G++K+Y+VKW G+ N   +W+  K + +L  +
Sbjct:   31 LKKNKINHYSSHSEHKASVVERFNRTLKNKLFRIFTHRGSYKYIDVLDKVIKSYNNSIHR-TTGFAPNDVTS-NLEPLIFEKVYGYKTEIRYTFNVGDQVRISK-AKKTFRRGYLPNWSDEMFTIDK-RFATNPPTYILKDLKGETLKGRFYANELQKVRKSSSDTLWRIEKVLRTKGKGENKEYFVKWRGFDNRFNSWVKKKWMSRLQIF 237
[Close]
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: 115.931 bits (289), Expect = 4.223e-28
Identity = 73/206 (35.44%), Postives = 123/206 (59.71%), Query Frame = 3 
Query:   18 INHYSVHSQYKAAHVERFNRTLRDRLKKYFVHQGNKIWINVLPKILVSYNNSSHRGLNGLRPVDISS-------KTLAKSVRSKTVAITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYEQELQ--VISKPTVFRIQKILKTKMVGKDKQYYVKWHGYQNP--TWISAKDLIKL 602
            I H++  +  KA+  ERFNRTLR+++ KYF     + +I+V+ +++ SYN++ H  +  ++PV++         KTL     S+ V   + 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+ +   +WI AKD++ +
Sbjct:  159 IVHFATGTGQKASVCERFNRTLRNKMWKYFTAVNTRKYIDVVQELVHSYNHNYHSSIK-MKPVEVDETNSFKVFKTLYGLFPSR-VKKLRFKFKIGDVVRISRLKAH-FEKGYEQNYTDEYFTISERIPRDPPV-YKLHDADGEEITGTFYEPELQKIIVGKDKSFKIEKIIQERMQNRKKMCLVKWVGWPDKFNSWIPAKDIVNI 360
[Close]
BLAST of Chromo domain-containing protein vs. Planmine SMEST
Match: SMESG000029226.1 (SMESG000029226.1)

HSP 1 Score: 444.506 bits (1142), Expect = 1.635e-139
Identity = 222/263 (84.41%), Postives = 229/263 (87.07%), Query Frame = 3 
Query:    3 LDRIKINHYSVHSQYKAAHVERFNRTLRDRLKKYFVHQGNKIWINVLPKILVSYNNSSHRGLNGLRPVDISSKTLAKSVRSKTVAITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYEQELQVISKPTVFRIQKILKTKMVGKDKQYYVKWHGYQNPTWISAKDLIKLNFYMILPINSCPNIHPDNQESKFMVDLQNPIYLNGNWEVALLDFTFVYNLFSFYSKSKIEYKK 791
            LDR+KINHYSVHSQYKAAHVERFNRTLRDRLKKYFVHQGNKIWINVLPKILVSYNNSSHRGLNGLRPVDISSKT    V+SK V ITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYEQELQVISKPTVFRIQKILK KMVGKDKQYYVKWHGYQ P+                  NSCP IHP+NQ SKFMV+LQNP+YL+GNWEVAL DFTFVYN F FYS  KI YKK
Sbjct:  142 LDRLKINHYSVHSQYKAAHVERFNRTLRDRLKKYFVHQGNKIWINVLPKILVSYNNSSHRGLNGLRPVDISSKT---RVQSKKVTITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYEQELQVISKPTVFRIQKILKIKMVGKDKQYYVKWHGYQKPS------------------NSCPLIHPENQASKFMVNLQNPMYLHGNWEVALQDFTFVYNTFPFYSHCKIGYKK 383

HSP 2 Score: 110.538 bits (275), Expect = 9.867e-26
Identity = 63/130 (48.46%), Postives = 77/130 (59.23%), Query Frame = 2 
Query: 1109 YKHLIQNCGFIFKEFELINDKYFKFLLNTDINEITFDKNLIKTLGLPIQRYLQDAKNNEGSSKPKIIKFHRQLFIYINLIDPIIVGDSNVPLLKSVWIEKHEHDKVVQIQIENPMHFHVSTSCINNIEIN 1498
            +K++  NC  IFK  E + D  +K                        Q Y   A    G  KPK+IK HRQ+FIY N+IDPIIVGDS VPLLKSVW++KH+ D+VV I I+N M+  VSTSCINNIEIN
Sbjct:  503 HKYISLNCLHIFKTIEFLKDGIYK------------------------QTYRASA---FGVRKPKLIKLHRQMFIYTNIIDPIIVGDSLVPLLKSVWVDKHDQDEVVNINIDNLMYLPVSTSCINNIEIN 605

HSP 3 Score: 25.7942 bits (55), Expect = 9.867e-26
Identity = 13/37 (35.14%), Postives = 21/37 (56.76%), Query Frame = 1 
Query: 1015 IEAVRLKILYPFNKPYTFTFKEDLYISKIDELQTFNS 1125
            IE +++ + Y      TFTF  +LYI  ++EL  + S
Sbjct:  471 IENIKISVSYINEVEDTFTFTNELYIETLEELHKYIS 507
[Close]
BLAST of Chromo domain-containing protein vs. Planmine SMEST
Match: SMESG000029226.1 (SMESG000029226.1)

HSP 1 Score: 444.121 bits (1141), Expect = 2.070e-139
Identity = 222/263 (84.41%), Postives = 229/263 (87.07%), Query Frame = 3 
Query:    3 LDRIKINHYSVHSQYKAAHVERFNRTLRDRLKKYFVHQGNKIWINVLPKILVSYNNSSHRGLNGLRPVDISSKTLAKSVRSKTVAITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYEQELQVISKPTVFRIQKILKTKMVGKDKQYYVKWHGYQNPTWISAKDLIKLNFYMILPINSCPNIHPDNQESKFMVDLQNPIYLNGNWEVALLDFTFVYNLFSFYSKSKIEYKK 791
            LDR+KINHYSVHSQYKAAHVERFNRTLRDRLKKYFVHQGNKIWINVLPKILVSYNNSSHRGLNGLRPVDISSKT    V+SK V ITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYEQELQVISKPTVFRIQKILK KMVGKDKQYYVKWHGYQ P+                  NSCP IHP+NQ SKFMV+LQNP+YL+GNWEVAL DFTFVYN F FYS  KI YKK
Sbjct:  142 LDRLKINHYSVHSQYKAAHVERFNRTLRDRLKKYFVHQGNKIWINVLPKILVSYNNSSHRGLNGLRPVDISSKT---RVQSKKVTITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYEQELQVISKPTVFRIQKILKIKMVGKDKQYYVKWHGYQKPS------------------NSCPLIHPENQASKFMVNLQNPMYLHGNWEVALQDFTFVYNTFPFYSHCKIGYKK 383

HSP 2 Score: 110.538 bits (275), Expect = 8.931e-26
Identity = 63/130 (48.46%), Postives = 77/130 (59.23%), Query Frame = 2 
Query: 1109 YKHLIQNCGFIFKEFELINDKYFKFLLNTDINEITFDKNLIKTLGLPIQRYLQDAKNNEGSSKPKIIKFHRQLFIYINLIDPIIVGDSNVPLLKSVWIEKHEHDKVVQIQIENPMHFHVSTSCINNIEIN 1498
            +K++  NC  IFK  E + D  +K                        Q Y   A    G  KPK+IK HRQ+FIY N+IDPIIVGDS VPLLKSVW++KH+ D+VV I I+N M+  VSTSCINNIEIN
Sbjct:  503 HKYISLNCLHIFKTIEFLKDGIYK------------------------QTYRASA---FGVRKPKLIKLHRQMFIYTNIIDPIIVGDSLVPLLKSVWVDKHDQDEVVNINIDNLMYLPVSTSCINNIEIN 605

HSP 3 Score: 25.7942 bits (55), Expect = 8.931e-26
Identity = 13/37 (35.14%), Postives = 21/37 (56.76%), Query Frame = 1 
Query: 1015 IEAVRLKILYPFNKPYTFTFKEDLYISKIDELQTFNS 1125
            IE +++ + Y      TFTF  +LYI  ++EL  + S
Sbjct:  471 IENIKISVSYINEVEDTFTFTNELYIETLEELHKYIS 507
[Close]
BLAST of Chromo domain-containing protein vs. Planmine SMEST
Match: SMESG000029226.1 (SMESG000029226.1)

HSP 1 Score: 443.736 bits (1140), Expect = 2.817e-139
Identity = 222/263 (84.41%), Postives = 229/263 (87.07%), Query Frame = 3 
Query:    3 LDRIKINHYSVHSQYKAAHVERFNRTLRDRLKKYFVHQGNKIWINVLPKILVSYNNSSHRGLNGLRPVDISSKTLAKSVRSKTVAITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYEQELQVISKPTVFRIQKILKTKMVGKDKQYYVKWHGYQNPTWISAKDLIKLNFYMILPINSCPNIHPDNQESKFMVDLQNPIYLNGNWEVALLDFTFVYNLFSFYSKSKIEYKK 791
            LDR+KINHYSVHSQYKAAHVERFNRTLRDRLKKYFVHQGNKIWINVLPKILVSYNNSSHRGLNGLRPVDISSKT    V+SK V ITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYEQELQVISKPTVFRIQKILK KMVGKDKQYYVKWHGYQ P+                  NSCP IHP+NQ SKFMV+LQNP+YL+GNWEVAL DFTFVYN F FYS  KI YKK
Sbjct:  343 LDRLKINHYSVHSQYKAAHVERFNRTLRDRLKKYFVHQGNKIWINVLPKILVSYNNSSHRGLNGLRPVDISSKT---RVQSKKVTITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYEQELQVISKPTVFRIQKILKIKMVGKDKQYYVKWHGYQKPS------------------NSCPLIHPENQASKFMVNLQNPMYLHGNWEVALQDFTFVYNTFPFYSHCKIGYKK 584

HSP 2 Score: 110.538 bits (275), Expect = 9.694e-26
Identity = 63/130 (48.46%), Postives = 77/130 (59.23%), Query Frame = 2 
Query: 1109 YKHLIQNCGFIFKEFELINDKYFKFLLNTDINEITFDKNLIKTLGLPIQRYLQDAKNNEGSSKPKIIKFHRQLFIYINLIDPIIVGDSNVPLLKSVWIEKHEHDKVVQIQIENPMHFHVSTSCINNIEIN 1498
            +K++  NC  IFK  E + D  +K                        Q Y   A    G  KPK+IK HRQ+FIY N+IDPIIVGDS VPLLKSVW++KH+ D+VV I I+N M+  VSTSCINNIEIN
Sbjct:  704 HKYISLNCLHIFKTIEFLKDGIYK------------------------QTYRASA---FGVRKPKLIKLHRQMFIYTNIIDPIIVGDSLVPLLKSVWVDKHDQDEVVNINIDNLMYLPVSTSCINNIEIN 806

HSP 3 Score: 25.7942 bits (55), Expect = 9.694e-26
Identity = 13/37 (35.14%), Postives = 21/37 (56.76%), Query Frame = 1 
Query: 1015 IEAVRLKILYPFNKPYTFTFKEDLYISKIDELQTFNS 1125
            IE +++ + Y      TFTF  +LYI  ++EL  + S
Sbjct:  672 IENIKISVSYINEVEDTFTFTNELYIETLEELHKYIS 708
[Close]
BLAST of Chromo domain-containing protein vs. Planmine SMEST
Match: SMESG000079430.1 (SMESG000079430.1)

HSP 1 Score: 381.333 bits (978), Expect = 7.255e-124
Identity = 187/198 (94.44%), Postives = 191/198 (96.46%), Query Frame = 3 
Query:    3 LDRIKINHYSVHSQYKAAHVERFNRTLRDRLKKYFVHQGNKIWINVLPKILVSYNNSSHRGLNGLRPVDISSKTLAKSVRSKTVAITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYEQELQVISKPTVFRIQKILKTKMVGKDKQYYVKWHGYQNPTWISAKDLI 596
            LDR+KINHYSVHSQ KAAHVERFNRTLRDRLKKYFVHQGNKIWINVLPKILVSYNN SHRGLNGL PVD SSKTLAKSVRSKTVAITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKF +QELQVISKPTVFRIQKILKTKMVGKDKQY VKWHGYQ P+WIS+KDLI
Sbjct:  154 LDRLKINHYSVHSQCKAAHVERFNRTLRDRLKKYFVHQGNKIWINVLPKILVSYNNLSHRGLNGLIPVDTSSKTLAKSVRSKTVAITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFNDQELQVISKPTVFRIQKILKTKMVGKDKQYCVKWHGYQKPSWISSKDLI 351

HSP 2 Score: 125.946 bits (315), Expect = 5.380e-31
Identity = 67/115 (58.26%), Postives = 80/115 (69.57%), Query Frame = 2 
Query: 1109 YKHLIQNCGFIFKEFELINDKYFKFLLNTDINEITFDKNLIKTLGLPIQRYLQDAKNNEGSSKPKIIKFHRQLFIYINLIDPIIVGDSNVPLLKSVWIEKHEHDKVVQIQIENPM 1453
            +K++  NC  IFK  E + D   KF LN +I EITFDK L  TLGL  Q Y   A    G  KPKIIK HRQ+FIY N+IDPIIVGDS VPLLKSVW++KH+ D+VV I I+NP+
Sbjct:  446 HKYISFNCLHIFKTIEFVKDGICKFSLNNNICEITFDKYLANTLGLDKQTYRASA---FGVRKPKIIKLHRQMFIYTNIIDPIIVGDSLVPLLKSVWVDKHDQDEVVNINIDNPI 557

HSP 3 Score: 28.1054 bits (61), Expect = 5.380e-31
Identity = 14/37 (37.84%), Postives = 21/37 (56.76%), Query Frame = 1 
Query: 1015 IEAVRLKILYPFNKPYTFTFKEDLYISKIDELQTFNS 1125
            IE +++ + Y      TFTF  DLYI  ++EL  + S
Sbjct:  414 IENIKISVSYINEVEETFTFTNDLYIETLEELHKYIS 450
[Close]
BLAST of Chromo domain-containing protein vs. Planmine SMEST
Match: SMESG000053372.1 (SMESG000053372.1)

HSP 1 Score: 397.127 bits (1019), Expect = 2.892e-123
Identity = 194/201 (96.52%), Postives = 198/201 (98.51%), Query Frame = 3 
Query:    3 LDRIKINHYSVHSQYKAAHVERFNRTLRDRLKKYFVHQGNKIWINVLPKILVSYNNSSHRGLNGLRPVDISSKTLAKSVRSKTVAITKPKYKVGDHVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYEQELQVISKPTVFRIQKILKTKMVGKDKQYYVKWHGYQNPTWISAKDLIKLN 605
            LDR+KINHYSVHSQYKAAHVERFNRTLRDRLKKYFVHQGNKIWINVLPKILVSYNNSSHRGLNGLRPVDISSKTLAKSVRSKTVAITKPKYKVGD+VRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYEQELQVISKPTVFRIQKILKTKMVGKDKQYYVKWHGYQ P+WIS+KDL  LN
Sbjct:  142 LDRLKINHYSVHSQYKAAHVERFNRTLRDRLKKYFVHQGNKIWINVLPKILVSYNNSSHRGLNGLRPVDISSKTLAKSVRSKTVAITKPKYKVGDYVRISKISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYEQELQVISKPTVFRIQKILKTKMVGKDKQYYVKWHGYQKPSWISSKDLDGLN 342

HSP 2 Score: 153.295 bits (386), Expect = 2.537e-39
Identity = 81/130 (62.31%), Postives = 94/130 (72.31%), Query Frame = 2 
Query: 1109 YKHLIQNCGFIFKEFELINDKYFKFLLNTDINEITFDKNLIKTLGLPIQRYLQDAKNNEGSSKPKIIKFHRQLFIYINLIDPIIVGDSNVPLLKSVWIEKHEHDKVVQIQIENPMHFHVSTSCINNIEIN 1498
            +K++  NC  IFK  E + D   KF LN +I EITFDKNL  TLGL  Q Y   A    G  KPKIIK HRQ+FIY N+IDPIIVGDS VPLLKSVW++KH+ D+VV I I+NPM+  VSTSCINNIEIN
Sbjct:  423 HKYISFNCLHIFKTIEFVKDGLCKFSLNNNICEITFDKNLANTLGLDKQTYRTSA---FGVRKPKIIKLHRQIFIYTNIIDPIIVGDSLVPLLKSVWVDKHDQDEVVNINIDNPMYLPVSTSCINNIEIN 549
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
Match NameE-valueIdentityDescription
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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
Match NameE-valueIdentityDescription
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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
Match NameE-valueIdentityDescription
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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
Match NameE-valueIdentityDescription
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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
Match NameE-valueIdentityDescription
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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
Match NameE-valueIdentityDescription
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BLAST of Chromo domain-containing protein vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 1
Match NameE-valueIdentityDescription
sp|P34457|YMD3_CAEEL1.298e-1533.78Putative uncharacterized transposon-derived protei... [more]
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BLAST of Chromo domain-containing protein vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A3C1P8022.351e-5348.11Uncharacterized protein OS=Planktothrix sp. UBA840... [more]
A0A4Y2T0D28.610e-3842.65Uncharacterized transposon-derived protein F54H12.... [more]
A0A4Y2HQ682.274e-3742.18Uncharacterized transposon-derived protein F54H12.... [more]
A0A4Y2UGM22.825e-3742.18Uncharacterized transposon-derived protein F54H12.... [more]
A0A4Y2BNX67.439e-3741.71Uncharacterized transposon-derived protein F54H12.... [more]
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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
Match NameE-valueIdentityDescription
ENSAMXT00000055500.14.223e-2835.44pep primary_assembly:Astyanax_mexicanus-2.0:APWO02... [more]
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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
Match NameE-valueIdentityDescription
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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
Match NameE-valueIdentityDescription
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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
Match NameE-valueIdentityDescription
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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
Match NameE-valueIdentityDescription
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BLAST of Chromo domain-containing protein vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 5
Match NameE-valueIdentityDescription
SMESG000029226.11.635e-13984.41SMESG000029226.1[more]
SMESG000029226.12.070e-13984.41SMESG000029226.1[more]
SMESG000029226.12.817e-13984.41SMESG000029226.1[more]
SMESG000079430.17.255e-12494.44SMESG000079430.1[more]
SMESG000053372.12.892e-12396.52SMESG000053372.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30003855 ID=SMED30003855|Name=Chromo domain-containing protein|organism=Schmidtea mediterranea sexual|type=transcript|length=1498bp
TCCTGGATCGTATCAAAATAAATCATTATTCTGTACATTCTCAATACAAA
GCCGCACATGTTGAAAGATTTAACCGGACATTGAGGGATAGATTGAAGAA
ATATTTCGTGCATCAAGGTAATAAAATATGGATAAATGTATTACCGAAAA
TACTTGTTAGTTATAATAATTCATCACATCGAGGTCTGAATGGTTTGAGA
CCCGTAGATATCAGCTCGAAAACATTAGCTAAATCAGTACGGTCTAAAAC
AGTTGCTATTACAAAACCAAAATATAAAGTTGGTGATCACGTTAGAATTA
GTAAAATATCTGCTTCACCTTTCATCAAAAATTTCGATAGTAATTGGAGT
GATGAGGTATTTCAAATTACTAAAATTAATACTAAACAGAGTCCTGTAAT
GTATGTTATTAAAGATAGTGATAACAATTTAATACAAGGGAAATTCTATG
AACAGGAATTACAAGTTATTTCCAAACCTACAGTGTTCAGAATTCAGAAA
ATATTGAAAACTAAAATGGTGGGTAAGGATAAACAATACTATGTCAAGTG
GCATGGATATCAAAACCCGACATGGATATCAGCAAAAGATCTAATAAAAT
TGAATTTCTATATGATTTTACCTATTAATAGTTGCCCGAATATACATCCA
GATAATCAAGAAAGTAAATTCATGGTTGATCTTCAAAATCCAATTTATTT
GAATGGAAATTGGGAAGTTGCTTTGTTGGATTTTACCTTTGTATACAATT
TATTTTCATTTTACAGTAAATCCAAAATTGAATACAAGAAGACTAAATTA
TGACAAAATACAAAACGATTAAAATTGATAATGTAAATGATAATGTCTAT
ATCTCTAATCCTTCTGATGCGCATGTTTCATTGTATATTGTCCAATGTTA
TTATCACCATTTCATGTGTACTTTGATGATTTAACTAGTTAATAAAAATT
GAGTATTAGTAGTTTAGAGGATACATTGAAGATACCACTAGGATTTACCA
AAGTTGGAGAGCAAATTGAAGCAGTTAGGTTAAAAATATTATACCCGTTT
AATAAACCATATACATTTACATTTAAAGAAGATTTATACATTTCAAAAAT
CGATGAATTACAAACATTTAATTCAAAATTGTGGATTTATTTTCAAAGAG
TTTGAACTTATAAATGATAAATATTTCAAATTCTTATTGAATACTGATAT
TAATGAAATTACGTTTGATAAAAACCTTATAAAAACATTAGGGTTACCAA
TTCAAAGATATTTACAAGATGCAAAAAATAATGAAGGATCGAGTAAACCA
AAAATAATTAAATTTCATCGACAATTATTCATTTATATAAACTTAATAGA
TCCTATAATTGTTGGTGATTCAAATGTGCCTCTATTAAAATCGGTATGGA
TTGAAAAACATGAACATGATAAAGTTGTGCAAATTCAAATCGAAAATCCA
ATGCATTTTCATGTTTCAACTTCTTGTATAAACAATATAGAAATTAAT
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protein sequence of SMED30003855-orf-1

>SMED30003855-orf-1 ID=SMED30003855-orf-1|Name=SMED30003855-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=132bp
MNYKHLIQNCGFIFKEFELINDKYFKFLLNTDINEITFDKNLIKTLGLPI
QRYLQDAKNNEGSSKPKIIKFHRQLFIYINLIDPIIVGDSNVPLLKSVWI
EKHEHDKVVQIQIENPMHFHVSTSCINNIEIN
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protein sequence of SMED30003855-orf-2

>SMED30003855-orf-2 ID=SMED30003855-orf-2|Name=SMED30003855-orf-2|organism=Schmidtea mediterranea sexual|type=polypeptide|length=267bp
LDRIKINHYSVHSQYKAAHVERFNRTLRDRLKKYFVHQGNKIWINVLPKI
LVSYNNSSHRGLNGLRPVDISSKTLAKSVRSKTVAITKPKYKVGDHVRIS
KISASPFIKNFDSNWSDEVFQITKINTKQSPVMYVIKDSDNNLIQGKFYE
QELQVISKPTVFRIQKILKTKMVGKDKQYYVKWHGYQNPTWISAKDLIKL
NFYMILPINSCPNIHPDNQESKFMVDLQNPIYLNGNWEVALLDFTFVYNL
FSFYSKSKIEYKKTKL*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000074oocyte
PLANA:0000099neuron
PLANA:0000136whole organism
PLANA:0000231vitelline gland
PLANA:0002089reproductive organ
Vocabulary: INTERPRO
TermDefinition
IPR000953Chromo/chromo_shadow_dom
IPR012337RNaseH-like_sf
IPR001584Integrase_cat-core
IPR016197Chromo-like_dom_sf
Vocabulary: molecular function
TermDefinition
GO:0003676nucleic acid binding
Vocabulary: biological process
TermDefinition
GO:0015074DNA integration