SMED30002490

Overview
NameSMED30002490
Smed IDSMED30002490
Length (bp)1839
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 SMED30002490 (SMED30002490) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30002490 (SMED30002490) 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 SMED30002490 (SMED30002490) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for SMED30002490 (SMED30002490) 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



SMED30002490

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



PAGE Curations: 2

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
prepharyngeal regionSMED30002490SMESG000081143.1 SmedASXL_000579SmedAsxl_ww_GCZZ01PMID:27034770
Currie et al., 2016		whole organism asexual adult RNA-sequencing evidence
X1 cellSMED30002490SMESG000081143.1 SmedASXL_000579SmedAsxl_ww_GCZZ01PMID:26114597
Zhu et al., 2015		FACS sorted cell population asexual adult RNA-sequencing evidence
Note: Hover over icons to view figure legend
Alignments
SMED30002490 aligns in the following genomic locations:
Alignment LocationAlignment Score
v31.000349:28407..30327 -8997
Homology
[Close]
BLAST of SMED30002490 vs. Ensembl Human
Match: TOPORS (TOP1 binding arginine/serine rich protein [Source:HGNC Symbol;Acc:HGNC:21653])

HSP 1 Score: 51.2174 bits (121), Expect = 5.256e-6
Identity = 20/52 (38.46%), Postives = 30/52 (57.69%), Query Frame = 1 
Query:  178 EDDCSICIENVETVVSLDTCLHEFCLLCLCKWLSMHNLCPKCKQVPSNLLYH 333
            +  C IC++  + V  LD CLH+FC  C+ +W      CP CKQ P + ++H
Sbjct:  100 DSKCPICLDRFDNVSYLDRCLHKFCFRCVQEWSKNKAECPLCKQ-PFDSIFH 150
[Close]
BLAST of SMED30002490 vs. Ensembl Human
Match: TOPORS (TOP1 binding arginine/serine rich protein [Source:HGNC Symbol;Acc:HGNC:21653])

HSP 1 Score: 51.2174 bits (121), Expect = 6.039e-6
Identity = 20/52 (38.46%), Postives = 30/52 (57.69%), Query Frame = 1 
Query:  178 EDDCSICIENVETVVSLDTCLHEFCLLCLCKWLSMHNLCPKCKQVPSNLLYH 333
            +  C IC++  + V  LD CLH+FC  C+ +W      CP CKQ P + ++H
Sbjct:   35 DSKCPICLDRFDNVSYLDRCLHKFCFRCVQEWSKNKAECPLCKQ-PFDSIFH 85
[Close]
BLAST of SMED30002490 vs. Ensembl Fly
Match: Topors (gene:FBgn0267351 transcript:FBtr0331977)

HSP 1 Score: 53.9138 bits (128), Expect = 3.828e-7
Identity = 19/59 (32.20%), Postives = 33/59 (55.93%), Query Frame = 1 
Query:  160 IKRKFKEDDCSICIENVETVVSLDTCLHEFCLLCLCKWLSMHNLCPKCKQVPSNLLYHV 336
            ++R     +C+IC+         D+C+H+FC  CLC+W  +   CP CKQ    ++++V
Sbjct:   93 VERNSPPPNCAICLSRCRRKCFTDSCMHQFCFKCLCEWSKIKPECPLCKQPFRTIIHNV 151
[Close]
BLAST of SMED30002490 vs. Ensembl Fly
Match: Topors (gene:FBgn0267351 transcript:FBtr0086570)

HSP 1 Score: 53.9138 bits (128), Expect = 3.828e-7
Identity = 19/59 (32.20%), Postives = 33/59 (55.93%), Query Frame = 1 
Query:  160 IKRKFKEDDCSICIENVETVVSLDTCLHEFCLLCLCKWLSMHNLCPKCKQVPSNLLYHV 336
            ++R     +C+IC+         D+C+H+FC  CLC+W  +   CP CKQ    ++++V
Sbjct:   93 VERNSPPPNCAICLSRCRRKCFTDSCMHQFCFKCLCEWSKIKPECPLCKQPFRTIIHNV 151
[Close]
BLAST of SMED30002490 vs. Ensembl Zebrafish
Match: toporsa (topoisomerase I binding, arginine/serine-rich a [Source:ZFIN;Acc:ZDB-GENE-030131-6401])

HSP 1 Score: 56.9954 bits (136), Expect = 6.444e-8
Identity = 23/55 (41.82%), Postives = 31/55 (56.36%), Query Frame = 1 
Query:  178 EDDCSICIENVETVVSLDTCLHEFCLLCLCKWLSMHNLCPKCKQVPSNLLYHVDK 342
            E  C IC+++ + +  LD CLH+FC  C+ +W      CP CKQ P N  YH  K
Sbjct:   25 ESKCPICLDHFKNISYLDVCLHKFCFCCIHEWSKNKAECPLCKQ-PFNSFYHTIK 78
[Close]
BLAST of SMED30002490 vs. Ensembl Zebrafish
Match: toporsb (topoisomerase I binding, arginine/serine-rich b [Source:ZFIN;Acc:ZDB-GENE-110728-3])

HSP 1 Score: 55.0694 bits (131), Expect = 2.270e-7
Identity = 31/98 (31.63%), Postives = 47/98 (47.96%), Query Frame = 1 
Query:  118 VKRKSLENNECRILIKRKFKEDDCSICIENVETVVSLDTCLHEFCLLCLCKWLSMHNLCPKCKQVPSNLLYHVDKDSFLLSLPLNDFKQ--IWNKTNF 405
            V++K   +   + L+     +  C IC++    V SLD CLH+FC  C+ +W      CP CKQ P + ++H  K         NDFK+  +W   N 
Sbjct:   10 VRKKDSASKTSQRLLANASPDSKCPICLDGFNNVASLDRCLHQFCFRCIHEWSKNKAECPLCKQ-PFHSIFHSVKGE-------NDFKEFVLWPPENG 99
[Close]
BLAST of SMED30002490 vs. Ensembl Zebrafish
Match: toporsa (topoisomerase I binding, arginine/serine-rich a [Source:ZFIN;Acc:ZDB-GENE-030131-6401])

HSP 1 Score: 50.0618 bits (118), Expect = 8.148e-7
Identity = 22/53 (41.51%), Postives = 30/53 (56.60%), Query Frame = 1 
Query:  178 EDDCSICIENVETVVSLDTCLHEFCLLCLCKWLSMHNLCPKCKQVPSNLLYHV 336
            E  C IC+++ + +  LD CLH+FC  C+ +W      CP CKQ P N  YH 
Sbjct:   25 ESKCPICLDHFKNISYLDVCLHKFCFCCIHEWSKNKAECPLCKQ-PFNSFYHT 76
[Close]
BLAST of SMED30002490 vs. Ensembl Xenopus
Match: TOPORS (topoisomerase I binding, arginine/serine-rich, E3 ubiquitin protein ligase [Source:NCBI gene;Acc:734040])

HSP 1 Score: 50.8322 bits (120), Expect = 6.335e-6
Identity = 24/69 (34.78%), Postives = 34/69 (49.28%), Query Frame = 1 
Query:  178 EDDCSICIENVETVVSLDTCLHEFCLLCLCKWLSMHNLCPKCKQVPSNLLYHVDKDSFLLSLPLNDFKQ 384
            +  C IC++  + V  LD CLH FC  C+ +W      CP CKQ P   ++H  K         +DFK+
Sbjct:   56 DSKCPICLDRFDNVSHLDRCLHRFCFRCIQEWAKNKAECPLCKQ-PFYSIFHSVKAE-------DDFKE 116
[Close]
BLAST of SMED30002490 vs. Ensembl Mouse
Match: Topors (topoisomerase I binding, arginine/serine-rich [Source:MGI Symbol;Acc:MGI:2146189])

HSP 1 Score: 51.2174 bits (121), Expect = 3.599e-6
Identity = 20/52 (38.46%), Postives = 30/52 (57.69%), Query Frame = 1 
Query:  178 EDDCSICIENVETVVSLDTCLHEFCLLCLCKWLSMHNLCPKCKQVPSNLLYH 333
            +  C IC++  + V  LD CLH+FC  C+ +W      CP CKQ P + ++H
Sbjct:  101 DSKCPICLDRFDNVSYLDRCLHKFCFRCVQEWSKNKAECPLCKQ-PFDSIFH 151
[Close]
BLAST of SMED30002490 vs. UniProt/SwissProt
Match: sp|P29129|ICP0_SUHVF (E3 ubiquitin-protein ligase ICP0 OS=Suid herpesvirus 1 (strain Indiana-Funkhauser / Becker) OX=31523 GN=EP0 PE=2 SV=1)

HSP 1 Score: 56.225 bits (134), Expect = 5.285e-7
Identity = 21/68 (30.88%), Postives = 35/68 (51.47%), Query Frame = 1 
Query:  184 DCSICIENVETVVSLDTCLHEFCLLCLCKWLSMHNLCPKCKQVPSNLLYHVDKDSFLLSLPLNDFKQI 387
            DC IC++   T      C+H+FCL C+ +W      CP C    +++L+HVD D+  +  P+     +
Sbjct:   45 DCPICLDVAATEAQTLPCMHKFCLDCIQRWTLTSTACPLCNARVTSILHHVDSDASFVETPVEGATDV 112
[Close]
BLAST of SMED30002490 vs. UniProt/SwissProt
Match: sp|Q9V8P9|TOPRS_DROME (E3 ubiquitin-protein ligase Topors OS=Drosophila melanogaster OX=7227 GN=Topors PE=1 SV=1)

HSP 1 Score: 53.9138 bits (128), Expect = 3.837e-6
Identity = 19/59 (32.20%), Postives = 33/59 (55.93%), Query Frame = 1 
Query:  160 IKRKFKEDDCSICIENVETVVSLDTCLHEFCLLCLCKWLSMHNLCPKCKQVPSNLLYHV 336
            ++R     +C+IC+         D+C+H+FC  CLC+W  +   CP CKQ    ++++V
Sbjct:   93 VERNSPPPNCAICLSRCRRKCFTDSCMHQFCFKCLCEWSKIKPECPLCKQPFRTIIHNV 151
[Close]
BLAST of SMED30002490 vs. TrEMBL
Match: A0A3M0LJZ3 (RING-type domain-containing protein OS=Hirundo rustica rustica OX=333673 GN=DUI87_04048 PE=4 SV=1)

HSP 1 Score: 62.7734 bits (151), Expect = 2.109e-7
Identity = 27/73 (36.99%), Postives = 42/73 (57.53%), Query Frame = 1 
Query:  187 CSICIENVETVVSLDTCLHEFCLLCLCKWLSMHNLCPKCKQVPSNLLYHVDKDSFLLSLPLNDFKQI-WNKTN 402
            C IC+ +V+    +DTCLH FC  C+ +W ++   CP C+Q    +L+ V  D        +D+++I WNKTN
Sbjct:   33 CPICLGDVDNAAHVDTCLHTFCFGCIRQWAAVRAACPLCRQRFGRILHTVRAD--------DDYEEITWNKTN 97
[Close]
BLAST of SMED30002490 vs. Ensembl Cavefish
Match: toporsb (E3 ubiquitin-protein ligase Topors-like [Source:NCBI gene;Acc:103043679])

HSP 1 Score: 55.8398 bits (133), Expect = 1.268e-7
Identity = 28/89 (31.46%), Postives = 40/89 (44.94%), Query Frame = 1 
Query:  118 VKRKSLENNECRILIKRKFKEDDCSICIENVETVVSLDTCLHEFCLLCLCKWLSMHNLCPKCKQVPSNLLYHVDKDSFLLSLPLNDFKQ 384
            +++K       R L+     +  C IC++      SLD CLH FC  C+ +W      CP CKQ P   ++H  K         NDFK+
Sbjct:   10 MRKKEAGAKSSRRLLTETSPDSKCPICLDRFNNAASLDRCLHRFCFRCIHEWSKNKAECPLCKQ-PFRSIFHSVKAE-------NDFKE 90
[Close]
BLAST of SMED30002490 vs. Ensembl Cavefish
Match: toporsb (E3 ubiquitin-protein ligase Topors-like [Source:NCBI gene;Acc:103043679])

HSP 1 Score: 55.8398 bits (133), Expect = 1.268e-7
Identity = 28/89 (31.46%), Postives = 40/89 (44.94%), Query Frame = 1 
Query:  118 VKRKSLENNECRILIKRKFKEDDCSICIENVETVVSLDTCLHEFCLLCLCKWLSMHNLCPKCKQVPSNLLYHVDKDSFLLSLPLNDFKQ 384
            +++K       R L+     +  C IC++      SLD CLH FC  C+ +W      CP CKQ P   ++H  K         NDFK+
Sbjct:   10 MRKKEAGAKSSRRLLTETSPDSKCPICLDRFNNAASLDRCLHRFCFRCIHEWSKNKAECPLCKQ-PFRSIFHSVKAE-------NDFKE 90
[Close]
BLAST of SMED30002490 vs. Ensembl Cavefish
Match: toporsb (E3 ubiquitin-protein ligase Topors-like [Source:NCBI gene;Acc:103043679])

HSP 1 Score: 55.8398 bits (133), Expect = 1.268e-7
Identity = 28/89 (31.46%), Postives = 40/89 (44.94%), Query Frame = 1 
Query:  118 VKRKSLENNECRILIKRKFKEDDCSICIENVETVVSLDTCLHEFCLLCLCKWLSMHNLCPKCKQVPSNLLYHVDKDSFLLSLPLNDFKQ 384
            +++K       R L+     +  C IC++      SLD CLH FC  C+ +W      CP CKQ P   ++H  K         NDFK+
Sbjct:   10 MRKKEAGAKSSRRLLTETSPDSKCPICLDRFNNAASLDRCLHRFCFRCIHEWSKNKAECPLCKQ-PFRSIFHSVKAE-------NDFKE 90
[Close]
BLAST of SMED30002490 vs. Ensembl Cavefish
Match: toporsa (topoisomerase I binding, arginine/serine-rich a [Source:ZFIN;Acc:ZDB-GENE-030131-6401])

HSP 1 Score: 50.8322 bits (120), Expect = 4.415e-6
Identity = 20/61 (32.79%), Postives = 30/61 (49.18%), Query Frame = 1 
Query:  151 RILIKRKFKEDDCSICIENVETVVSLDTCLHEFCLLCLCKWLSMHNLCPKCKQVPSNLLYH 333
            + + K    +  C IC++    +  +D CLH FC  C+ +W      CP CKQ P   +YH
Sbjct:   60 KTISKEASPDSKCPICLDGFRNISYVDKCLHRFCFRCIQEWAKNKAECPLCKQ-PFTSIYH 119
[Close]
BLAST of SMED30002490 vs. Ensembl Medaka
Match: ENSORLT00000038210.1 (pep primary_assembly:ASM223467v1:1:15572725:15576894:1 gene:ENSORLG00000022960.1 transcript:ENSORLT00000038210.1 gene_biotype:protein_coding transcript_biotype:protein_coding)

HSP 1 Score: 45.4394 bits (106), Expect = 4.847e-6
Identity = 25/60 (41.67%), Postives = 33/60 (55.00%), Query Frame = 1 
Query:  178 EDDCSICIENVETVVSLDTCLHEFCLLCLCKWLSMHNLCPKCKQVPSNLLYHVDKDSFLL 357
            +  C IC++    V  LD CLH+FC  C+ +W      CP CKQ P N +YH  K+SF  
Sbjct:    8 DSKCPICLDGFHNVSYLDRCLHKFCFRCILEWSKNKAECPLCKQ-PFNTIYH-KKNSFCC 65
[Close]
BLAST of SMED30002490 vs. Planmine SMEST
Match: SMESG000062719.1 (SMESG000062719.1)

HSP 1 Score: 246.514 bits (628), Expect = 2.562e-75
Identity = 147/387 (37.98%), Postives = 230/387 (59.43%), Query Frame = 1 
Query:  106 VTRAVKRKSLENNECRI------LIKRKFKEDDCSICIENVETVVSLDTCLHEFCLLCLCKWLSMHNLCPKCKQVPSNLLYHVDKDSFLLSLPLND-FKQIWNKTNFIMEIFSIKQHKINKLNAIFKIFLTILDVTVELQRKLLYFCDMKTILPKFSKLKWNPDQIYFDSNHKIWEWLKIELNVFYPKLFVEKRIQLLQNQVKNYESLKKKLSDSLPEPILSKFLSEMNTFLSYFHSTEKYYKNSFVIVQGRVPG---NVLQSVIIENQYINVSLLAKIIVEKVLNFDSKPEEFDYMTPAFEISHVHRLXXXXXXXXXXXXXXTEKIFS--NFISLRLERSVVFRKKKILPTYNNCYELDEDYQFIYLNFLKD------QLKNSTPN 1212
            +TR+  RK     +C +      +IKRKF E+ C+IC++N+   ++LDTCLHEFCL C+C WL     CP+CKQ+P  LLY +  DSF   + L+  F++ W K N I++ FS + + I KL  +   FL    +T++ QR  +YFC+MKT L K  ++ WNPD +  D +HKIW WL IEL+VF+    V+K I   Q +V NY  L K+LS  LP+   S F++EMNTF+S+F S + YY     ++  R+     + ++S + +   +N S L+K++  K+   +++  + D +   FEISH+  L   I+   +   G+ E I +  +FI+LR+ RS+     K +  Y NCY+L+E Y++IYL++L+D      Q++NST +
Sbjct:    4 ITRSSNRK-----DCTVKIVEQEIIKRKFIEETCAICMDNIRHCIALDTCLHEFCLDCICNWLLKAVSCPQCKQIPHVLLYKIQNDSFTSGIRLDKKFEEEWLKHNLIVDFFSNRTYYIKKLKKLLISFLKNFKLTIQCQRIFVYFCNMKTTLFKRYQIPWNPDNLTIDPSHKIWHWLSIELSVFFESSTVKKSISNFQIKVFNYRDLVKELSALLPDRFRSLFIAEMNTFISFFDSCDNYY----YLLDARLVSCDISGMKSWVFDKGRVNFSFLSKVLTGKIFQLENRNVDNDSLMTIFEISHIESL-VKILISTEGSVGEDEVILNLFSFINLRIRRSISESFHKDIQ-YKNCYQLNETYKYIYLSYLQDELSKLSQIENSTSS 379
[Close]
BLAST of SMED30002490 vs. Planmine SMEST
Match: SMESG000081165.1 (SMESG000081165.1)

HSP 1 Score: 230.72 bits (587), Expect = 2.507e-69
Identity = 132/358 (36.87%), Postives = 206/358 (57.54%), Query Frame = 1 
Query:  142 NECRILIKRKFKEDDCSICIENVETVVSLDTCLHEFCLLCLCKWLSMHNLCPKCKQVPSNLLYHVDKDSFLLSLPLN-DFKQIWNKTNFIMEIFSIKQHKINKLNAIFKIFLTILDVTVELQRKLLYFCDMKTILPKFSKLKWNPDQIYFDSNHKIWEWLKIELNVFYPKLFVEKRIQLLQNQVKNYESLKKKLSDSLPEPILSKFLSEMNTFLSYFHSTEKYYKNSFV-IVQGRVPGNVLQSVIIENQYINVSLLAKIIVEKVLNFDSKPEEF--DYMTPAFEISHV-HRLXXXXXXXXXXXXXXTEKIFSNFISLRLERSV--VFRKKKILPTYNNCYELDEDYQFIYLNFLKDQL 1194
            N+    I+RKFKED C IC++ ++ +++L+ CLHEFCL C+  WL  H  CPKCKQ+P +++Y V  D F   + LN  F   W +   IM  FS +  K+  L    +     +  +V+ QRKLLYFC MKT L K  K + +  Q+  +S+HKIW+WLKIEL+VFY K  V+K ++  Q+ +  Y  L   LS  + +P+L +FL EM+ FLS+F S E YY  + + +V G++P NV  SVII+   IN+ + ++++V K+   + +  +   D +   +EISHV H     + + +   K     + + F+SLRL RS+           +Y + + L  +Y +IYL+  +DQ+
Sbjct:    4 NDLTTPIQRKFKEDICPICMDTIKNLIALNPCLHEFCLNCIGMWLVKHFSCPKCKQIPYSIIYKVTNDFFHSFITLNVTFVDAWMQRGLIMRFFSTRSQKMQTLRKRLRFLFKDISYSVDFQRKLLYFCGMKTTLFKKYKTREDFQQLSLNSSHKIWQWLKIELSVFYTKDQVDKILRSYQSDLSTYSELVTYLSMFIRKPVLKRFLEEMDAFLSFFGSCENYYDFTNIKMVSGKLPENVCDSVIIDAGAINLGVFSRLLVHKIFELELENVDINSDKLMAVYEISHVNHITDTIVTENQTKTKDDCIAMLTKFMSLRLRRSISSFVTSNSTQYSYGDYFNLIPEYAYIYLSCYRDQI 361
[Close]
BLAST of SMED30002490 vs. Planmine SMEST
Match: SMESG000081165.1 (SMESG000081165.1)

HSP 1 Score: 221.476 bits (563), Expect = 9.999e-66
Identity = 132/370 (35.68%), Postives = 206/370 (55.68%), Query Frame = 1 
Query:  142 NECRILIKRKFKEDDCSICIENVETVVSLDTCLHEFCLLCLCKWLSMHNLCPKCKQVPSNLLYHVDKDSFLLSLPLN-DFKQIWNKTNFIMEIFSIKQHKINKLNAIFKIFLTILDVTVELQRKLLYFCDMKTILPKFSKLK------------WNPDQIYFDSNHKIWEWLKIELNVFYPKLFVEKRIQLLQNQVKNYESLKKKLSDSLPEPILSKFLSEMNTFLSYFHSTEKYYKNSFV-IVQGRVPGNVLQSVIIENQYINVSLLAKIIVEKVLNFDSKPEEF--DYMTPAFEISHV-HRLXXXXXXXXXXXXXXTEKIFSNFISLRLERSV--VFRKKKILPTYNNCYELDEDYQFIYLNFLKDQL 1194
            N+    I+RKFKED C IC++ ++ +++L+ CLHEFCL C+  WL  H  CPKCKQ+P +++Y V  D F   + LN  F   W +   IM  FS +  K+  L    +     +  +V+ QRKLLYFC MKT L K  K +             +  Q+  +S+HKIW+WLKIEL+VFY K  V+K ++  Q+ +  Y  L   LS  + +P+L +FL EM+ FLS+F S E YY  + + +V G++P NV  SVII+   IN+ + ++++V K+   + +  +   D +   +EISHV H     + + +   K     + + F+SLRL RS+           +Y + + L  +Y +IYL+  +DQ+
Sbjct:    4 NDLTTPIQRKFKEDICPICMDTIKNLIALNPCLHEFCLNCIGMWLVKHFSCPKCKQIPYSIIYKVTNDFFHSFITLNVTFVDAWMQRGLIMRFFSTRSQKMQTLRKRLRFLFKDISYSVDFQRKLLYFCGMKTTLFKKYKTREYQCESIRSYKIRDFQQLSLNSSHKIWQWLKIELSVFYTKDQVDKILRSYQSDLSTYSELVTYLSMFIRKPVLKRFLEEMDAFLSFFGSCENYYDFTNIKMVSGKLPENVCDSVIIDAGAINLGVFSRLLVHKIFELELENVDINSDKLMAVYEISHVNHITDTIVTENQTKTKDDCIAMLTKFMSLRLRRSISSFVTSNSTQYSYGDYFNLIPEYAYIYLSCYRDQI 373
[Close]
BLAST of SMED30002490 vs. Planmine SMEST
Match: SMESG000081143.1 (SMESG000081143.1)

HSP 1 Score: 174.481 bits (441), Expect = 6.121e-52
Identity = 114/114 (100.00%), Postives = 114/114 (100.00%), Query Frame = 1 
Query:  964 MTPAFEISHVHRLXXXXXXXXXXXXXXTEKIFSNFISLRLERSVVFRKKKILPTYNNCYELDEDYQFIYLNFLKDQLKNSTPNSMLNKXXXXXXXXXXXXRKSAGQITIDLTGE 1305
            MTPAFEISHVHRLIKSIIKQKDSDKGKTEKIFSNFISLRLERSVVFRKKKILPTYNNCYELDEDYQFIYLNFLKDQLKNSTPNSMLNKSSIDSDPFFSSSRKSAGQITIDLTGE
Sbjct:    1 MTPAFEISHVHRLIKSIIKQKDSDKGKTEKIFSNFISLRLERSVVFRKKKILPTYNNCYELDEDYQFIYLNFLKDQLKNSTPNSMLNKSSIDSDPFFSSSRKSAGQITIDLTGE 114
[Close]
BLAST of SMED30002490 vs. Planmine SMEST
Match: SMESG000062719.1 (SMESG000062719.1)

HSP 1 Score: 133.265 bits (334), Expect = 5.734e-35
Identity = 84/227 (37.00%), Postives = 135/227 (59.47%), Query Frame = 1 
Query:  529 MKTILPKFSKLKWNPDQIYFDSNHKIWEWLKIELNVFYPKLFVEKRIQLLQNQVKNYESLKKKLSDSLPEPILSKFLSEMNTFLSYFHSTEKYYKNSFVIVQGRVPG---NVLQSVIIENQYINVSLLAKIIVEKVLNFDSKPEEFDYMTPAFEISHVHRLXXXXXXXXXXXXXXTEKIFS--NFISLRLERSVVFRKKKILPTYNNCYELDEDYQFIYLNFLKDQL 1194
            MKT L K  ++ WNPD +  D +HKIW WL IEL+VF+    V+K I   Q +V NY  L K+LS  LP+   S F++EMNTF+S+F S + YY     ++  R+     + ++S + +   +N S L+K++  K+   +++  + D +   FEISH+  L   I+   +   G+ E I +  +FI+LR+ RS+     K +  Y NCY+L+E Y++IYL++L+D+L
Sbjct:    1 MKTTLFKRYQIPWNPDNLTIDPSHKIWHWLSIELSVFFESSTVKKSISNFQIKVFNYRDLVKELSALLPDRFRSLFIAEMNTFISFFDSCDNYY----YLLDARLVSCDISGMKSWVFDKGRVNFSFLSKVLTGKIFQLENRNVDNDSLMTIFEISHIESL-VKILISTEGSVGEDEVILNLFSFINLRIRRSISESFHKDIQ-YKNCYQLNETYKYIYLSYLQDEL 221
The following BLAST results are available for this feature:
BLAST of SMED30002490 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 2
Match NameE-valueIdentityDescription
TOPORS5.256e-638.46TOP1 binding arginine/serine rich protein [Source:... [more]
TOPORS6.039e-638.46TOP1 binding arginine/serine rich protein [Source:... [more]
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BLAST of SMED30002490 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 SMED30002490 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99)
Total hits: 2
Match NameE-valueIdentityDescription
Topors3.828e-732.20gene:FBgn0267351 transcript:FBtr0331977[more]
Topors3.828e-732.20gene:FBgn0267351 transcript:FBtr0086570[more]
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BLAST of SMED30002490 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 3
Match NameE-valueIdentityDescription
toporsa6.444e-841.82topoisomerase I binding, arginine/serine-rich a [S... [more]
toporsb2.270e-731.63topoisomerase I binding, arginine/serine-rich b [S... [more]
toporsa8.148e-741.51topoisomerase I binding, arginine/serine-rich a [S... [more]
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BLAST of SMED30002490 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 1
Match NameE-valueIdentityDescription
TOPORS6.335e-634.78topoisomerase I binding, arginine/serine-rich, E3 ... [more]
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BLAST of SMED30002490 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 1
Match NameE-valueIdentityDescription
Topors3.599e-638.46topoisomerase I binding, arginine/serine-rich [Sou... [more]
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BLAST of SMED30002490 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 2
Match NameE-valueIdentityDescription
sp|P29129|ICP0_SUHVF5.285e-730.88E3 ubiquitin-protein ligase ICP0 OS=Suid herpesvir... [more]
sp|Q9V8P9|TOPRS_DROME3.837e-632.20E3 ubiquitin-protein ligase Topors OS=Drosophila m... [more]
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BLAST of SMED30002490 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 1
Match NameE-valueIdentityDescription
A0A3M0LJZ32.109e-736.99RING-type domain-containing protein OS=Hirundo rus... [more]
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BLAST of SMED30002490 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 4
Match NameE-valueIdentityDescription
toporsb1.268e-731.46E3 ubiquitin-protein ligase Topors-like [Source:NC... [more]
toporsb1.268e-731.46E3 ubiquitin-protein ligase Topors-like [Source:NC... [more]
toporsb1.268e-731.46E3 ubiquitin-protein ligase Topors-like [Source:NC... [more]
toporsa4.415e-632.79topoisomerase I binding, arginine/serine-rich a [S... [more]
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BLAST of SMED30002490 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 SMED30002490 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 SMED30002490 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 SMED30002490 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 1
Match NameE-valueIdentityDescription
ENSORLT00000038210.14.847e-641.67pep primary_assembly:ASM223467v1:1:15572725:155768... [more]
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BLAST of SMED30002490 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 5
Match NameE-valueIdentityDescription
SMESG000062719.12.562e-7537.98SMESG000062719.1[more]
SMESG000081165.12.507e-6936.87SMESG000081165.1[more]
SMESG000081165.19.999e-6635.68SMESG000081165.1[more]
SMESG000081143.16.121e-52100.00SMESG000081143.1[more]
SMESG000062719.15.734e-3537.00SMESG000062719.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30002490 ID=SMED30002490|Name=SMED30002490|organism=Schmidtea mediterranea sexual|type=transcript|length=1839bp
CCGAAGTATAAATACAACTTTGTTTAAATAATTATTTAATTCTTTAATTT
AAATAATTTTATATCAATTTTTTATAAACTTTTAATATCAATGTTCCAAA
ATTATGTTACTAGGGCTGTTAAACGAAAATCTTTAGAAAATAATGAATGC
AGAATATTAATAAAAAGAAAGTTTAAAGAAGATGATTGTTCTATATGCAT
TGAAAATGTCGAAACTGTGGTTTCGCTGGATACTTGCCTTCATGAATTTT
GTCTACTTTGTTTATGTAAATGGTTATCAATGCATAATTTGTGCCCCAAG
TGTAAACAAGTTCCTAGTAATTTATTGTATCACGTTGATAAAGATAGTTT
TCTTTTATCTCTACCTTTAAATGATTTCAAACAGATCTGGAATAAAACAA
ATTTTATTATGGAAATATTTTCAATCAAACAACATAAAATAAACAAATTG
AATGCTATTTTTAAAATTTTTTTAACAATACTTGATGTTACTGTTGAATT
ACAAAGAAAACTATTATATTTCTGTGATATGAAAACTATTTTACCTAAGT
TTTCCAAATTAAAATGGAATCCTGATCAAATATATTTTGATTCTAATCAT
AAAATTTGGGAATGGTTAAAAATTGAATTAAATGTGTTTTATCCAAAATT
GTTTGTTGAAAAACGTATCCAACTATTACAAAATCAAGTAAAGAATTATG
AGAGTCTAAAGAAAAAACTTTCTGATTCTCTACCAGAGCCAATTCTCTCC
AAATTTCTGTCAGAAATGAATACATTTCTCTCGTATTTTCATTCCACTGA
AAAATATTATAAAAACAGCTTTGTAATAGTGCAAGGCCGCGTTCCCGGTA
ACGTGCTCCAGTCGGTTATCATTGAGAACCAATATATCAATGTTTCGTTG
TTGGCGAAAATTATCGTCGAGAAAGTTCTAAATTTCGACTCGAAACCGGA
GGAATTCGATTACATGACTCCAGCATTTGAGATTAGCCATGTCCATAGGC
TGATTAAATCAATCATCAAACAAAAGGATTCGGATAAAGGGAAAACCGAG
AAAATTTTTTCGAATTTCATTTCATTGCGACTCGAGAGAAGCGTTGTTTT
TAGGAAGAAGAAAATCCTACCTACATACAACAACTGCTATGAGTTGGATG
AGGATTATCAATTTATTTATTTGAATTTCCTGAAAGACCAACTGAAGAAC
TCAACGCCAAATTCCATGCTCAATAAATCCTCTATTGATTCTGATCCATT
TTTCAGCAGCTCCAGGAAATCCGCTGGACAGATCACGATTGATTTGACTG
GCGAGTGAATTCATTCATTCCTTCCGATATTTGTTATTTAATTATCAAAT
TGTGATTGTGTCCTTATAGTTCTTGTCACTTTTACACCAAAGGTGATCGA
TAGGAGGCTTTTTTTTACTTAATATATAATTTAACCAATCAGCTGCCAAC
AGTTTAAAAATGTTCTATTTGAGCACTCCTGATTTTGGCTTGCTATTTTG
ATGTTTTAATATTCTCTAGTTTATGAAATATTTATGTGAGATTGTTGATT
TTTATTCGGTTGATTTGTCCAATTCCGAATGCGCATTATGCTATACTCAA
AATATTTATTTAAAAAAAATTACAATAAAAATAAAACGTTCAATTAAGCT
GTTGTTGTGTTCCTAAATATATTGGTGCGTATTATGTAATAAATGTGAGT
ATGTTTGATTATCTCTTGTCTGTCGGATCTATTTCAACTTTAAACTTGTG
ATTTATTGGATCAGGAATAAGTGTTCGAGATTAATTTTTGAAGGGCGAAA
TTTTGTTCCTTGTACATATTCTGTGAATAGACTAATCTG
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protein sequence of SMED30002490-orf-1

>SMED30002490-orf-1 ID=SMED30002490-orf-1|Name=SMED30002490-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=406bp
MFQNYVTRAVKRKSLENNECRILIKRKFKEDDCSICIENVETVVSLDTCL
HEFCLLCLCKWLSMHNLCPKCKQVPSNLLYHVDKDSFLLSLPLNDFKQIW
NKTNFIMEIFSIKQHKINKLNAIFKIFLTILDVTVELQRKLLYFCDMKTI
LPKFSKLKWNPDQIYFDSNHKIWEWLKIELNVFYPKLFVEKRIQLLQNQV
KNYESLKKKLSDSLPEPILSKFLSEMNTFLSYFHSTEKYYKNSFVIVQGR
VPGNVLQSVIIENQYINVSLLAKIIVEKVLNFDSKPEEFDYMTPAFEISH
VHRLIKSIIKQKDSDKGKTEKIFSNFISLRLERSVVFRKKKILPTYNNCY
ELDEDYQFIYLNFLKDQLKNSTPNSMLNKSSIDSDPFFSSSRKSAGQITI
DLTGE*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000419prepharyngeal region
PLANA:0002109X1 cell
Vocabulary: INTERPRO
TermDefinition
IPR001841Znf_RING
IPR018957Znf_C3HC4_RING-type
IPR013083Znf_RING/FYVE/PHD
IPR017907Znf_RING_CS
Vocabulary: molecular function
TermDefinition
GO:0008270zinc ion binding
GO:0005515protein binding
GO:0046872metal ion binding
GO:0016874ligase activity
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availableCOILSCoilCoilcoord: 186..213
NoneNo IPR availableSUPERFAMILYSSF57850RING/U-boxcoord: 26..76
IPR001841Zinc finger, RING-typeSMARTSM00184ring_2coord: 33..71
e-value: 0.0016
score: 27.7
IPR001841Zinc finger, RING-typePROSITEPS50089ZF_RING_2coord: 33..72
score: 11.442
IPR018957Zinc finger, C3HC4 RING-typePFAMPF00097zf-C3HC4coord: 33..71
e-value: 6.8E-6
score: 25.8
IPR013083Zinc finger, RING/FYVE/PHD-typeGENE3DG3DSA:3.30.40.10coord: 18..108
e-value: 6.2E-10
score: 40.8
IPR017907Zinc finger, RING-type, conserved sitePROSITEPS00518ZF_RING_1coord: 49..58