Root phototropism protein 2

Overview
NameRoot phototropism protein 2
Smed IDSMED30016446
Length (bp)1989
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 Root phototropism protein 2 (SMED30016446) t-SNE clustered cells

Violin plots show distribution of expression levels for Root phototropism protein 2 (SMED30016446) 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 Root phototropism protein 2 (SMED30016446) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for Root phototropism protein 2 (SMED30016446) 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



SMED30016446

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



PAGE Curations: 11

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
head regionSMED30016446h1SMcG0002888 SmedASXL_012687SmedAsxl_ww_GCZZ01PMID:27034770
Currie et al., 2016		whole organism asexual adult RNA-sequencing evidence
pharynxSMED30016446h1SMcG0002888 dd_Smed_v4_8081_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
nervous systemSMED30016446h1SMcG0002888 dd_Smed_v4_8081_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30016446h1SMcG0002888 dd_Smed_v4_8081_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30016446h1SMcG0002888 dd_Smed_v4_8081_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neuronSMED30016446h1SMcG0002888 dd_Smed_v4_8081_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		whole organism asexual adult colorimetric in situ hybridization evidence
non-ciliated neuronSMED30016446h1SMcG0002888 dd_Smed_v4_8081_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
head regionSMED30016446h1SMcG0002888 dd_Smed_v6_8081_0_1dd_Smed_v6PMID:28171748
Stückemann et al., 2017		whole organism asexual adult RNA-sequencing evidence
head regionSMED30016446h1SMcG0002888 OX_Smed_1.0.01926ox_Smed_v2PMID:24238224
Kao et al., 2013		whole organism asexual adult RNA-sequencing evidence
epidermisSMED30016446h1SMcG0002888 dd_Smed_v4_8081_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017		whole organism asexual adult single-cell RNA-sequencing evidence
ciliated epithelial cellSMED30016446h1SMcG0002888 dd_Smed_v4_8081_0_1dd_Smed_v4PMID:28292427
Wurtzel et al., 2017		whole organism asexual adult single-cell RNA-sequencing evidence
Note: Hover over icons to view figure legend
Homology
[Close]
BLAST of Root phototropism protein 2 vs. UniProt/SwissProt
Match: sp|Q9FYC8|Y3482_ARATH (BTB/POZ domain-containing protein At3g44820 OS=Arabidopsis thaliana OX=3702 GN=At3g44820 PE=2 SV=2)

HSP 1 Score: 77.7962 bits (190), Expect = 1.453e-13
Identity = 41/106 (38.68%), Postives = 63/106 (59.43%), Query Frame = 1 
Query:  160 SDICVEIDDQEFNLHKFPLSINC--------DYFKTECKNQNKVILKNFPGGKASFEMIADHCYGKEVELTIENVSVMLCAAEYLGMT---GKKNLLEKCKKFIDR 444
            SDI V +DD +F+LHKFPL   C        D   T+ ++    +L+ FPGG  +F ++A  CYG  V++T +N+  + CAAEYL MT   G+ NL+ + + F+ +
Sbjct:   25 SDITVVVDDVKFHLHKFPLVSKCGKLARMYEDSKSTDKQSLWTTVLEEFPGGADNFLIVARFCYGARVDITSKNLVSIHCAAEYLEMTNEYGEDNLISQVETFLHK 130
[Close]
BLAST of Root phototropism protein 2 vs. UniProt/SwissProt
Match: sp|Q9FMF5|RPT3_ARATH (Root phototropism protein 3 OS=Arabidopsis thaliana OX=3702 GN=RPT3 PE=1 SV=2)

HSP 1 Score: 77.411 bits (189), Expect = 2.033e-13
Identity = 48/127 (37.80%), Postives = 73/127 (57.48%), Query Frame = 1 
Query:  160 SDICVEIDDQEFNLHKFPL-----SINCDYFKTECKNQNKVILKNFPGGKASFEMIADHCYGKEVELTIENVSVMLCAAEYLGMT---GKKNLLEKCKKFIDRIFRASEYSRCIDSIIEYLESCRKL 516
            SD+ V+I D  F+LHK+PL      +N   +++   +   +IL + PGG  +FE+ +  CYG  V+LT  N+S + CAAEYL MT    + NL+ K + F+  +  +S      DSI+  L+SC KL
Sbjct:   54 SDLLVKIGDMNFHLHKYPLLSRSGKMNRLIYESRDPDPTILILDDLPGGPEAFELASKFCYGVPVDLTATNISGLRCAAEYLEMTEDLEEGNLIFKTEAFLSYVVLSSWR----DSIL-VLKSCEKL 175
[Close]
BLAST of Root phototropism protein 2 vs. UniProt/SwissProt
Match: sp|Q9C9Z7|Y3857_ARATH (BTB/POZ domain-containing protein At3g08570 OS=Arabidopsis thaliana OX=3702 GN=At3g08570 PE=2 SV=2)

HSP 1 Score: 76.2554 bits (186), Expect = 4.657e-13
Identity = 46/130 (35.38%), Postives = 68/130 (52.31%), Query Frame = 1 
Query:  160 SDICVEIDDQEFNLHKFPLSINCDY-------FKTECKNQNKVILKNFPGGKASFEMIADHCYGKEVELTIENVSVMLCAAEYLGMT---GKKNLLEKCKKFIDRI-FRASEYSRCIDSIIEYLESCRKL 516
             DI + +D + F LHKFPL   C          K    N +   L++FPGG  +FE+    CYG   E+TI NV  + CAA YL MT    ++NL+ + + +++++ FR+ E S      +E L SC  L
Sbjct:   36 GDITIVVDGESFLLHKFPLVARCGKIRKMVAEMKESSSNLSHTELRDFPGGSKTFELAMKFCYGINFEITISNVVAIRCAAGYLEMTEDFKEENLIARTETYLEQVAFRSLEKS------VEVLCSCETL 159
[Close]
BLAST of Root phototropism protein 2 vs. UniProt/SwissProt
Match: sp|Q66GP0|SR1P1_ARATH (BTB/POZ domain-containing protein SR1IP1 OS=Arabidopsis thaliana OX=3702 GN=SR1IP1 PE=1 SV=2)

HSP 1 Score: 75.8702 bits (185), Expect = 5.969e-13
Identity = 43/140 (30.71%), Postives = 68/140 (48.57%), Query Frame = 1 
Query:  160 SDICVEIDDQEFNLHKFPLSINCDYFKT----ECKNQNKVILK--NFPGGKASFEMIADHCYGKEVELTIENVSVMLCAAEYLGMTGKKN-------------------------LLEKCKKFIDRIFRASEYSRCIDSI 486
            SD+ V + +  F+LHKFPL   C + K       K+ +  ++K  + PGG  +FE+ A  CYG   +++ EN++++ CAAEYL MT + +                         +L K +K +    R    SRCID+I
Sbjct:   27 SDVTVHVGEASFSLHKFPLMSKCGFIKKLVSESSKDSDSTVIKIPDIPGGSEAFELAAKFCYGINFDMSTENIAMLRCAAEYLEMTEEHSVENLVVRAEAYLNEVALKSLSSSITVLHKSEKLLPIAERVKLVSRCIDAI 166
[Close]
BLAST of Root phototropism protein 2 vs. UniProt/SwissProt
Match: sp|Q9S9Q9|Y1044_ARATH (BTB/POZ domain-containing protein At1g30440 OS=Arabidopsis thaliana OX=3702 GN=At1g30440 PE=1 SV=2)

HSP 1 Score: 74.7146 bits (182), Expect = 1.422e-12
Identity = 38/106 (35.85%), Postives = 60/106 (56.60%), Query Frame = 1 
Query:  160 SDICVEIDDQEFNLHKFPLSINCDYFKTECKNQNK-------VILKNFPGGKASFEMIADHCYGKEVELTIENVSVMLCAAEYLGMT---GKKNLLEKCKKFIDRI 447
            SDI VE+ +  F+LHKFPL       +      +K       + + + PGG  +FE++A  CYG ++ELT  NV  + CAAE+L MT   G+ NL+ + + F +++
Sbjct:   28 SDIVVEVGEMSFHLHKFPLLSRSGVMERRIAEASKEGDDKCLIEISDLPGGDKTFELVAKFCYGVKLELTASNVVYLRCAAEHLEMTEEHGEGNLISQTETFFNQV 133
[Close]
BLAST of Root phototropism protein 2 vs. TrEMBL
Match: A0A1I8I678 (Uncharacterized protein OS=Macrostomum lignano OX=282301 PE=4 SV=1)

HSP 1 Score: 206.068 bits (523), Expect = 5.501e-55
Identity = 138/522 (26.44%), Postives = 246/522 (47.13%), Query Frame = 1 
Query:  127 DISKYRDNVELSDICVEIDDQEFNLHKFPLSINCDYFKTECKNQNK--VILKNFPGGKASFEMIADHCYGKEVELTIENVSVMLCAAEYLGMTGKKNLLEKCKKFIDRIFRASEYSRCIDSIIEYLE--SCRKLKSESLKSFINRGFTLILQIWLRPLSGYNSNLKEKYIEDSIVYGAILNLDDYYVNKMIKLCKGEESKYPYVSKLIVDYIEMLLVDKESENESDDKRNSKENFKRHLKRSPSNNLSNDELSQEFTIEDDSFSDSEKPQTKTKVLNSKEKSKIFDKIIKSLPNEINLGKVVSVDWLQNALEFCRKYECKTKNKLLQLCGGILIHASTEEIMSMDPKSVTEMIEQT------LTNDKVDKELMKWIWDNHFLEMAQSSELDPAVFSKVVKNMPEAHHVDPDMVFKIVLSILNNNGQNYKDE----LVDTVDLEKISPENLELAVESKFWDVEVICKAAINRLKNKDVLNLSNKYFFKESKSNFETTLNNQTKSVGYYGNANKILSNYKSPSY 1650
            D+ KYRD+ ELSD+ + ++ +E  LHKFPL I  DYFK       K  V L+ FPGG A F++IAD CY K++++++ENV+ + C AEYL M G  NL++  ++++D I R+++ SR +  I++ +   +C    +E  K    R F  ++ +W +P                        +D   V++++              +L +D+ E L     SE E    R   E   R+L R    N                     +P+  T         ++ D++I SLP    L +V+S DW++ AL    +Y C+ + +LLQL G +L     EE+  M    + +++  T            + +++  + DNH L++A++  L    F+K+  ++P  +    D +++   ++L   G++  D+    +V+ VDL +     L+ A++   +  +V+C+AAI+  + +  L +  K+  +E   +F+ T ++       YG       N  SPSY
Sbjct:    5 DLMKYRDSGELSDVTIVVEGEELKLHKFPLYIKSDYFKEVAAESGKDQVELEEFPGGAACFKVIADFCYNKKIDISLENVAQLRCGAEYLKMAGDNNLIDLTERYLDDIIRSAQMSRSLSPIVDLISRTACLGPAAEEAK-IAERCFAAVMDVWTKP----------------------GRVDALVVDRLL--------------RLPLDWFERLAKSCGSEGER-QLRPLAELATRYLHRQQQQN---------------------EPKEPT--------GEVLDRVIGSLPEPTPLAEVISGDWIRLALLASEQYSCQCRPRLLQLAGNMLHRFRQEELKQMPSPVLCDIVSSTAAAMGGDAGASGEAQVLSGVIDNHLLDLARAGSLTAEEFAKLAASVPADYRASHDTLYEAAETLL-TAGESIPDDQQKAVVEAVDLSRCEVSTLQRALDKGAFPAKVVCQAAIDLAQRQQSLQVDGKFARRE---DFKPTFSSSPSR--RYGR------NVASPSY 447
[Close]
BLAST of Root phototropism protein 2 vs. TrEMBL
Match: A0A267GL82 (Uncharacterized protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig012528g1 PE=4 SV=1)

HSP 1 Score: 196.823 bits (499), Expect = 1.017e-50
Identity = 117/495 (23.64%), Postives = 232/495 (46.87%), Query Frame = 1 
Query:  127 DISKYRDNVELSDICVEID-DQEFNLHKFPLSINCDYFKTECKNQNKVILKNFPGGKASFEMIADHCYGKEVELTIENVSVMLCAAEYLGMTGKKNLLEKCKKFIDRIFRASEYSRCIDSIIEYLESCRKLKSE------------SLKSFINRGFTLILQIWLRPLSGYNSNLKEKYIEDSIVYGAILNLDDYYVNKMIKLCKGEESKY-PYVSKLIVDYIEMLLV-----------------DKESENESDDKRNSKENFKRHLKRSPSNNLSNDELSQEFTIEDD-----SFSDSEKPQTKTKVLNSKEKSKIFDKIIKSLPNEINLGKVVSVDWLQNALEFCRKYECKTKNKLLQLCGGILIHASTEEIMSMDPKSVTEMIEQTLTNDKVDKELMKWIWDNHFLEMAQSSELDPAVFSKVVKNMPEAHHVDPDMVFKIVLSILNNNGQNYKD----ELVDTVDLEKISPENLELAVESKFWDVEVICKAAI 1491
            D+  YRD  ELSD+ V +D ++E  LH+FPL I  DYF+         +   FPGG A FE++AD CYGK +++  +N   +  AA+ LGM G+ NL +   +++D I R++++SR +  ++E L     +               ++K+   R F+ +L  W R         ++ +     V   +L L   +  +++     +  ++   +++L   Y+  + +                 D ++E       +++ +     ++    +  ND   ++     D        D  + +  ++ +  +   ++ D++I +LP    L +V+S +W+Q AL    K+ C+ + +LLQL G  L     EE+  M    + +++  ++ N  V  E++  + DNH L++A+   L+P  F K+  ++P       D ++++V ++L  +G++  D    +++  VDL +   E L+ A+E      + +C AAI
Sbjct:   12 DLVSYRDTGELSDLTVVVDSERELPLHRFPLYIKSDYFRERASESRVSLPAKFPGGSACFELVADFCYGKRIDIGPDNCVQLNAAAKLLGMGGRDNLADLTDRYLDEILRSAQHSRSMGPVVELLAKATAISQADNAEDGEADADPAVKAIAERCFSTLLDAWTR---------QQPFGSGGAVGERLLRLPLTWFARLVGAATADSDRHRRALAELSARYLHRVFLRDARLEKSKAAAAASEADGDAEQRQAAGSDAEADESSSTRQQRDGDGDNDGKKEKLPGRRDWRKTRPGEDDAEREDDSQFVPQEPAGQVLDQVILALPESTPLAEVISAEWIQQALRISEKFGCQCRGRLLQLAGNSLHKFRPEELHQMASPVLCDIVGSSVRNKGVQPEVLACVIDNHLLDLAREGSLEPDDFVKLAGSVPAEFRDGHDTLYEVVETLL-GSGKSIPDDQQQQILGMVDLSRCDVETLQRALEKGVMPAKTVCLAAI 496
[Close]
BLAST of Root phototropism protein 2 vs. TrEMBL
Match: A0A1I8GTE9 (Uncharacterized protein OS=Macrostomum lignano OX=282301 PE=4 SV=1)

HSP 1 Score: 198.749 bits (504), Expect = 1.128e-50
Identity = 119/496 (23.99%), Postives = 235/496 (47.38%), Query Frame = 1 
Query:  127 DISKYRDNVELSDICVEID-DQEFNLHKFPLSINCDYFKTECKNQNKVILKNFPGGKASFEMIADHCYGKEVELTIENVSVMLCAAEYLGMTGKKNLLEKCKKFIDRIFRASEYSRCIDSIIEYLESCRKLKSE------------SLKSFINRGFTLILQIWLRPLSGYNSNLKEKYIEDSIVYGAILNLDDYYVNKMIKLCKGEESKY-PYVSKLIVDYIEMLLV-----------------DKESENESDDKRNSKENFKRHLKRSPSNNLSNDELSQEFTIEDD------SFSDSEKPQTKTKVLNSKEKSKIFDKIIKSLPNEINLGKVVSVDWLQNALEFCRKYECKTKNKLLQLCGGILIHASTEEIMSMDPKSVTEMIEQTLTNDKVDKELMKWIWDNHFLEMAQSSELDPAVFSKVVKNMPEAHHVDPDMVFKIVLSILNNNGQNYKD----ELVDTVDLEKISPENLELAVESKFWDVEVICKAAI 1491
            D+  YRD  ELSD+ V +D ++E  LH+FPL I  DYF+         +   FPGG A FE++AD CYGK +++  +N   +  AA+ LGM G+ NL +   +++D I R++++SR +  ++E L     +               ++K+   R F+ +L  W R         ++ +     V   +L L   +  +++     +  ++   +++L   Y+  + +                 D ++E       +++ +     ++    +  ND   ++     D      S  D+E+ +  ++ +  +   ++ D++I +LP    L +V+S +W+Q AL    K+ C+ + +LLQL G  L     EE+  M    + +++  ++ N  V  E++  + DNH L++A+   L+P  F K+  ++P       D ++++V ++L  +G++  D    +++  VDL +   E L+ A+E      + +C AAI
Sbjct:   63 DLVSYRDTGELSDLTVVVDSERELPLHRFPLYIKSDYFRERASESRVSLPAKFPGGSACFELVADFCYGKRIDIGPDNCVQLNAAAKLLGMGGRDNLADLTDRYLDEILRSAQHSRSMGPVVELLAKATAISQADNADDGEAEADPAVKAIAERCFSTLLDAWTR---------QQPFGSGGAVGERLLRLPLTWFARLVGAATADSDRHRRALAELSARYLHRVFLRDARLEKSKAAAAASEADGDAEQRQAAGSDAEADESSSTRQQRDGDGDNDGKKEKLPGRRDWRKTRPSEDDAER-EDDSQFVPQEPAGQVLDQVILALPESTPLAEVISAEWIQQALRISEKFGCQCRGRLLQLAGNSLHKFRPEELHQMASPVLCDIVGSSVRNKGVQPEVLACVIDNHLLDLAREGSLEPDDFVKLAGSVPAEFRDGHDTLYEVVETLL-GSGKSIPDDQQQQILGMVDLSRCDVETLQRALEKGVMPAKTVCLAAI 547
[Close]
BLAST of Root phototropism protein 2 vs. TrEMBL
Match: A0A267H2A3 (Uncharacterized protein OS=Macrostomum lignano OX=282301 GN=BOX15_Mlig026640g1 PE=4 SV=1)

HSP 1 Score: 194.126 bits (492), Expect = 9.372e-50
Identity = 121/504 (24.01%), Postives = 231/504 (45.83%), Query Frame = 1 
Query:  127 DISKYRDNVELSDICVEID-DQEFNLHKFPLSINCDYFKTECKNQNKVILKNFPGGKASFEMIADHCYGKEVELTIENVSVMLCAAEYLGMTGKKNLLEKCKKFIDRIFRASEYSRCIDSIIEYLESCRKLKSE------------SLKSFINRGFTLILQIWLRPLSGYNSNLKEKYIEDSIVYGAILNLDDYYVNKMIKLCKGEESKY-PYVSKLIVDYIEMLLV-------------------DKESENESDDKRNSKENFKRHLKR------------SPSNNLSNDELSQEFTIEDDSFSDSEKPQTKTKVLNSKEKSKIFDKIIKSLPNEINLGKVVSVDWLQNALEFCRKYECKTKNKLLQLCGGILIHASTEEIMSMDPKSVTEMIEQTLTNDKVDKELMKWIWDNHFLEMAQSSELDPAVFSKVVKNMPEAHHVDPDMVFKIVLSILNNNGQNYKD----ELVDTVDLEKISPENLELAVESKFWDVEVICKAAI 1491
            D+  YRD  ELSD+ V +D ++E  LH+FPL I  DYF+         +   FPGG A FE++AD CYGK +++  +N   +  AA+ LGM G+ NL +   +++D I R++++SR +  ++E L     +               ++K+   R F+ +L  W R         ++ +     V   +L L   +  +++     +  ++   +++L   Y+  + +                   D E    +     + E+   H +R            SP          +    EDD+  + +     ++ +  +   ++ D++I +LP    L +V+S +W+Q AL    K+ C+ + +LLQL G  L     EE+  M    + +++  ++ N  V  E++  + DNH L++A+   L+P  F K+  ++P       D ++++V ++L  +G++  D    +++  VDL +   E L+ A+E      + +C AAI
Sbjct:   12 DLVSYRDTGELSDLTVVVDSERELPLHRFPLYIKSDYFRERASESRVSLPAKFPGGSACFELVADFCYGKRIDIGPDNCVQLNAAAKLLGMGGRDNLADLTDRYLDEILRSAQHSRSMGPVVELLAKATAISQADNADDGEAEADPAVKAIAERCFSTLLDAWTR---------QQPFGSGGAVGERLLRLPLTWFARLVGAATADSDRHRRALAELSARYLHRVFLRDARLEKSKAAAAASEADGDAEQRQAAGSDAEADESSSTHQQRDGDGDDDGKKEKSPGRR----NWRKTRPGEDDAEREDD-----SQFVPQEPAGQVLDQVILALPESTPLAEVISAEWIQQALRISEKFGCQCRGRLLQLAGNSLHKFRPEELHQMASPVLCDIVGSSVRNKGVQPEVLACVIDNHLLDLAREGSLEPDDFVKLAGSVPAEFRDGHDTLYEVVETLL-GSGKSIPDDQQQQILGMVDLSRCDVETLQRALEKGVMPAKTVCLAAI 496
[Close]
BLAST of Root phototropism protein 2 vs. TrEMBL
Match: K1RS52 (Root phototropism protein 2 OS=Crassostrea gigas OX=29159 GN=CGI_10023212 PE=4 SV=1)

HSP 1 Score: 161.384 bits (407), Expect = 2.135e-38
Identity = 126/482 (26.14%), Postives = 233/482 (48.34%), Query Frame = 1 
Query:  124 MDISKYRDNVELSDICVEIDDQEFNLHKFPLSINCDYFKTECK-----NQNKVILKNFPGGKASFEMIADHCYGKEVELTIENVSVMLCAAEYLGMTGKKNLLEKCKKFIDRIFRASEYSR---CIDSIIEYLESCRKLKSESLKSFINRGFTLILQIWLRPLSGYNS--NLKEKYI---EDSIVYGAILNLD-DYYVNKMIKLCKGEESKYPYVSKLIVDYIEMLLVDKESENESDDKRNSKENFKRHLKRSPSNNLSNDELSQEFTIEDDSFSDSEKPQTKTKVLNSKEKSKIFDKIIKSLPNEINLGKVVSVDWLQNALEFCRKYECKTKNKLLQLCGGILIHASTEEIMSMDPKSVTEMIEQTLTNDKVDKELMKWIWDNHFLEMAQSSELDPAVFSKVVKNMPEAHHVDPDMVFKIVLSILNNNGQNY----KDELVDTVDLEKISPENLELAVESKFWDVEVICKAAI---NRLKN 1506
            MD SK+R + +LSD+ V +++Q F LHKFPL    +YF   CK     +  KV L  FPGG   F  +AD CY  +VELT  N+  + CAAE+L M G+ NL++   KF +    +++ SR   CI S++ +  +  +L + S    ++     +++ WL+P + ++S  N+ ++ +   ED  +  A+L+L  D+Y+ K++   +    +   +++L   YI +L+   ESE                       N S    S E T      S S +P++  K     + +K+ D II  LP E     V++++WL   +     + CK +  L++  G +L   S EE+ ++ P  + ++++++  +     E    I D +  EM +   L    F  +   +P+    + D ++ I+  +L    ++     + +L++TV+   ++ E L+ A+ +       + K AI   +RL++
Sbjct:    1 MDFSKFRQSGDLSDLTVNVNEQIFKLHKFPLYAKSEYF---CKLAHSADVKKVELVGFPGGPDIFSTVADFCYNMKVELTKNNIVQVRCAAEFLQMKGEGNLIDMADKFFNDTITSTKMSRSTSCIASLLLFASTVGELANVS--GIVDVCCEALIECWLKPPTKFSSPTNISKQSLDRREDRTI-NALLSLPLDWYL-KLVISARDRGVQSSLLAELSTSYISVLIDRDESEE----------------------NSSQSTESGEIT------SKSPRPKSPKKT----DIAKVLDNIITVLPEESLFSDVITIEWLTKVIRVATSHNCKCRKLLVKAAGELLCKISAEELCTISPSLLRDIVQESCASGNGQIEKACRIVDTYMSEMVRKGVLTADTFKLLATVVPKDARSNHDQMYNILEYVLTAEREHLSTEQRQDLIETVNFTLLNEETLQGALAASVVPANYVAKGAIALCSRLRS 443
[Close]
BLAST of Root phototropism protein 2 vs. Ensembl Nematostella
Match: EDO30333 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7T138])

HSP 1 Score: 48.9062 bits (115), Expect = 6.361e-6
Identity = 43/162 (26.54%), Postives = 86/162 (53.09%), Query Frame = 1 
Query:  109 SK*ISMDISKYRDNVELSDICVEIDDQEFNLHKFPLSINCDYFKTECKN-----QNKVI-LKNFPGGKASFEMIADHCYGKEVELTIENVSVMLCAAEYLGMTGKKNLLEKCKKFIDRIFRASEYSRCIDSIIEYLES--CRKLKSESLKSFINRGFTLILQ 570
            +K I   ++K R + +L D+ ++++ +EF  H+  L+   DYF     N     Q  VI L+       + E++ D  Y + V++++ENV  +L AA  L +TG +   + C +F+       + + C+  I  + ++  C +LK+ + ++FI++ FT I++
Sbjct:   21 AKDILTSVNKLRKDGKLCDVVLQVEKKEFPAHRIVLASCSDYFYAMFTNDMLESQKGVIELQGL--ASDTMEVLLDFVYTETVKVSVENVQALLPAACLLQLTGVQ---KACSEFLQHQL---DPTNCL-GIRAFADTHCCDELKAAA-ENFIHKHFTEIVK 172
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BLAST of Root phototropism protein 2 vs. Planmine SMEST
Match: SMESG000067415.1 (SMESG000067415.1)

HSP 1 Score: 1198.73 bits (3100), Expect = 0.000e+0
Identity = 589/591 (99.66%), Postives = 589/591 (99.66%), Query Frame = 1 
Query:  124 MDISKYRDNVELSDICVEIDDQEFNLHKFPLSINCDYFKTECKNQNKVILKNFPGGKASFEMIADHCYGKEVELTIENVSVMLCAAEYLGMTGKKNLLEKCKKFIDRIFRASEYSRCIDSIIEYLESCRKLKSESLKSFINRGFTLILQIWLRPLSGYNSNLKEKYIEDSIVYGAILNLDDYYVNKMIKLCKGEESKYPYVSKLIVDYIEMLLVDKESENESDDKRNSKENFKRHLKRSPSNNLSNDELSQEFTIEDDSFSDSEKPQTKTKVLNSKEKSKIFDKIIKSLPNEINLGKVVSVDWLQNALEFCRKYECKTKNKLLQLCGGILIHASTEEIMSMDPKSVTEMIEQTLTNDKVDKELMKWIWDNHFLEMAQSSELDPAVFSKVVKNMPEAHHVDPDMVFKIVLSILNNNGQNYKDELVDTVDLEKISPENLELAVESKFWDVEVICKAAINRLKNKDVLNLSNKYFFKESKSNFETTLNNQTKSVGYYGNANKILSNYKSPSYTWELNTMLSTNDEEINTTPPEFNYNYYPTKKYVYSTYSPDSYLTMEENLKYELKKISESYSDYYKKQLRSRSRRRYPIAHHY 1896
            MDISKYRDNVELSDICVEIDDQEFNLHKFPLSINCDYFKTECKNQNKVILKNFPGGKASFEMIADHCYGKEVELTIENVSVMLCAAEYLGMTGKKNLLEKCKKFIDRIFRASEYSRCIDSIIEYLESCRKLKSESLKSFINRGFTLILQIWLRPLSGYNSNLKEKYIEDSIVYGAILNLDDYYVNKMIKLCKGEESKYPYVSKLIVDYIEMLLVDKESENESDDKRNSKENFKRHLKRSPSNNL NDELSQEFTIEDDSFSDSEKPQTKTKVLNSKEKSKIFDKIIKSLPNEINLGKVVSVDWLQNALEFCRKYECKTKNKLLQLCGGILIHASTEEI SMDPKSVTEMIEQTLTNDKVDKELMKWIWDNHFLEMAQSSELDPAVFSKVVKNMPEAHHVDPDMVFKIVLSILNNNGQNYKDELVDTVDLEKISPENLELAVESKFWDVEVICKAAINRLKNKDVLNLSNKYFFKESKSNFETTLNNQTKSVGYYGNANKILSNYKSPSYTWELNTMLSTNDEEINTTPPEFNYNYYPTKKYVYSTYSPDSYLTMEENLKYELKKISESYSDYYKKQLRSRSRRRYPIAHHY
Sbjct:    1 MDISKYRDNVELSDICVEIDDQEFNLHKFPLSINCDYFKTECKNQNKVILKNFPGGKASFEMIADHCYGKEVELTIENVSVMLCAAEYLGMTGKKNLLEKCKKFIDRIFRASEYSRCIDSIIEYLESCRKLKSESLKSFINRGFTLILQIWLRPLSGYNSNLKEKYIEDSIVYGAILNLDDYYVNKMIKLCKGEESKYPYVSKLIVDYIEMLLVDKESENESDDKRNSKENFKRHLKRSPSNNLRNDELSQEFTIEDDSFSDSEKPQTKTKVLNSKEKSKIFDKIIKSLPNEINLGKVVSVDWLQNALEFCRKYECKTKNKLLQLCGGILIHASTEEIKSMDPKSVTEMIEQTLTNDKVDKELMKWIWDNHFLEMAQSSELDPAVFSKVVKNMPEAHHVDPDMVFKIVLSILNNNGQNYKDELVDTVDLEKISPENLELAVESKFWDVEVICKAAINRLKNKDVLNLSNKYFFKESKSNFETTLNNQTKSVGYYGNANKILSNYKSPSYTWELNTMLSTNDEEINTTPPEFNYNYYPTKKYVYSTYSPDSYLTMEENLKYELKKISESYSDYYKKQLRSRSRRRYPIAHHY 591
The following BLAST results are available for this feature:
BLAST of Root phototropism protein 2 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 Root phototropism protein 2 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 Root phototropism protein 2 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 Root phototropism protein 2 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 Root phototropism protein 2 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 Root phototropism protein 2 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 Root phototropism protein 2 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 5
Match NameE-valueIdentityDescription
sp|Q9FYC8|Y3482_ARATH1.453e-1338.68BTB/POZ domain-containing protein At3g44820 OS=Ara... [more]
sp|Q9FMF5|RPT3_ARATH2.033e-1337.80Root phototropism protein 3 OS=Arabidopsis thalian... [more]
sp|Q9C9Z7|Y3857_ARATH4.657e-1335.38BTB/POZ domain-containing protein At3g08570 OS=Ara... [more]
sp|Q66GP0|SR1P1_ARATH5.969e-1330.71BTB/POZ domain-containing protein SR1IP1 OS=Arabid... [more]
sp|Q9S9Q9|Y1044_ARATH1.422e-1235.85BTB/POZ domain-containing protein At1g30440 OS=Ara... [more]
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BLAST of Root phototropism protein 2 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A1I8I6785.501e-5526.44Uncharacterized protein OS=Macrostomum lignano OX=... [more]
A0A267GL821.017e-5023.64Uncharacterized protein OS=Macrostomum lignano OX=... [more]
A0A1I8GTE91.128e-5023.99Uncharacterized protein OS=Macrostomum lignano OX=... [more]
A0A267H2A39.372e-5024.01Uncharacterized protein OS=Macrostomum lignano OX=... [more]
K1RS522.135e-3826.14Root phototropism protein 2 OS=Crassostrea gigas O... [more]
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BLAST of Root phototropism protein 2 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of Root phototropism 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
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BLAST of Root phototropism protein 2 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 Root phototropism protein 2 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 1
Match NameE-valueIdentityDescription
EDO303336.361e-626.54Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7... [more]
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BLAST of Root phototropism protein 2 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 Root phototropism protein 2 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 1
Match NameE-valueIdentityDescription
SMESG000067415.10.000e+099.66SMESG000067415.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30016446 ID=SMED30016446|Name=Root phototropism protein 2|organism=Schmidtea mediterranea sexual|type=transcript|length=1989bp
AATTTCTCATAGCAGTTGCTTCTCGTAACCTTAACAACAGTTGGAGTTAC
AATTTTATTGGTTATAAACTAGTGTAACATTCAAATAACACATTCAATGA
CCCTTGGATCAAAATAAATTTCAATGGATATTTCAAAATATCGTGACAAT
GTAGAATTATCGGATATTTGTGTTGAAATCGATGATCAAGAATTTAATTT
ACACAAATTTCCATTATCTATAAATTGTGATTATTTCAAGACTGAATGTA
AAAATCAAAATAAAGTAATTTTGAAAAATTTTCCCGGTGGAAAAGCTAGC
TTTGAAATGATAGCTGATCACTGTTACGGCAAGGAAGTTGAATTAACAAT
TGAAAATGTGAGTGTAATGCTTTGTGCTGCAGAATATCTGGGAATGACAG
GTAAAAAAAATCTTTTAGAAAAATGTAAAAAGTTTATTGATCGAATATTT
CGTGCATCGGAATATTCCCGTTGCATTGATAGTATAATTGAATATTTAGA
ATCATGCCGAAAGTTAAAATCAGAATCACTAAAATCCTTTATAAATCGTG
GCTTTACTCTAATTTTGCAAATTTGGCTGCGACCTTTATCGGGATATAAT
TCAAATTTAAAAGAGAAATATATTGAAGATTCGATTGTTTACGGAGCAAT
TTTAAACTTAGATGATTATTATGTTAATAAAATGATAAAGCTTTGTAAAG
GTGAAGAGTCAAAATACCCATATGTTTCAAAACTAATTGTTGATTACATC
GAAATGCTTTTAGTTGATAAAGAAAGCGAAAATGAATCCGATGATAAAAG
AAATTCAAAGGAAAATTTTAAAAGACATTTAAAACGATCACCATCCAACA
ATCTGTCCAATGATGAATTGAGCCAAGAATTTACAATTGAAGACGACAGT
TTCAGTGACTCAGAAAAACCACAAACTAAAACAAAAGTGTTGAATAGTAA
AGAAAAAAGTAAAATATTCGATAAAATAATAAAAAGTCTACCAAACGAAA
TAAATCTTGGAAAGGTAGTTTCAGTTGATTGGTTGCAAAACGCACTGGAA
TTCTGTAGAAAGTATGAATGCAAAACGAAAAACAAATTGCTACAACTTTG
TGGAGGTATCTTAATTCACGCGTCAACAGAGGAAATCATGTCAATGGATC
CGAAGAGTGTTACAGAGATGATTGAGCAAACTCTAACCAACGATAAAGTG
GATAAAGAATTGATGAAATGGATATGGGATAATCATTTTTTGGAAATGGC
TCAAAGCTCAGAATTGGATCCAGCGGTGTTTAGTAAAGTTGTAAAAAATA
TGCCAGAAGCTCACCACGTGGATCCAGATATGGTGTTTAAGATTGTGTTG
TCAATATTAAATAATAATGGTCAAAATTACAAAGATGAACTCGTCGATAC
TGTTGACTTAGAAAAGATTTCTCCGGAAAATCTGGAACTGGCAGTTGAAA
GTAAATTTTGGGATGTAGAAGTCATATGCAAAGCTGCAATAAATCGTTTG
AAAAATAAGGATGTTCTAAATTTGTCAAATAAATATTTTTTCAAGGAGTC
TAAATCTAATTTTGAGACGACGTTAAATAATCAAACAAAATCAGTTGGTT
ACTATGGTAACGCAAATAAAATTCTTTCAAATTACAAAAGCCCTTCATAT
ACATGGGAATTGAATACGATGCTCAGTACAAATGACGAAGAAATCAACAC
AACACCCCCCGAGTTCAACTACAATTATTATCCAACAAAAAAATATGTTT
ACTCAACTTATTCTCCGGACAGCTATTTAACGATGGAAGAAAATCTGAAA
TACGAATTGAAGAAAATTTCGGAAAGTTACTCTGATTATTATAAGAAACA
GTTACGATCGCGATCCAGACGAAGATACCCCATCGCCCATCATTATTAAT
ATTCTATAATTTGTTTCACTTCACTATATTTTTTATAAATTCAACCAAAT
AGCTATAATTTTTATTGCTGAACATATATTTTACTTTTG
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protein sequence of SMED30016446-orf-1

>SMED30016446-orf-1 ID=SMED30016446-orf-1|Name=SMED30016446-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=592bp
MDISKYRDNVELSDICVEIDDQEFNLHKFPLSINCDYFKTECKNQNKVIL
KNFPGGKASFEMIADHCYGKEVELTIENVSVMLCAAEYLGMTGKKNLLEK
CKKFIDRIFRASEYSRCIDSIIEYLESCRKLKSESLKSFINRGFTLILQI
WLRPLSGYNSNLKEKYIEDSIVYGAILNLDDYYVNKMIKLCKGEESKYPY
VSKLIVDYIEMLLVDKESENESDDKRNSKENFKRHLKRSPSNNLSNDELS
QEFTIEDDSFSDSEKPQTKTKVLNSKEKSKIFDKIIKSLPNEINLGKVVS
VDWLQNALEFCRKYECKTKNKLLQLCGGILIHASTEEIMSMDPKSVTEMI
EQTLTNDKVDKELMKWIWDNHFLEMAQSSELDPAVFSKVVKNMPEAHHVD
PDMVFKIVLSILNNNGQNYKDELVDTVDLEKISPENLELAVESKFWDVEV
ICKAAINRLKNKDVLNLSNKYFFKESKSNFETTLNNQTKSVGYYGNANKI
LSNYKSPSYTWELNTMLSTNDEEINTTPPEFNYNYYPTKKYVYSTYSPDS
YLTMEENLKYELKKISESYSDYYKKQLRSRSRRRYPIAHHY*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: biological process
TermDefinition
GO:0009638phototropism
GO:0010087phloem or xylem histogenesis
GO:0010305leaf vascular tissue pattern formation
GO:0010588cotyledon vascular tissue pattern formation
GO:0016567protein ubiquitination
GO:0048367shoot system development
GO:0080022primary root development
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000016pharynx
PLANA:0000034epidermis
PLANA:0000099neuron
PLANA:0000106ciliated epithelial cell
PLANA:0000418head
Vocabulary: INTERPRO
TermDefinition
IPR000210BTB/POZ_dom
IPR027356NPH3_dom
IPR011333SKP1/BTB/POZ_sf
Vocabulary: molecular function
TermDefinition
GO:0005515protein binding
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR000210BTB/POZ domainSMARTSM00225BTB_4coord: 13..109
e-value: 1.1E-4
score: 31.6
IPR000210BTB/POZ domainPFAMPF00651BTBcoord: 5..105
e-value: 9.8E-8
score: 32.2
IPR000210BTB/POZ domainPROSITEPS50097BTBcoord: 13..76
score: 11.254
NoneNo IPR availableGENE3DG3DSA:3.30.710.10coord: 1..149
e-value: 1.2E-14
score: 56.6
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 220..242
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 220..243
NoneNo IPR availablePANTHERPTHR32370FAMILY NOT NAMEDcoord: 11..475
NoneNo IPR availableCDDcd18312BTB_POZ_NPY3-likecoord: 4..103
e-value: 2.92411E-31
score: 115.121
IPR011333SKP1/BTB/POZ domain superfamilySUPERFAMILYSSF54695POZ domaincoord: 4..105