RRM domain-containing protein

Overview
NameRRM domain-containing protein
Smed IDSMED30014037
Length (bp)1846
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 RRM domain-containing protein (SMED30014037) t-SNE clustered cells

Violin plots show distribution of expression levels for RRM domain-containing protein (SMED30014037) 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 RRM domain-containing protein (SMED30014037) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for RRM domain-containing protein (SMED30014037) 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



SMED30014037

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



PAGE Curations: 3

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
X1 cellSMED30014037h1SMcG0000199 SmedASXL_004456SmedAsxl_ww_GCZZ01PMID:26114597
Zhu et al., 2015		FACS sorted cell population asexual adult RNA-sequencing evidence
X2 cellSMED30014037h1SMcG0000199 SmedASXL_004456SmedAsxl_ww_GCZZ01PMID:26114597
Zhu et al., 2015		FACS sorted cell population asexual adult RNA-sequencing evidence
neoblastSMED30014037h1SMcG0000199 dd_Smed_v4_8569_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
Note: Hover over icons to view figure legend
Homology
[Close]
BLAST of RRM domain-containing protein vs. TrEMBL
Match: A0A0X3Q233 (Nucleolin (Fragment) OS=Schistocephalus solidus OX=70667 GN=NUCL PE=4 SV=1)

HSP 1 Score: 80.4925 bits (197), Expect = 1.976e-12
Identity = 59/229 (25.76%), Postives = 113/229 (49.34%), Query Frame = 1 
Query:  598 MTLHGLKCHLNFYIKPTPQL-KFSFNKPEELIKEIISRFELQNNRTVMIKNLPTNFTLAELKQLISVMRNC-----KTSNEKRIAFIEFDSAETASKSAKELNQKL-IKNSKIRAFVAK--------------TPIAVNDLTNFNLSKLHLTNLSMDTTEADIKSVFG-SCQVELPTNTDNTCLGNATLSFSDSQEALKYFCRNEPQ-VKNVPVIINFHSEMKSTENKK 1215
            +  +G  C L + + P  ++  F+  + +  ++ ++SR +  N+RT+ + +LP   TL +L  L     N      K +   +  F+EF S+  A K AK  ++ L I    +R  +                 P     L++FNL+ LH++ L  D T AD+  +F  S ++ LP+   + CLG A ++F+  ++AL+ F     + V   P+++NF  ++++++ KK
Sbjct:    8 LGYYGAGCFLIWCVLPKRRVCTFTMAEKDATLESVLSRLDEYNSRTIFVSHLPRVCTLKQLMALFKKSVNARFSIGKPTGSSKFGFVEFKSSSEA-KRAKTASESLTIAGKPVRVEICSERIVQKGSDGDKCWCPPHSRTLSDFNLTTLHVSCLPKDATLADLSPLFPKSRKITLPSEGPDKCLGRALVTFATPEDALEAFNSTHGRLVHKCPIVVNF--KLRASKKKK 233
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BLAST of RRM domain-containing protein vs. TrEMBL
Match: A0A0X3QDA9 (Uncharacterized protein (Fragment) OS=Schistocephalus solidus OX=70667 GN=TR125960 PE=4 SV=1)

HSP 1 Score: 80.4925 bits (197), Expect = 2.161e-12
Identity = 59/229 (25.76%), Postives = 113/229 (49.34%), Query Frame = 1 
Query:  598 MTLHGLKCHLNFYIKPTPQL-KFSFNKPEELIKEIISRFELQNNRTVMIKNLPTNFTLAELKQLISVMRNC-----KTSNEKRIAFIEFDSAETASKSAKELNQKL-IKNSKIRAFVAK--------------TPIAVNDLTNFNLSKLHLTNLSMDTTEADIKSVFG-SCQVELPTNTDNTCLGNATLSFSDSQEALKYFCRNEPQ-VKNVPVIINFHSEMKSTENKK 1215
            +  +G  C L + + P  ++  F+  + +  ++ ++SR +  N+RT+ + +LP   TL +L  L     N      K +   +  F+EF S+  A K AK  ++ L I    +R  +                 P     L++FNL+ LH++ L  D T AD+  +F  S ++ LP+   + CLG A ++F+  ++AL+ F     + V   P+++NF  ++++++ KK
Sbjct:    8 LGYYGAGCFLIWCVLPKRRVCTFTMAEKDATLESVLSRLDEYNSRTIFVSHLPRVCTLKQLMALFKKSVNARFSIGKPTGSSKFGFVEFKSSSEA-KRAKTASESLTIAGKPVRVEICSERIVQKGSDGDKCWCPPHSRTLSDFNLTTLHVSCLPKDATLADLSPLFPKSRKITLPSEGPDKCLGRALVTFATPEDALEAFNSTHGRLVHKCPIVVNF--KLRASKKKK 233
[Close]
BLAST of RRM domain-containing protein vs. TrEMBL
Match: A0A183T6P9 (Uncharacterized protein OS=Schistocephalus solidus OX=70667 GN=SSLN_LOCUS12147 PE=4 SV=1)

HSP 1 Score: 75.0998 bits (183), Expect = 1.009e-10
Identity = 54/198 (27.27%), Postives = 98/198 (49.49%), Query Frame = 1 
Query:  688 IKEIISRFELQNNRTVMIKNLPTNFTLAELKQLISVMRNC-----KTSNEKRIAFIEFDSAETASKSAKELNQKL-IKNSKIRAFVAK--------------TPIAVNDLTNFNLSKLHLTNLSMDTTEADIKSVFG-SCQVELPTNTDNTCLGNATLSFSDSQEALKYFCRNEPQ-VKNVPVIINFHSEMKSTENKK 1215
            ++ ++SR +  N+RT+ + +LP   TL +L  L     N      K +   +  F+EF S+  A K AK  ++ L I    +R  +                 P     L++FNL+ LH++ L  D T AD+  +F  S ++ LP+   + CLG A ++F+  ++AL+ F     + V   P+++NF  +++++  KK
Sbjct:    8 LESVLSRLDEYNSRTIFVSHLPRVCTLKQLMALFKKSVNARFSIGKPTGSSKFGFVEFKSSSEA-KRAKTASESLTITGKPVRVEICSERIVQKGSDGDKCWCPPHSRTLSDFNLTTLHVSCLPKDATLADLSPLFPKSRKITLPSEGPDKCLGRALVTFATPEDALEAFNSTHGRLVHKCPIVVNF--KLRASTKKK 202
[Close]
BLAST of RRM domain-containing protein vs. TrEMBL
Match: A0A4S2LKM2 (RRM domain-containing protein OS=Opisthorchis felineus OX=147828 GN=CRM22_006515 PE=4 SV=1)

HSP 1 Score: 72.7886 bits (177), Expect = 3.859e-10
Identity = 54/198 (27.27%), Postives = 96/198 (48.48%), Query Frame = 1 
Query:  685 LIKEIISRFELQNNRTVMIKNLPTNFTLAELKQLISVMRNCKT-----SNEKRIAFIEFDSAETASKSAKELNQKLIKNSKIRAFV--------------------AKTPIAV-----NDLTNFNLSKLHLTNLSMDTTEADIKSVF-GSCQVELPTNTDNTCLGNATLSFSDSQEALKYF-CRNEPQVKNVPVIINF 1182
            L+  I  R    NNRT+ ++ LP N +LA+LK L     N +      SN +R AFIEF S E A K+ K +  KLI +  I+A +                     + PI         L +F+L+ LH++ +  +TT  +++ +F  +   +   +  +  +G+  ++FS  Q+A + F  ++   +++ P+I+NF
Sbjct:  112 LLSMIRQRLAELNNRTLYVRKLPRNTSLAQLKALCPTSINARLPTKAFSNRRRHAFIEFKSEELARKALKSIVGKLIADRPIKAELCFERSSSETNPNKDRGQKGSGEKPIQWAKPNERQLRDFSLTTLHISCVPRNTTPDEVRQLFPQAVSFDFNMHPKDKGIGSCRVAFSSEQDAFQAFTSQHNAVIRDCPIIVNF 309
[Close]
BLAST of RRM domain-containing protein vs. TrEMBL
Match: A0A564Z9A6 (RRM domain-containing protein OS=Hymenolepis diminuta OX=6216 GN=WMSIL1_LOCUS13795 PE=4 SV=1)

HSP 1 Score: 73.559 bits (179), Expect = 4.276e-10
Identity = 58/206 (28.16%), Postives = 102/206 (49.51%), Query Frame = 1 
Query:  679 EELIKEIISRFELQNNRTVMIKNLPTNFTLAELKQLISVMRNCKTSNEK--RIAFIEFDSAETASKSAKELNQKLIKNSKIRAFVAKTPIAVND---------LTNFNLSKLHLTNLSMDTTEADIKSVFGSC-QVELPTNTDNTCLGNATLSFSDSQEALK-YFCRNEPQVKNVPVIINFHSEMKSTENKKRKLEDSSDNEVESK 1257
            E+L+ EI  R   +N++TV I  +  N +   L+ L       +  ++K  R AF+EF +A  A  +A E+N K++    IRA V     + ND         L +F+LS L ++NL       D+  +F +  ++      D TC G   L + +  EALK +F R+    + +P+ +NF  + K+ +++  K++ S   +V +K
Sbjct:   75 EKLLAEIKRRINEKNSQTVRIMPVSKNCSYLLLQDLCPTSVTVRIPSKKNCRYAFVEFKTALEAKTAANEVNGKILDGKPIRATVCSERPSGNDNWKPLEERTLEDFDLSSLFVSNLPRFAERTDLAQIFRTADKINFMNMPDGTCKGFCILKYRNRSEALKAFFSRHGTLYRGIPIFVNFEIKSKA-KDRVEKMDKSVPKDVATK 279
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BLAST of RRM domain-containing protein vs. Planmine SMEST
Match: SMESG000015917.1 (SMESG000015917.1)

HSP 1 Score: 952.97 bits (2462), Expect = 0.000e+0
Identity = 509/520 (97.88%), Postives = 514/520 (98.85%), Query Frame = 1 
Query:   85 AKVKKVGFETQQDLLDEXXXXXXXXXXXXXXXXXXPTSLTRIALKDLIPEMVSIRFPELSKYGKVNYAFIQFSTEALVDKYIEILNGKEICGKKLVAIKHNQKDFKEITNFDLKQLYFNGLKPETKHSEIKALYPNAKIIFPTDDDRNSKGSVTLIXXXXXXXXXXXMENKMTLHGLKCHLNFYIKPTPQLKFSFNKPEELIKEIISRFELQNNRTVMIKNLPTNFTLAELKQLISVMRNCKTSNEKRIAFIEFDSAETASKSAKELNQKLIKNSKIRAFVAKTPIAVNDLTNFNLSKLHLTNLSMDTTEADIKSVFGSCQVELPTNTDNTCLGNATLSFSDSQEALKYFCRNEPQVKNVPVIINFHSEMKSTENKKRKLEDSSDNEVESKKSKILPIISDEAASEPIEIKGKKSLIPKSKTRPEIIKESLETERNGNQIKTQVAAVTKKSLLPVKKDSLKKPSNEKRNSNGNQSAKNGPKVVAGKRKFQEIENDEVDNSINKKKRVIATRSNAAKNVKK 1644
            +KVKKVGF+TQQDLLDEINNRFKIINKNNILLKKIPTSLTRIALKDLIPEMVSIRFPELSKYGKVNYAFIQFSTEALVDKYIEILNGKEICGKKLVAIKH QKDFKEITNFDLKQLYFNGLKPETKHSEIKALYPNAKIIFPTDDDRNSKGSVTLIFETEEEAFTAF+ENKMTLHGLKCHLNFYIKPTPQLKFSFNKPEELIKEIISRFELQNNRTVMIKNLPTNFTLAELKQLISVMRNCK SNEKRIAFIEFD+AETASKSAKE NQKLIKNSKIRAFVAKTPIAVNDLTNFNLSKLHLTNLSMDTTEADIKSVFGSCQVELPTNTDNTCLGNATLSFSDSQEALKYFCRNEPQVKNVPVIINFHSEMKSTENKKRKLEDSSDNEVESKKSKILPIISDEAASEPIEIKGKKSLIPKSK +PEIIKESLETERNG QIKTQVAAV KKSLLPVKKDSLKKPSNEKRNSNGNQSAKNGPKVVAGKRKFQEIENDEVDNSINKKKRVIATRSNAAKNVKK
Sbjct:   13 SKVKKVGFDTQQDLLDEINNRFKIINKNNILLKKIPTSLTRIALKDLIPEMVSIRFPELSKYGKVNYAFIQFSTEALVDKYIEILNGKEICGKKLVAIKHIQKDFKEITNFDLKQLYFNGLKPETKHSEIKALYPNAKIIFPTDDDRNSKGSVTLIFETEEEAFTAFIENKMTLHGLKCHLNFYIKPTPQLKFSFNKPEELIKEIISRFELQNNRTVMIKNLPTNFTLAELKQLISVMRNCKISNEKRIAFIEFDTAETASKSAKEFNQKLIKNSKIRAFVAKTPIAVNDLTNFNLSKLHLTNLSMDTTEADIKSVFGSCQVELPTNTDNTCLGNATLSFSDSQEALKYFCRNEPQVKNVPVIINFHSEMKSTENKKRKLEDSSDNEVESKKSKILPIISDEAASEPIEIKGKKSLIPKSKNKPEIIKESLETERNGKQIKTQVAAVAKKSLLPVKKDSLKKPSNEKRNSNGNQSAKNGPKVVAGKRKFQEIENDEVDNSINKKKRVIATRSNAAKNVKK 532
The following BLAST results are available for this feature:
BLAST of RRM 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 RRM 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 RRM 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 RRM 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 RRM 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 RRM 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 RRM domain-containing protein vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 0
Match NameE-valueIdentityDescription
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BLAST of RRM domain-containing protein vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A0X3Q2331.976e-1225.76Nucleolin (Fragment) OS=Schistocephalus solidus OX... [more]
A0A0X3QDA92.161e-1225.76Uncharacterized protein (Fragment) OS=Schistocepha... [more]
A0A183T6P91.009e-1027.27Uncharacterized protein OS=Schistocephalus solidus... [more]
A0A4S2LKM23.859e-1027.27RRM domain-containing protein OS=Opisthorchis feli... [more]
A0A564Z9A64.276e-1028.16RRM domain-containing protein OS=Hymenolepis dimin... [more]
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BLAST of RRM domain-containing protein 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 RRM 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 RRM 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 RRM 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 RRM 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 RRM domain-containing protein vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 1
Match NameE-valueIdentityDescription
SMESG000015917.10.000e+097.88SMESG000015917.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30014037 ID=SMED30014037|Name=RRM domain-containing protein|organism=Schmidtea mediterranea sexual|type=transcript|length=1846bp
AAACTTGTTTAAATAATAGTATAAAATTTGAAAAATCACGCATATACTAT
GTCTAGTCAAAGCAACAATCAATCGAATGAGAATGCAAAAGTCAAAAAAG
TAGGCTTTGAAACCCAACAGGATTTATTGGATGAGATAAATAATCGTTTC
AAAATAATAAACAAAAATAATATTCTGCTAAAAAAGATACCAACATCATT
AACTCGAATTGCATTGAAAGATCTTATTCCCGAAATGGTTTCTATTCGAT
TTCCAGAACTTTCTAAATACGGCAAAGTAAATTATGCATTTATTCAATTT
TCCACAGAAGCACTCGTTGATAAATATATTGAAATTTTAAATGGAAAAGA
AATTTGTGGGAAAAAATTAGTGGCAATAAAGCACAACCAAAAGGATTTTA
AAGAAATTACAAATTTTGATTTGAAACAATTGTATTTCAACGGACTTAAA
CCCGAAACAAAGCACAGTGAAATAAAAGCTCTATATCCGAATGCTAAAAT
AATTTTCCCAACTGATGATGATAGAAATTCAAAGGGAAGTGTAACGTTGA
TTTTTGAAACCGAAGAAGAAGCATTTACCGCTTTTATGGAAAATAAAATG
ACTCTTCATGGGTTGAAATGCCATTTAAATTTCTATATCAAACCGACTCC
TCAACTGAAATTCAGCTTTAATAAACCTGAGGAATTGATTAAAGAAATTA
TTTCTCGTTTTGAATTACAAAACAACCGAACGGTTATGATAAAAAACCTT
CCAACCAACTTCACTCTTGCGGAATTAAAACAATTGATTTCGGTAATGAG
GAACTGCAAGACATCAAATGAAAAAAGAATCGCATTCATTGAGTTTGATT
CTGCAGAAACCGCAAGCAAATCCGCAAAGGAACTCAATCAAAAGTTAATT
AAGAATTCCAAGATTCGAGCATTCGTTGCAAAAACTCCAATAGCTGTCAA
TGATCTGACAAATTTCAATCTCAGCAAGCTCCATTTAACCAATCTCTCTA
TGGATACCACTGAAGCCGATATCAAGTCGGTTTTTGGTTCCTGTCAAGTG
GAATTGCCAACAAATACCGACAATACTTGCCTTGGAAACGCGACTCTCAG
TTTCTCCGATTCTCAGGAAGCTCTGAAATACTTCTGCCGAAACGAGCCGC
AAGTCAAAAATGTCCCGGTGATTATCAACTTCCATAGCGAAATGAAGTCA
ACTGAAAATAAGAAGCGGAAATTAGAAGACTCGAGTGATAACGAAGTCGA
ATCGAAAAAATCAAAAATCCTCCCAATAATATCTGATGAAGCCGCAAGCG
AACCAATCGAAATCAAAGGAAAAAAGTCGCTTATTCCCAAGTCAAAAACT
AGACCGGAAATTATCAAGGAATCCCTGGAAACGGAACGAAATGGAAATCA
GATTAAAACACAAGTTGCTGCAGTTACAAAAAAATCCTTGCTTCCAGTGA
AAAAGGACTCCTTGAAAAAACCATCGAATGAGAAGCGAAATTCTAATGGT
AACCAATCAGCTAAGAATGGACCGAAAGTTGTCGCTGGCAAAAGAAAGTT
TCAGGAAATAGAAAATGATGAGGTTGATAATTCAATCAATAAGAAAAAAC
GCGTTATAGCAACGCGATCCAACGCAGCGAAAAATGTAAAAAAATAATTT
ATAGAAATAAATCTTGATATTATTTAGTTTTAATTTCTTACTTTTGATTG
AGTTCGTTGTCAATTGTTATGATATAAATATTAATTAGATCCATTTACTG
TTTGTTCATAAAATCTTTATCTGCTTATAAGCTCCCCGCTTGAAGCTCAC
CTTGCAAGGCACTCATTGAGATAATTGTCATTCCTTGATACAGATA
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protein sequence of SMED30014037-orf-1

>SMED30014037-orf-1 ID=SMED30014037-orf-1|Name=SMED30014037-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=533bp
MSSQSNNQSNENAKVKKVGFETQQDLLDEINNRFKIINKNNILLKKIPTS
LTRIALKDLIPEMVSIRFPELSKYGKVNYAFIQFSTEALVDKYIEILNGK
EICGKKLVAIKHNQKDFKEITNFDLKQLYFNGLKPETKHSEIKALYPNAK
IIFPTDDDRNSKGSVTLIFETEEEAFTAFMENKMTLHGLKCHLNFYIKPT
PQLKFSFNKPEELIKEIISRFELQNNRTVMIKNLPTNFTLAELKQLISVM
RNCKTSNEKRIAFIEFDSAETASKSAKELNQKLIKNSKIRAFVAKTPIAV
NDLTNFNLSKLHLTNLSMDTTEADIKSVFGSCQVELPTNTDNTCLGNATL
SFSDSQEALKYFCRNEPQVKNVPVIINFHSEMKSTENKKRKLEDSSDNEV
ESKKSKILPIISDEAASEPIEIKGKKSLIPKSKTRPEIIKESLETERNGN
QIKTQVAAVTKKSLLPVKKDSLKKPSNEKRNSNGNQSAKNGPKVVAGKRK
FQEIENDEVDNSINKKKRVIATRSNAAKNVKK*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: molecular function
TermDefinition
GO:0003723RNA binding
GO:0003676nucleic acid binding
GO:0000166nucleotide binding
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000429neoblast
PLANA:0002109X1 cell
PLANA:0002111X2 cell
Vocabulary: INTERPRO
TermDefinition
IPR035979RBD_domain_sf
IPR000504RRM_dom
IPR012677Nucleotide-bd_a/b_plait_sf
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availableCOILSCoilCoilcoord: 375..395
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 383..404
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 466..500
NoneNo IPR availablePANTHERPTHR23003:SF30SERINE/ARGININE-RICH-SPLICING FACTOR 5A-RELATEDcoord: 9..295
NoneNo IPR availablePANTHERPTHR23003RNA RECOGNITION MOTIF RRM DOMAIN CONTAINING PROTEINcoord: 9..295
NoneNo IPR availableCDDcd00590RRM_SFcoord: 229..291
e-value: 2.45624E-6
score: 43.0625
NoneNo IPR availableCDDcd00590RRM_SFcoord: 311..360
e-value: 1.12348E-5
score: 41.5217
NoneNo IPR availableCDDcd00590RRM_SFcoord: 42..107
e-value: 1.26387E-5
score: 41.1365
IPR000504RNA recognition motif domainSMARTSM00360rrm1_1coord: 310..377
e-value: 0.031
score: 20.0
coord: 228..292
e-value: 1.5E-5
score: 34.5
coord: 127..194
e-value: 0.29
score: 11.4
coord: 41..110
e-value: 0.026
score: 20.7
IPR000504RNA recognition motif domainPFAMPF00076RRM_1coord: 229..290
e-value: 3.8E-7
score: 29.8
IPR000504RNA recognition motif domainPROSITEPS50102RRMcoord: 40..115
score: 8.979
IPR000504RNA recognition motif domainPROSITEPS50102RRMcoord: 227..296
score: 10.94
IPR012677Nucleotide-binding alpha-beta plait domain superfamilyGENE3DG3DSA:3.30.70.330coord: 301..399
e-value: 1.7E-6
score: 29.7
IPR012677Nucleotide-binding alpha-beta plait domain superfamilyGENE3DG3DSA:3.30.70.330coord: 36..115
e-value: 3.7E-7
score: 32.1
IPR012677Nucleotide-binding alpha-beta plait domain superfamilyGENE3DG3DSA:3.30.70.330coord: 211..296
e-value: 5.0E-11
score: 44.5
IPR035979RNA-binding domain superfamilySUPERFAMILYSSF54928RNA-binding domain, RBDcoord: 35..115
IPR035979RNA-binding domain superfamilySUPERFAMILYSSF54928RNA-binding domain, RBDcoord: 309..381
IPR035979RNA-binding domain superfamilySUPERFAMILYSSF54928RNA-binding domain, RBDcoord: 127..291