RRM domain-containing protein
Overview
Neoblast Clusters
Zeng et. al., 2018▻ Overview▻ Neoblast Population▻ Sub-lethal Irradiated Surviving X1 and X2 Cell Population
Overview
Single cell RNA-seq of pluripotent neoblasts and its early progeniesWe isolated X1 neoblasts cells enriched in high piwi-1 expression (Neoblast Population), and profiled ∼7,614 individual cells via scRNA-seq. Unsupervised analyses uncovered 12 distinct classes from 7,088 high-quality cells. We designated these classes Nb1 to Nb12 and ordered them based on high (Nb1) to low (Nb12) piwi-1 expression levels. We further defined groups of genes that best classified the cells parsed into 12 distinct cell clusters to generate a scaled expression heat map of discriminative gene sets for each cluster. Expression of each cluster’s gene signatures was validated using multiplex fluorescence in situ hybridization (FISH) co-stained with piwi-1 and largely confirmed the cell clusters revealed by scRNA-seq.We also tested sub-lethal irradiation exposure. To profile rare pluripotent stem cells (PSCs) and avoid interference from immediate progenitor cells, we determined a time point after sub-lethal irradiation (7 DPI) with minimal piwi-1+ cells, followed by isolation and single-cell RNA-seq of 1,200 individual cells derived from X1 (Piwi-1 high) and X2 (Piwi-1 low) cell populations (Sub-lethal Irradiated Surviving X1 and X2 Cell Population)Explore this single cell expression dataset with our NB Cluster Shiny App
Neoblast Population
Sub-lethal Irradiated Surviving X1 and X2 Cell Population
Embryonic Expression
Davies et. al., 2017
Hover the mouse over a column in the graph to view average RPKM values per sample. Embryonic Stages: Y: yolk. S2-S8: Stages 2-8. C4: asexual adult. SX: virgin, sexually mature adult. back to top Anatomical Expression
PAGE et. al., 2020SMED30014037 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 3
Homology
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
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
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
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
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
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
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
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
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
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
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
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
BLAST of RRM domain-containing protein vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 5
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
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
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
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
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
BLAST of RRM domain-containing protein vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 1
Analyses
This transcript is derived from or has results from the following analyses 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=1846bpback to top 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 MSSQSNNQSNENAKVKKVGFETQQDLLDEINNRFKIINKNNILLKKIPTSback to top Annotated Terms
The following terms have been associated with this transcript:
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
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