TNF receptor associated factor-2
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., 2020SMED30025535 has been reported as being expressed in these anatomical structures and/or regions. Read more about PAGEPAGE Curations: 12Note: Hover over icons to view figure legend
Homology
BLAST of TNF receptor associated factor-2 vs. TrEMBL
Match: I1ZID8 (TNF receptor associated factor-2 (Fragment) OS=Schmidtea mediterranea OX=79327 PE=2 SV=1) HSP 1 Score: 102.834 bits (255), Expect = 2.276e-23 Identity = 52/143 (36.36%), Postives = 87/143 (60.84%), Query Frame = 2 Query: 2 YLDEDDKFCPGDSNFCQAKMINFTKNVTEDPAVNIKISKRIVKCPRQKCEIQTELIMMEEHMRTCKKRSISCPFISIGCXXXXXXXXXXXXHLNESNYWHSKLIIDLINNFRNEMESLKNENMELRNEMTELKKKNRQSKQQI 430 Y+ + +CPG ++ C+ + + N+ D VN KI+K VKCP + C++ EL+ +EEH+R C +S +CPF +GC ++ +++ HL + HSKLIID+I+N RN+ L + +ELR ++ L K + QS+ +I Sbjct: 54 YVSRGNLYCPGGTSECKEENLTICSNIHTDYRVNRKIAKMRVKCPEETCKVYCELVDIEEHLRLCTMKSQNCPFFVLGCNQPKMVIQDLTNHLQNGTFQHSKLIIDIISNMRNDFFGLTTKEVELREDIN-LIKNHFQSQNEI 195
BLAST of TNF receptor associated factor-2 vs. TrEMBL
Match: A0A0F7GWW3 (TNF receptor associated factor 4 (Fragment) OS=Schmidtea mediterranea OX=79327 PE=2 SV=1) HSP 1 Score: 92.8189 bits (229), Expect = 8.213e-20 Identity = 52/142 (36.62%), Postives = 85/142 (59.86%), Query Frame = 2 Query: 68 FTKNVTEDPAVNIKISKRIVKCPRQKCEIQTELIMMEEHMRTCKKRSISCPFISIGCXXXXXXXXXXXXHLNESNYWHSKLIIDLINNFRNEMESLKNENME-------LRNEMTELKKKNRQSKQQIDNIEFQSTNQYQKM 472 +N+ D +N+KI+K VKC + C+ EL ME+H RTCK RS++CP+ +IGC+ I+ +++ HL + H+KL++D + NF NEME LK N LRNE+ ELK + + +I +++ + NQ +++ Sbjct: 12 LNENICVDYPMNMKIAKLQVKCKEKSCDYVDELRKMEDHSRTCKYRSVACPYSNIGCDKCNISQDKVTDHLQSEIFVHTKLLMDFVVNFNNEMEMLKANNNGLSPVNELLRNEINELKLDGDRRRVEIGDLQRKCANQAEEI 153
BLAST of TNF receptor associated factor-2 vs. TrEMBL
Match: T1E101 (TRAF-6 OS=Dendrocoelum lacteum OX=27895 PE=2 SV=1) HSP 1 Score: 80.1073 bits (196), Expect = 9.196e-14 Identity = 37/115 (32.17%), Postives = 67/115 (58.26%), Query Frame = 2 Query: 2 YLDEDDKFCPGDSNFCQAKMINFTKNVTEDPAVNIKISKRIVKCPRQKCEIQTELIMMEEHMRTCKKRSISCPFISIGCXXXXXXXXXXXXHLNESNYWHSKLIIDLINNFRNEM 346 YL ++ +CPGD C+ +N +V + ++ +IS+ +VKCP +C +EL+ ++EH+ C S+ CP ++IGCE + +EM HL + H++LI+ N ++E+ Sbjct: 58 YLSQNHNYCPGDKTECKEDYLNLEGDVFRNIRLSTRISRIVVKCPNIRCNYTSELLRLKEHLDKCTPESVECPCVTIGCEEEPLLKDEMAKHLTDQVLRHTQLIMSFCNELKSEI 172
BLAST of TNF receptor associated factor-2 vs. Planmine SMEST
Match: SMESG000049567.1 (SMESG000049567.1) HSP 1 Score: 329.331 bits (843), Expect = 1.037e-111 Identity = 197/223 (88.34%), Postives = 209/223 (93.72%), Query Frame = 2 Query: 2 YLDEDDKFCPGDSNFCQAKMINFTKNVTEDPAVNIKISKRIVKCPRQKCEIQTELIMMEEHMRTCKKRSISCPFISIGCXXXXXXXXXXXXHLNESNYWHSKLIIDLINNFRNEMESLKNENMELRNEMTELKKKNRQSKQQIDNIEFQSTNQYQKMSEMEAKQLXXXXXXXXXXXXXXXXXXXNESLREEMTELRRENREFKQQIDNIQSLSTNQQQKMGEM 670 YL+E DKFCPG++ +CQ + INFT+NV+ED NI+IS+ IVKCP Q CE +TEL MMEEH+RTC KR ISCPFISIGCEINEIANEE+NAHLNESNYWHSKLIIDLINNFRNEMESLKNENMELRNEMTELKKKNRQSKQQIDNIEFQSTNQYQKMSEMEAKQLENAEEIKKINKEIVAVKKENESLREEMTELRRENREFKQQIDNIQSLSTNQQQKMGEM Sbjct: 46 YLNETDKFCPGEAKYCQVQKINFTRNVSEDHPTNIRISEVIVKCPTQNCETKTELSMMEEHIRTCDKRPISCPFISIGCEINEIANEEINAHLNESNYWHSKLIIDLINNFRNEMESLKNENMELRNEMTELKKKNRQSKQQIDNIEFQSTNQYQKMSEMEAKQLENAEEIKKINKEIVAVKKENESLREEMTELRRENREFKQQIDNIQSLSTNQQQKMGEM 268 HSP 2 Score: 58.9214 bits (141), Expect = 5.155e-10 Identity = 31/51 (60.78%), Postives = 41/51 (80.39%), Query Frame = 2 Query: 341 EMESLKNENMELRNEMTELKKKNRQSKQQIDNIEFQSTNQYQKMSEMEAKQ 493 E+ ++K EN LR EMTEL+++NR+ KQQIDNI+ STNQ QKM EMEA++ Sbjct: 222 EIVAVKKENESLREEMTELRRENREFKQQIDNIQSLSTNQQQKMGEMEARE 272
BLAST of TNF receptor associated factor-2 vs. Planmine SMEST
Match: SMESG000049567.1 (SMESG000049567.1) HSP 1 Score: 329.331 bits (843), Expect = 1.145e-111 Identity = 197/223 (88.34%), Postives = 209/223 (93.72%), Query Frame = 2 Query: 2 YLDEDDKFCPGDSNFCQAKMINFTKNVTEDPAVNIKISKRIVKCPRQKCEIQTELIMMEEHMRTCKKRSISCPFISIGCXXXXXXXXXXXXHLNESNYWHSKLIIDLINNFRNEMESLKNENMELRNEMTELKKKNRQSKQQIDNIEFQSTNQYQKMSEMEAKQLXXXXXXXXXXXXXXXXXXXNESLREEMTELRRENREFKQQIDNIQSLSTNQQQKMGEM 670 YL+E DKFCPG++ +CQ + INFT+NV+ED NI+IS+ IVKCP Q CE +TEL MMEEH+RTC KR ISCPFISIGCEINEIANEE+NAHLNESNYWHSKLIIDLINNFRNEMESLKNENMELRNEMTELKKKNRQSKQQIDNIEFQSTNQYQKMSEMEAKQLENAEEIKKINKEIVAVKKENESLREEMTELRRENREFKQQIDNIQSLSTNQQQKMGEM Sbjct: 53 YLNETDKFCPGEAKYCQVQKINFTRNVSEDHPTNIRISEVIVKCPTQNCETKTELSMMEEHIRTCDKRPISCPFISIGCEINEIANEEINAHLNESNYWHSKLIIDLINNFRNEMESLKNENMELRNEMTELKKKNRQSKQQIDNIEFQSTNQYQKMSEMEAKQLENAEEIKKINKEIVAVKKENESLREEMTELRRENREFKQQIDNIQSLSTNQQQKMGEM 275 HSP 2 Score: 58.9214 bits (141), Expect = 4.676e-10 Identity = 45/94 (47.87%), Postives = 58/94 (61.70%), Query Frame = 2 Query: 341 EMESLKNENMELRNEMTELKKKNRQSKQQIDNIEFQSTNQYQKMSEMEAKQLXXXXXXXXXXXXXXXXXXXNESLREEMTELRRENREFKQQID 622 E+ ++K EN LR EMTEL+++NR+ KQQIDNI+ STNQ QKM EMEA++ ENA EI E L EEM L+ E R Q++ Sbjct: 229 EIVAVKKENESLREEMTELRRENREFKQQIDNIQSLSTNQQQKMGEMEAREQENAGEI--------------ELLNEEMVVLKNEYRSMSSQME 308
BLAST of TNF receptor associated factor-2 vs. Planmine SMEST
Match: SMESG000049614.1 (SMESG000049614.1) HSP 1 Score: 323.553 bits (828), Expect = 1.482e-110 Identity = 194/223 (87.00%), Postives = 204/223 (91.48%), Query Frame = 2 Query: 2 YLDEDDKFCPGDSNFCQAKMINFTKNVTEDPAVNIKISKRIVKCPRQKCEIQTELIMMEEHMRTCKKRSISCPFISIGCXXXXXXXXXXXXHLNESNYWHSKLIIDLINNFRNEMESLKNENMELRNEMTELKKKNRQSKQQIDNIEFQSTNQYQKMSEMEAKQLXXXXXXXXXXXXXXXXXXXNESLREEMTELRRENREFKQQIDNIQSLSTNQQQKMGEM 670 YL E DKFCPG++ +CQ + INFT+NV+ED N++IS+ IVKCP Q CE +TEL MMEEHMRTC KR ISCPF SIGCEINEIANEEMNAHLNESNYWHSKLIIDL NNFRNEMESLKNENMELRNEMTELKKKNRQSKQQIDNIEFQSTNQYQKMSEMEAKQLEN EEIKKINKEIVAVKKENESLREEMTELRRENREFKQQ DNIQSLSTNQQQKMGEM Sbjct: 46 YLKETDKFCPGEAKYCQVQKINFTRNVSEDHPANLRISEVIVKCPTQNCETKTELGMMEEHMRTCDKRPISCPFNSIGCEINEIANEEMNAHLNESNYWHSKLIIDLFNNFRNEMESLKNENMELRNEMTELKKKNRQSKQQIDNIEFQSTNQYQKMSEMEAKQLENTEEIKKINKEIVAVKKENESLREEMTELRRENREFKQQFDNIQSLSTNQQQKMGEM 268 HSP 2 Score: 56.6102 bits (135), Expect = 2.825e-9 Identity = 31/57 (54.39%), Postives = 41/57 (71.93%), Query Frame = 2 Query: 323 INNFRNEMESLKNENMELRNEMTELKKKNRQSKQQIDNIEFQSTNQYQKMSEMEAKQ 493 I E+ ++K EN LR EMTEL+++NR+ KQQ DNI+ STNQ QKM EMEA++ Sbjct: 216 IKKINKEIVAVKKENESLREEMTELRRENREFKQQFDNIQSLSTNQQQKMGEMEARE 272
BLAST of TNF receptor associated factor-2 vs. Planmine SMEST
Match: SMESG000049688.1 (SMESG000049688.1) HSP 1 Score: 323.553 bits (828), Expect = 2.461e-109 Identity = 193/223 (86.55%), Postives = 207/223 (92.83%), Query Frame = 2 Query: 2 YLDEDDKFCPGDSNFCQAKMINFTKNVTEDPAVNIKISKRIVKCPRQKCEIQTELIMMEEHMRTCKKRSISCPFISIGCXXXXXXXXXXXXHLNESNYWHSKLIIDLINNFRNEMESLKNENMELRNEMTELKKKNRQSKQQIDNIEFQSTNQYQKMSEMEAKQLXXXXXXXXXXXXXXXXXXXNESLREEMTELRRENREFKQQIDNIQSLSTNQQQKMGEM 670 YL+++DKFCPG++ +CQ + INFT+NV+ED N++IS+ IVKCPRQ CE +TEL MMEEHMRTC KR ISCPF SIGCE+NEIANEEMNAHLNESNYWHSKLIIDL NNFRNEMESLKN NMELRNEMTELKKKNRQSK QIDNIEFQSTNQYQKMSEMEAKQLENAEEIKKINKEIVAVKKENESLREEMTELRRENREFKQQIDNIQSLSTNQQQKMGEM Sbjct: 46 YLNQNDKFCPGEAKYCQVQKINFTRNVSEDHTANLRISEVIVKCPRQNCETKTELSMMEEHMRTCDKRPISCPFNSIGCEMNEIANEEMNAHLNESNYWHSKLIIDLFNNFRNEMESLKNGNMELRNEMTELKKKNRQSKHQIDNIEFQSTNQYQKMSEMEAKQLENAEEIKKINKEIVAVKKENESLREEMTELRRENREFKQQIDNIQSLSTNQQQKMGEM 268 HSP 2 Score: 61.6178 bits (148), Expect = 5.675e-11 Identity = 46/94 (48.94%), Postives = 59/94 (62.77%), Query Frame = 2 Query: 341 EMESLKNENMELRNEMTELKKKNRQSKQQIDNIEFQSTNQYQKMSEMEAKQLXXXXXXXXXXXXXXXXXXXNESLREEMTELRRENREFKQQID 622 E+ ++K EN LR EMTEL+++NR+ KQQIDNI+ STNQ QKM EMEA++ ENA EI E L EEM L+ ENR Q++ Sbjct: 222 EIVAVKKENESLREEMTELRRENREFKQQIDNIQSLSTNQQQKMGEMEAREQENAGEI--------------ELLNEEMVVLKNENRSMSSQME 301
BLAST of TNF receptor associated factor-2 vs. Planmine SMEST
Match: SMESG000049688.1 (SMESG000049688.1) HSP 1 Score: 323.168 bits (827), Expect = 3.552e-109 Identity = 193/223 (86.55%), Postives = 207/223 (92.83%), Query Frame = 2 Query: 2 YLDEDDKFCPGDSNFCQAKMINFTKNVTEDPAVNIKISKRIVKCPRQKCEIQTELIMMEEHMRTCKKRSISCPFISIGCXXXXXXXXXXXXHLNESNYWHSKLIIDLINNFRNEMESLKNENMELRNEMTELKKKNRQSKQQIDNIEFQSTNQYQKMSEMEAKQLXXXXXXXXXXXXXXXXXXXNESLREEMTELRRENREFKQQIDNIQSLSTNQQQKMGEM 670 YL+++DKFCPG++ +CQ + INFT+NV+ED N++IS+ IVKCPRQ CE +TEL MMEEHMRTC KR ISCPF SIGCE+NEIANEEMNAHLNESNYWHSKLIIDL NNFRNEMESLKN NMELRNEMTELKKKNRQSK QIDNIEFQSTNQYQKMSEMEAKQLENAEEIKKINKEIVAVKKENESLREEMTELRRENREFKQQIDNIQSLSTNQQQKMGEM Sbjct: 53 YLNQNDKFCPGEAKYCQVQKINFTRNVSEDHTANLRISEVIVKCPRQNCETKTELSMMEEHMRTCDKRPISCPFNSIGCEMNEIANEEMNAHLNESNYWHSKLIIDLFNNFRNEMESLKNGNMELRNEMTELKKKNRQSKHQIDNIEFQSTNQYQKMSEMEAKQLENAEEIKKINKEIVAVKKENESLREEMTELRRENREFKQQIDNIQSLSTNQQQKMGEM 275 HSP 2 Score: 61.6178 bits (148), Expect = 6.208e-11 Identity = 46/94 (48.94%), Postives = 59/94 (62.77%), Query Frame = 2 Query: 341 EMESLKNENMELRNEMTELKKKNRQSKQQIDNIEFQSTNQYQKMSEMEAKQLXXXXXXXXXXXXXXXXXXXNESLREEMTELRRENREFKQQID 622 E+ ++K EN LR EMTEL+++NR+ KQQIDNI+ STNQ QKM EMEA++ ENA EI E L EEM L+ ENR Q++ Sbjct: 229 EIVAVKKENESLREEMTELRRENREFKQQIDNIQSLSTNQQQKMGEMEAREQENAGEI--------------ELLNEEMVVLKNENRSMSSQME 308 The following BLAST results are available for this feature:
BLAST of TNF receptor associated factor-2 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99) Total hits: 0
BLAST of TNF receptor associated factor-2 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99) Total hits: 0
BLAST of TNF receptor associated factor-2 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99) Total hits: 0
BLAST of TNF receptor associated factor-2 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99) Total hits: 0
BLAST of TNF receptor associated factor-2 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99) Total hits: 0
BLAST of TNF receptor associated factor-2 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99) Total hits: 0
BLAST of TNF receptor associated factor-2 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt) Total hits: 0
BLAST of TNF receptor associated factor-2 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL) Total hits: 3
BLAST of TNF receptor associated factor-2 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99) Total hits: 0
BLAST of TNF receptor associated factor-2 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99) Total hits: 0
BLAST of TNF receptor associated factor-2 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46) Total hits: 0
BLAST of TNF receptor associated factor-2 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46) Total hits: 0
BLAST of TNF receptor associated factor-2 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99) Total hits: 0
BLAST of TNF receptor associated factor-2 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST) Total hits: 5
Analyses
This transcript is derived from or has results from the following analyses Sequences
The following sequences are available for this feature:
transcript sequence >SMED30025535 ID=SMED30025535|Name=TNF receptor associated factor-2|organism=Schmidtea mediterranea sexual|type=transcript|length=670bpback to top protein sequence of SMED30025535-orf-1 >SMED30025535-orf-1 ID=SMED30025535-orf-1|Name=SMED30025535-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=223bp YLDEDDKFCPGDSNFCQAKMINFTKNVTEDPAVNIKISKRIVKCPRQKCEback to top Annotated Terms
The following terms have been associated with this transcript:
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