TNF receptor-associated factor

Overview
NameTNF receptor-associated factor
Smed IDSMED30007304
Length (bp)1830
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 TNF receptor-associated factor (SMED30007304) t-SNE clustered cells

Violin plots show distribution of expression levels for TNF receptor-associated factor (SMED30007304) 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 TNF receptor-associated factor (SMED30007304) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for TNF receptor-associated factor (SMED30007304) 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



SMED30007304

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



PAGE Curations: 4

  
Expressed InReference TranscriptGene ModelsPublished TranscriptTranscriptomePublicationSpecimenLifecycleEvidence
nervous systemSMED30007304SMESG000075241.1 dd_Smed_v4_4380_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30007304SMESG000075241.1 dd_Smed_v4_4380_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
neoblastSMED30007304SMESG000075241.1 dd_Smed_v4_4380_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
epidermisSMED30007304SMESG000075241.1 dd_Smed_v4_4380_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 TNF receptor-associated factor vs. Ensembl Zebrafish
Match: traf2b (Tnf receptor-associated factor 2b [Source:ZFIN;Acc:ZDB-GENE-030131-5345])

HSP 1 Score: 55.0694 bits (131), Expect = 1.693e-7
Identity = 34/108 (31.48%), Postives = 49/108 (45.37%), Query Frame = 1 
Query:  136 INDDYQCGICKEIINNAYQAICGCNFCQECINRLIDSRVLHCPG------NTDECSFSNLSCFVINHRLNIQISKLVLKCPNENCSHKCKLIDMD-EHLSFCSIESDK 438
            +   YQC  CK+I+   +QA CG  FC  C  +L  S  + C          +E S  N++    ++    +I  L  KCPNE CS    L D + +H   C+ E  K
Sbjct:   52 MEPKYQCQQCKDILRKPFQAQCGHRFCVFCFKQLTSSGPIPCEACRAEGIFEEETSVLNIAVAFPDNAARREIDSLPAKCPNEGCSWSGTLKDFENQHEGRCAFERVK 159
[Close]
BLAST of TNF receptor-associated factor vs. Ensembl Zebrafish
Match: traf2b (Tnf receptor-associated factor 2b [Source:ZFIN;Acc:ZDB-GENE-030131-5345])

HSP 1 Score: 55.0694 bits (131), Expect = 1.725e-7
Identity = 34/108 (31.48%), Postives = 49/108 (45.37%), Query Frame = 1 
Query:  136 INDDYQCGICKEIINNAYQAICGCNFCQECINRLIDSRVLHCPG------NTDECSFSNLSCFVINHRLNIQISKLVLKCPNENCSHKCKLIDMD-EHLSFCSIESDK 438
            +   YQC  CK+I+   +QA CG  FC  C  +L  S  + C          +E S  N++    ++    +I  L  KCPNE CS    L D + +H   C+ E  K
Sbjct:   39 MEPKYQCQQCKDILRKPFQAQCGHRFCVFCFKQLTSSGPIPCEACRAEGIFEEETSVLNIAVAFPDNAARREIDSLPAKCPNEGCSWSGTLKDFENQHEGRCAFERVK 146
[Close]
BLAST of TNF receptor-associated factor vs. Ensembl Zebrafish
Match: traf2b (Tnf receptor-associated factor 2b [Source:ZFIN;Acc:ZDB-GENE-030131-5345])

HSP 1 Score: 55.0694 bits (131), Expect = 1.725e-7
Identity = 34/108 (31.48%), Postives = 49/108 (45.37%), Query Frame = 1 
Query:  136 INDDYQCGICKEIINNAYQAICGCNFCQECINRLIDSRVLHCPG------NTDECSFSNLSCFVINHRLNIQISKLVLKCPNENCSHKCKLIDMD-EHLSFCSIESDK 438
            +   YQC  CK+I+   +QA CG  FC  C  +L  S  + C          +E S  N++    ++    +I  L  KCPNE CS    L D + +H   C+ E  K
Sbjct:   39 MEPKYQCQQCKDILRKPFQAQCGHRFCVFCFKQLTSSGPIPCEACRAEGIFEEETSVLNIAVAFPDNAARREIDSLPAKCPNEGCSWSGTLKDFENQHEGRCAFERVK 146
[Close]
BLAST of TNF receptor-associated factor vs. TrEMBL
Match: I1ZID8 (TNF receptor associated factor-2 (Fragment) OS=Schmidtea mediterranea OX=79327 PE=2 SV=1)

HSP 1 Score: 102.064 bits (253), Expect = 6.494e-21
Identity = 59/189 (31.22%), Postives = 101/189 (53.44%), Query Frame = 1 
Query:   88 KISKLLLEHKFSIANEINDDYQCGICKEIINNAYQAICGCNFCQECINRLIDSRVLHCPGNTDECSFSNLSC---FVINHRLNIQISKLVLKCPNENCSHKCKLIDMDEHLSFCSIESDKYQF-----NDNDISRVRRNENLESSIDSQINMLIESMAQLRNEVKDLKLNNVRKDNVIESLRNEINAIK 630
            KI++LL+ + F +   + D+ +C +CK ++ NA Q+ CGC FC +CI   +    L+CPG T EC   NL+       ++R+N +I+K+ +KCP E C   C+L+D++EHL  C+++S    F     N   +       +L++       ++I+ ++ +RN+   L    V        LR +IN IK
Sbjct:    5 KINRLLITYNFEVEGGVPDNLKCDLCKNLLVNACQSRCGCRFCSKCIMEYVSRGNLYCPGGTSECKEENLTICSNIHTDYRVNRKIAKMRVKCPEETCKVYCELVDIEEHLRLCTMKSQNCPFFVLGCNQPKMVIQDLTNHLQNGTFQHSKLIIDIISNMRNDFFGLTTKEV-------ELREDINLIK 186
[Close]
BLAST of TNF receptor-associated factor vs. TrEMBL
Match: T1E101 (TRAF-6 OS=Dendrocoelum lacteum OX=27895 PE=2 SV=1)

HSP 1 Score: 75.0998 bits (183), Expect = 1.677e-10
Identity = 42/126 (33.33%), Postives = 76/126 (60.32%), Query Frame = 1 
Query:   67 IMNEKLNKISKLLLEHKFSIANE-INDDYQCGICKEIINNAYQAICGCNFCQECINRLIDSRVLHCPGNTDECS--FSNLSCFVI-NHRLNIQISKLVLKCPNENCSHKCKLIDMDEHLSFCSIES 432
            ++  KL+ + +LL ++     +E +N+D  C +C +++ +A ++ CGC++C  CI   +     +CPG+  EC   + NL   V  N RL+ +IS++V+KCPN  C++  +L+ + EHL  C+ ES
Sbjct:    1 MIPSKLDNVQELLSKYNVKRVDESVNNDLLCILCNKLMRDACESACGCHYCYTCIRIYLSQNHNYCPGDKTECKEDYLNLEGDVFRNIRLSTRISRIVVKCPNIRCNYTSELLRLKEHLDKCTPES 126
[Close]
BLAST of TNF receptor-associated factor vs. Ensembl Nematostella
Match: EDO31690 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7SX76])

HSP 1 Score: 51.9878 bits (123), Expect = 4.192e-7
Identity = 35/110 (31.82%), Postives = 56/110 (50.91%), Query Frame = 1 
Query:  154 CGICKEIINNAYQAICGCNFCQECINRLIDSR-VLHCPGNTDECSFSNLSCFVINHRLNIQISKLVLKCPNENCSHKCKLIDMDEHLSFCSIESDKYQFNDNDISRVRRN 480
            CGIC  ++N      CG +FC  C N+  + + V+ CP +  +   +    F+ + +   Q+  L +KC N  CS K +L D  +HL+ C  E  K  F+  D +R+ RN
Sbjct:   27 CGICLMVVNKPVLTYCGHSFCNFCFNKWRNGKDVVTCPVDYKQLETNQ---FMADKKTERQVLSLCVKCMNGPCSWKGELRDKKKHLTKCGHEVIKCVFDGCD-TRLARN 132
[Close]
BLAST of TNF receptor-associated factor vs. Ensembl Nematostella
Match: EDO30277 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7T190])

HSP 1 Score: 49.6766 bits (117), Expect = 1.524e-6
Identity = 35/117 (29.91%), Postives = 59/117 (50.43%), Query Frame = 1 
Query:  139 NDDYQCGICKEIINNAYQAICGCNFCQECINRLIDSR-VLHCPGNTD--ECSFSNLSCFVINHRLNIQISKLVLKCPNENCSHKCKLIDMDEHLSFCSIESDKYQFNDNDISRVRRN 480
            + +  CGIC  ++N  +   CG ++C  C N+  + + V+ CP +    E + S L  F+ + +    +  L +K  N  CS K +L D  +HL+ C  E  K  F+  D +R+ RN
Sbjct:   22 SQELMCGICLMVVNEPFLTYCGLSYCNFCFNKWRNGKDVVTCPLDYKQLETNVSGLMQFIADKKTERLVLSLCVKYMNGPCSWKGELRDKKKHLTKCDHEVIKCVFDGCD-TRLARN 137
[Close]
BLAST of TNF receptor-associated factor vs. Ensembl Nematostella
Match: EDO31692 (Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7SX78])

HSP 1 Score: 50.0618 bits (118), Expect = 1.531e-6
Identity = 34/110 (30.91%), Postives = 56/110 (50.91%), Query Frame = 1 
Query:  154 CGICKEIINNAYQAICGCNFCQECINRLIDSR-VLHCPGNTDECSFSNLSCFVINHRLNIQISKLVLKCPNENCSHKCKLIDMDEHLSFCSIESDKYQFNDNDISRVRRN 480
            CGIC  ++N      CG ++C  C N+  + + V+ CP +  +   +    F+ + +   Q+  L +KC N  CS K +L D  +HL+ C  E  K  F+  D +R+ RN
Sbjct:   27 CGICLMVVNKPVLTYCGHSYCNFCFNKWRNGKDVVTCPVDYKQLETNQ---FMADKKTERQVLSLCVKCMNGPCSWKGELRDKKKHLTKCDHEVIKCVFDGCD-TRLARN 132
[Close]
BLAST of TNF receptor-associated factor vs. Ensembl Medaka
Match: traf6 (TNF receptor associated factor 6 [Source:NCBI gene;Acc:101161132])

HSP 1 Score: 52.7582 bits (125), Expect = 8.460e-7
Identity = 34/124 (27.42%), Postives = 55/124 (44.35%), Query Frame = 1 
Query:   61 SAIMNEKLNKISKLLLEHKFSIANEINDDYQCGICKEIINNAYQAICGCNFCQECINRLIDSRVLHCPGNTDECSFSNLSCFVINHRLNIQISKLVLKCPNENCSHKCKLIDMDEHLSFCSIES 432
            +A M     + +  L  +       +   Y+C IC   + NA Q  CG  FC+ CI + I      CP + +  S   L  F  N     +I  L ++CPN +C  K +L  +++HL+ C   +
Sbjct:   47 TASMGSSSLQAAAPLQGYDVEFDPPLESKYECPICLMALRNAIQTRCGHRFCKSCIEKSIRDTGQRCPVDNEMLSEDQL--FPDNF-AKREILSLTVRCPNSDCGEKMELRHLEKHLAQCQFAT 167
[Close]
BLAST of TNF receptor-associated factor vs. Planmine SMEST
Match: SMESG000075241.1 (SMESG000075241.1)

HSP 1 Score: 457.218 bits (1175), Expect = 0.000e+0
Identity = 245/281 (87.19%), Postives = 247/281 (87.90%), Query Frame = 2 
Query:  671 IQHENQELKTLMRNSDNNLWDKLNQVDIEMNDKCRNDTVKSIIDDVEAMKVK*LT*IDLIN*FINIQIDKLELEKQMKIIDRKCQVRIGSI*LLVMIN*FQELNGNVKAETDKLVKEMREMRNYGMTKKVEILCQPQDXXXXXXXXXXXXKLHNGEIKWTIGKINEIKYMESDYFFDFLNPYKMQLRVENVKNRLEFQLWIYRKEFDDDNLSWPMKANVTIEIGLCSDMNVYKSMTMPCTVDKPKNNNWKSSDVIYFHHSLLRENKLFYENCVVLCYVTFC 1513
            I+HENQELKTLMRNSDNNLWDKLNQ+DIEMNDKCRNDTVKSIIDDVEAMK                 IDKLELEKQMKIIDRKCQ                ELNGNVKAETDKLVKEMREMRNYGMTKKVEILCQPQDENETEEITEFLEKLHNGEIKWTIGKINEIKYMESDYFFDFLNPYKMQLRVENVKNRLEFQLWIYRKEFDDDNLSWPMKANV IEIGLCSDMNVYKSMTMPCTVDKPKNNNWKSSDVIYFHHSLLRENKLFYENCVVLCYVTFC
Sbjct:  180 IKHENQELKTLMRNSDNNLWDKLNQMDIEMNDKCRNDTVKSIIDDVEAMK-----------------IDKLELEKQMKIIDRKCQ----------------ELNGNVKAETDKLVKEMREMRNYGMTKKVEILCQPQDENETEEITEFLEKLHNGEIKWTIGKINEIKYMESDYFFDFLNPYKMQLRVENVKNRLEFQLWIYRKEFDDDNLSWPMKANVKIEIGLCSDMNVYKSMTMPCTVDKPKNNNWKSSDVIYFHHSLLRENKLFYENCVVLCYVTFC 427

HSP 2 Score: 346.28 bits (887), Expect = 0.000e+0
Identity = 177/187 (94.65%), Postives = 180/187 (96.26%), Query Frame = 1 
Query:   70 MNEKLNKISKLLLEHKFSIANEINDDYQCGICKEIINNAYQAICGCNFCQECINRLIDSRVLHCPGNTDECSFSNLSCFVINHRLNIQISKLVLKCPNENCSHKCKLIDMDEHLSFCSIESDKYQFNDNDISRVRRNENLESSIDSQINMLIESMAQLRNEVKDLKLNNVRKDNVIESLRNEINAIK 630
            MNEKLNKISKLLLEHKFS+ANEIN+DYQCGICKEIINNAYQAICGCNFCQECINRLID RVLHCPGNTDECSFSNLSCFVINHRLNIQISKLVLKCPNENCSHKCKLIDMDEHLSFCSIES      DNDISRVRRNENLESSIDSQINMLIESMAQLRNEVKDLKLN+VRKDNVIESLRNEINAIK
Sbjct:    1 MNEKLNKISKLLLEHKFSMANEINNDYQCGICKEIINNAYQAICGCNFCQECINRLIDRRVLHCPGNTDECSFSNLSCFVINHRLNIQISKLVLKCPNENCSHKCKLIDMDEHLSFCSIES------DNDISRVRRNENLESSIDSQINMLIESMAQLRNEVKDLKLNDVRKDNVIESLRNEINAIK 181
[Close]
BLAST of TNF receptor-associated factor vs. Planmine SMEST
Match: SMESG000075241.1 (SMESG000075241.1)

HSP 1 Score: 456.833 bits (1174), Expect = 0.000e+0
Identity = 245/281 (87.19%), Postives = 247/281 (87.90%), Query Frame = 2 
Query:  671 IQHENQELKTLMRNSDNNLWDKLNQVDIEMNDKCRNDTVKSIIDDVEAMKVK*LT*IDLIN*FINIQIDKLELEKQMKIIDRKCQVRIGSI*LLVMIN*FQELNGNVKAETDKLVKEMREMRNYGMTKKVEILCQPQDXXXXXXXXXXXXKLHNGEIKWTIGKINEIKYMESDYFFDFLNPYKMQLRVENVKNRLEFQLWIYRKEFDDDNLSWPMKANVTIEIGLCSDMNVYKSMTMPCTVDKPKNNNWKSSDVIYFHHSLLRENKLFYENCVVLCYVTFC 1513
            I+HENQELKTLMRNSDNNLWDKLNQ+DIEMNDKCRNDTVKSIIDDVEAMK                 IDKLELEKQMKIIDRKCQ                ELNGNVKAETDKLVKEMREMRNYGMTKKVEILCQPQDENETEEITEFLEKLHNGEIKWTIGKINEIKYMESDYFFDFLNPYKMQLRVENVKNRLEFQLWIYRKEFDDDNLSWPMKANV IEIGLCSDMNVYKSMTMPCTVDKPKNNNWKSSDVIYFHHSLLRENKLFYENCVVLCYVTFC
Sbjct:  162 IKHENQELKTLMRNSDNNLWDKLNQMDIEMNDKCRNDTVKSIIDDVEAMK-----------------IDKLELEKQMKIIDRKCQ----------------ELNGNVKAETDKLVKEMREMRNYGMTKKVEILCQPQDENETEEITEFLEKLHNGEIKWTIGKINEIKYMESDYFFDFLNPYKMQLRVENVKNRLEFQLWIYRKEFDDDNLSWPMKANVKIEIGLCSDMNVYKSMTMPCTVDKPKNNNWKSSDVIYFHHSLLRENKLFYENCVVLCYVTFC 409

HSP 2 Score: 313.153 bits (801), Expect = 0.000e+0
Identity = 159/169 (94.08%), Postives = 162/169 (95.86%), Query Frame = 1 
Query:  124 IANEINDDYQCGICKEIINNAYQAICGCNFCQECINRLIDSRVLHCPGNTDECSFSNLSCFVINHRLNIQISKLVLKCPNENCSHKCKLIDMDEHLSFCSIESDKYQFNDNDISRVRRNENLESSIDSQINMLIESMAQLRNEVKDLKLNNVRKDNVIESLRNEINAIK 630
            +ANEIN+DYQCGICKEIINNAYQAICGCNFCQECINRLID RVLHCPGNTDECSFSNLSCFVINHRLNIQISKLVLKCPNENCSHKCKLIDMDEHLSFCSIES      DNDISRVRRNENLESSIDSQINMLIESMAQLRNEVKDLKLN+VRKDNVIESLRNEINAIK
Sbjct:    1 MANEINNDYQCGICKEIINNAYQAICGCNFCQECINRLIDRRVLHCPGNTDECSFSNLSCFVINHRLNIQISKLVLKCPNENCSHKCKLIDMDEHLSFCSIES------DNDISRVRRNENLESSIDSQINMLIESMAQLRNEVKDLKLNDVRKDNVIESLRNEINAIK 163
[Close]
BLAST of TNF receptor-associated factor vs. Planmine SMEST
Match: SMESG000075530.1 (SMESG000075530.1)

HSP 1 Score: 197.208 bits (500), Expect = 9.296e-101
Identity = 120/286 (41.96%), Postives = 162/286 (56.64%), Query Frame = 2 
Query:  671 IQHENQELKTLMRNSDNNLWDKLNQVDIEMNDKCRNDTVKSIIDDVEAMKVK*LT*IDLIN*FINIQIDKLELEKQMKIIDRKCQVRIGSI*LLVMIN*FQELNGN------VKAETDKLVKEMREMRNYGMTKKVEILCQPQDXXXXXXXXXXXXKLHNGEIKWTIGKINEIKYMESDYFFDFLNPYKMQLRVENVKNRLEFQLWIYRKEFDDDNLSWPMKANVTIEIGLCSDMNVYKSMTMPCTVDKPKNNNWKSSDVIYFHHSLLRENKLFYENCVVLCYVTF 1510
            I+HEN+ELKTLMRNS+NNLW+KL+Q+DIEMND+CR DTVKS+ D +E M+                 I   ELE+QMKI+DRKC                QELNGN      VKAETDKL  E  ++  +        L  P                H+G +   IGKINE+K++ S+ F+DF N YKMQL ++N  N+   QL I+   FD+D L WP+KA + ++I   +D    KS+T  CT+ KP N +++SSD   F H+ L + K+   NC++ CYV F
Sbjct:  190 IKHENKELKTLMRNSNNNLWNKLDQMDIEMNDRCRIDTVKSVNDAIEIMR-----------------IAGSELEQQMKIVDRKC----------------QELNGNVQIIHQVKAETDKLTNETEKINKF--------LKMP----------------HDGHLLLPIGKINEMKFIWSEVFYDFQNLYKMQLMLKNAANKFNIQLRIHSGVFDED-LQWPVKAKINVDIISSNDFQAPKSLTKTCTITKPANYSYESSDQFSFAHTDLDKCKMLDNNCLIACYVEF 417

HSP 2 Score: 190.66 bits (483), Expect = 9.296e-101
Identity = 101/192 (52.60%), Postives = 136/192 (70.83%), Query Frame = 1 
Query:   70 MNEKLNKISKLLLEHKFSIANEINDDYQCGICKEIINNAYQAICGCNFCQECINRLIDSRVLHCPGNTDECSFSNLSCFVINHRLNIQISKLVLKCPNENCSHKCKLIDMDEHLSFCSIESDKYQFND-----NDISRVRRNENLESSIDSQINMLIESMAQLRNEVKDLKLNNVRKDNVIESLRNEINAIK 630
            +N+KLNKIS+LL EHKF I N+I DDY+C IC  I+NNA+QAICGCNFC+ECINR I++    CP     C   ++     N+ LNIQISK+ +KCPNENCS++CKLI+M+EHL  CS  + +  F+       ++S  + N++  S+++    +LIE + QLRNE+KDLK N+ +KD  IESLRNEINAIK
Sbjct:    4 INKKLNKISQLLSEHKFVIVNDITDDYKCAICNGIVNNAHQAICGCNFCEECINRFIENGGAKCPA----CQCEDILEISKNYGLNIQISKITVKCPNENCSYECKLIEMNEHLRLCSTRNVECPFSGIGCQLKEMSSEKLNDHFISNVEGHSKILIELIGQLRNEMKDLKENSTKKDEAIESLRNEINAIK 191
[Close]
BLAST of TNF receptor-associated factor vs. Planmine SMEST
Match: SMESG000075344.1 (SMESG000075344.1)

HSP 1 Score: 191.045 bits (484), Expect = 2.570e-93
Identity = 100/192 (52.08%), Postives = 136/192 (70.83%), Query Frame = 1 
Query:   70 MNEKLNKISKLLLEHKFSIANEINDDYQCGICKEIINNAYQAICGCNFCQECINRLIDSRVLHCPGNTDECSFSNLSCFVINHRLNIQISKLVLKCPNENCSHKCKLIDMDEHLSFCSIESDKYQFND-----NDISRVRRNENLESSIDSQINMLIESMAQLRNEVKDLKLNNVRKDNVIESLRNEINAIK 630
            +N+KLNKIS+LL EHKF I N+I DDY+C IC  I+NNA+QAICGCNFC+ECINR I++    CP     C   N+     N+ LNI+ISK+ +KCPNENCS++CKLI+M+EHL  CS  + +  F+       ++S  + N++  S+++    +LIE + QLRNE+KDLK N+++KD  IESLRNEI AIK
Sbjct:    4 INKKLNKISQLLSEHKFVIVNDITDDYKCAICNGIVNNAHQAICGCNFCEECINRFIENGGAKCPA----CQCENVLVITKNYLLNIRISKITVKCPNENCSYECKLIEMNEHLRLCSTRNVECPFSGIGCQLKEMSSEKLNDHFISNVEGHSKILIELIGQLRNEMKDLKENSMKKDEAIESLRNEIKAIK 191

HSP 2 Score: 171.785 bits (434), Expect = 2.570e-93
Identity = 111/287 (38.68%), Postives = 151/287 (52.61%), Query Frame = 2 
Query:  671 IQHENQELKTLMRNSDNNLWDKLNQVDIEMNDKCRNDTVKSIIDDVEAMKVK*LT*IDLIN*FINIQIDKLELEKQMKIIDRKCQVRIGSI*LLVMIN*FQELNGN------VKAETDKLVKEMREMRNYGMTKKVEILCQPQDXXXXXXXXXXXXKLHN-GEIKWTIGKINEIKYMESDYFFDFLNPYKMQLRVENVKNRLEFQLWIYRKEFDDDNLSWPMKANVTIEIGLCSDMNVYKSMTMPCTVDKPKNNNWKSSDVIYFHHSLLRENKLFYENCVVLCYVTF 1510
            I+HENQELKTL++NS+NNLW KLNQ+D+EMN +  N TVK I D +E+M+                 I   ELE+QMKI+DRKC                QELNGN      VKAETDKL KE   +  +                          K+ N G + W IGKINE+K + S+ F+DF NPYK+QL + N  + +  QL IY   FD+D L WP+KA + I+I   +D    KS+T+ C + KP  N+++ S         L + ++   NC ++C V F
Sbjct:  190 IKHENQELKTLIKNSNNNLWIKLNQIDVEMNGRSNNGTVKHINDKIESMR-----------------IAGSELEQQMKIVDRKC----------------QELNGNVQIIHQVKAETDKLTKETERINKF-------------------------LKMRNSGHLLWPIGKINEMKMIGSEMFYDFQNPYKIQLWLINATDNMNIQLLIYSGAFDED-LQWPVKAKLNIQITSLNDDQQSKSLTISCRIPKPAKNSYEESAEFSVARVDLDKWQMLDNNCSLVCSVKF 417
[Close]
BLAST of TNF receptor-associated factor vs. Planmine SMEST
Match: SMESG000075530.1 (SMESG000075530.1)

HSP 1 Score: 189.889 bits (481), Expect = 2.113e-85
Identity = 101/192 (52.60%), Postives = 136/192 (70.83%), Query Frame = 1 
Query:   70 MNEKLNKISKLLLEHKFSIANEINDDYQCGICKEIINNAYQAICGCNFCQECINRLIDSRVLHCPGNTDECSFSNLSCFVINHRLNIQISKLVLKCPNENCSHKCKLIDMDEHLSFCSIESDKYQFND-----NDISRVRRNENLESSIDSQINMLIESMAQLRNEVKDLKLNNVRKDNVIESLRNEINAIK 630
            +N+KLNKIS+LL EHKF I N+I DDY+C IC  I+NNA+QAICGCNFC+ECINR I++    CP     C   ++     N+ LNIQISK+ +KCPNENCS++CKLI+M+EHL  CS  + +  F+       ++S  + N++  S+++    +LIE + QLRNE+KDLK N+ +KD  IESLRNEINAIK
Sbjct:    4 INKKLNKISQLLSEHKFVIVNDITDDYKCAICNGIVNNAHQAICGCNFCEECINRFIENGGAKCPA----CQCEDILEISKNYGLNIQISKITVKCPNENCSYECKLIEMNEHLRLCSTRNVECPFSGIGCQLKEMSSEKLNDHFISNVEGHSKILIELIGQLRNEMKDLKENSTKKDEAIESLRNEINAIK 191

HSP 2 Score: 146.362 bits (368), Expect = 2.113e-85
Identity = 95/220 (43.18%), Postives = 122/220 (55.45%), Query Frame = 2 
Query:  671 IQHENQELKTLMRNSDNNLWDKLNQVDIEMNDKCRNDTVKSIIDDVEAMKVK*LT*IDLIN*FINIQIDKLELEKQMKIIDRKCQVRIGSI*LLVMIN*FQELNGN------VKAETDKLVKEMREMRNYGMTKKVEILCQPQDXXXXXXXXXXXXKLHNGEIKWTIGKINEIKYMESDYFFDFLNPYKMQLRVENVKNRLEFQLWIYRKEFDDDNLSWP 1312
            I+HEN+ELKTLMRNS+NNLW+KL+Q+DIEMND+CR DTVKS+ D +E M+                 I   ELE+QMKI+DRKC                QELNGN      VKAETDKL  E  ++  +        L  P                H+G +   IGKINE+K++ S+ F+DF N YKMQL ++N  N+   QL I+   FD+D L WP
Sbjct:  190 IKHENKELKTLMRNSNNNLWNKLDQMDIEMNDRCRIDTVKSVNDAIEIMR-----------------IAGSELEQQMKIVDRKC----------------QELNGNVQIIHQVKAETDKLTNETEKINKF--------LKMP----------------HDGHLLLPIGKINEMKFIWSEVFYDFQNLYKMQLMLKNAANKFNIQLRIHSGVFDED-LQWP 351
The following BLAST results are available for this feature:
BLAST of TNF receptor-associated factor 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 TNF receptor-associated factor 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 TNF receptor-associated factor 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 TNF receptor-associated factor vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 3
Match NameE-valueIdentityDescription
traf2b1.693e-731.48Tnf receptor-associated factor 2b [Source:ZFIN;Acc... [more]
traf2b1.725e-731.48Tnf receptor-associated factor 2b [Source:ZFIN;Acc... [more]
traf2b1.725e-731.48Tnf receptor-associated factor 2b [Source:ZFIN;Acc... [more]
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BLAST of TNF receptor-associated factor 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 TNF receptor-associated factor 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 TNF receptor-associated factor 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 TNF receptor-associated factor vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 2
Match NameE-valueIdentityDescription
I1ZID86.494e-2131.22TNF receptor associated factor-2 (Fragment) OS=Sch... [more]
T1E1011.677e-1033.33TRAF-6 OS=Dendrocoelum lacteum OX=27895 PE=2 SV=1[more]
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BLAST of TNF receptor-associated factor 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 TNF receptor-associated factor 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 TNF receptor-associated factor 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 TNF receptor-associated factor vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 3
Match NameE-valueIdentityDescription
EDO316904.192e-731.82Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7... [more]
EDO302771.524e-629.91Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7... [more]
EDO316921.531e-630.91Predicted protein [Source:UniProtKB/TrEMBL;Acc:A7... [more]
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BLAST of TNF receptor-associated factor vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 1
Match NameE-valueIdentityDescription
traf68.460e-727.42TNF receptor associated factor 6 [Source:NCBI gene... [more]
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BLAST of TNF receptor-associated factor vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 5
Match NameE-valueIdentityDescription
SMESG000075241.10.000e+087.19SMESG000075241.1[more]
SMESG000075241.10.000e+087.19SMESG000075241.1[more]
SMESG000075530.19.296e-10141.96SMESG000075530.1[more]
SMESG000075344.12.570e-9352.08SMESG000075344.1[more]
SMESG000075530.12.113e-8552.60SMESG000075530.1[more]
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Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30007304 ID=SMED30007304|Name=TNF receptor-associated factor|organism=Schmidtea mediterranea sexual|type=transcript|length=1830bp
AGTTTTTAGAGTGTTTGTTTATTTTTCTAAGAAGCAGAAATATTCAATAA
AAAATTTTATTCGGCGATTATGAATGAAAAATTGAATAAAATTTCCAAGT
TGCTGTTAGAGCACAAATTTTCCATTGCTAATGAAATTAATGATGATTAT
CAATGCGGCATTTGTAAAGAAATTATTAACAATGCTTACCAGGCAATCTG
CGGGTGTAATTTCTGTCAGGAATGCATCAATCGGTTGATTGATAGTAGAG
TACTTCATTGCCCTGGAAATACAGATGAGTGCAGTTTCAGTAACTTATCA
TGCTTCGTTATCAATCATCGATTAAATATTCAAATTTCCAAGCTTGTTTT
AAAATGTCCAAATGAAAATTGCTCTCACAAATGCAAGCTCATTGACATGG
ACGAGCATTTGTCATTTTGTTCAATTGAAAGTGATAAATACCAATTTAAT
GATAATGACATTTCGCGTGTTAGGCGGAATGAGAATCTTGAGTCGAGTAT
TGATAGTCAAATTAACATGTTAATTGAATCAATGGCTCAGTTAAGAAATG
AGGTGAAGGATTTAAAGTTAAATAATGTGAGAAAAGATAATGTAATTGAA
TCATTAAGGAATGAAATCAATGCGATAAAAGTAAATCAAATATCTGATTG
ATTTATTGATGGCTGTCATAATTCAGCATGAAAATCAAGAACTAAAAACT
CTGATGAGGAATAGTGATAATAATTTGTGGGACAAGTTGAACCAGGTGGA
TATTGAGATGAATGACAAGTGCAGAAATGATACGGTCAAATCTATAATTG
ATGATGTCGAAGCGATGAAAGTGAAATAATTAACATGAATTGATCTGATC
AATTGATTTATAAATATTCAGATTGATAAATTGGAATTGGAAAAGCAAAT
GAAAATTATTGACAGAAAATGCCAAGTGAGAATTGGCAGCATTTGATTAC
TGGTGATGATAAATTGATTTCAGGAATTGAATGGAAACGTGAAGGCTGAA
ACGGATAAACTGGTTAAGGAAATGCGGGAAATGAGAAATTATGGAATGAC
AAAGAAAGTAGAAATATTGTGTCAACCGCAGGATGAAAATGAAACAGAAG
AAATCACTGAATTCCTTGAAAAGCTGCATAATGGTGAAATAAAGTGGACA
ATCGGTAAAATCAACGAGATAAAATATATGGAAAGTGATTATTTCTTTGA
CTTTCTGAATCCGTATAAAATGCAATTGCGCGTGGAAAATGTAAAAAATC
GATTGGAATTTCAACTATGGATTTATCGAAAAGAATTTGATGATGACAAT
CTCAGCTGGCCAATGAAAGCTAATGTGACAATTGAAATTGGTTTGTGTAG
CGACATGAATGTCTACAAGTCAATGACAATGCCGTGCACTGTTGATAAAC
CCAAAAACAATAACTGGAAAAGCTCCGATGTCATCTATTTTCATCACTCG
CTTTTAAGAGAAAACAAACTTTTTTATGAAAATTGCGTCGTTCTTTGCTA
TGTGACATTTTGCTAAATGTCGCCTCAATAATTATTATATGACTCGGTGA
AATTTTATTCTGGAATTAGGTTTTCATTTACATGCCTTGCTGCCAATGTT
GGTGATTATTTTAGCATTATATTGTTACAGGTGTATTATGAGCCCACCAG
AGGAGGACAGCTCTATTCTCCCCTTGTGGGATAAATTGGTTTTTGGAATT
AAACATTATTTCGCAACTTTTCAAAAATATTTTAAAATTCAAATTTTGTA
GAATTTATTTATTGTAAGATGAAAAGTTTTATGTCGAGTGGAGGTTACAC
ACACTTTTGCTTTTTTTTTTACACAGATCG
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protein sequence of SMED30007304-orf-1

>SMED30007304-orf-1 ID=SMED30007304-orf-1|Name=SMED30007304-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=165bp
MREMRNYGMTKKVEILCQPQDENETEEITEFLEKLHNGEIKWTIGKINEI
KYMESDYFFDFLNPYKMQLRVENVKNRLEFQLWIYRKEFDDDNLSWPMKA
NVTIEIGLCSDMNVYKSMTMPCTVDKPKNNNWKSSDVIYFHHSLLRENKL
FYENCVVLCYVTFC*
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protein sequence of SMED30007304-orf-2

>SMED30007304-orf-2 ID=SMED30007304-orf-2|Name=SMED30007304-orf-2|organism=Schmidtea mediterranea sexual|type=polypeptide|length=194bp
MNEKLNKISKLLLEHKFSIANEINDDYQCGICKEIINNAYQAICGCNFCQ
ECINRLIDSRVLHCPGNTDECSFSNLSCFVINHRLNIQISKLVLKCPNEN
CSHKCKLIDMDEHLSFCSIESDKYQFNDNDISRVRRNENLESSIDSQINM
LIESMAQLRNEVKDLKLNNVRKDNVIESLRNEINAIKVNQISD*
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Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: molecular function
TermDefinition
GO:0005164tumor necrosis factor receptor binding
GO:0008270zinc ion binding
GO:0005515protein binding
GO:0004842ubiquitin-protein transferase activity
GO:0046872metal ion binding
Vocabulary: cellular component
TermDefinition
GO:0005737cytoplasm
Vocabulary: biological process
TermDefinition
GO:0042981regulation of apoptotic process
GO:0043122regulation of I-kappaB kinase/NF-kappaB signaling
GO:0006955immune response
GO:0007165signal transduction
GO:0016567protein ubiquitination
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000034epidermis
Vocabulary: INTERPRO
TermDefinition
IPR013083Znf_RING/FYVE/PHD
IPR001841Znf_RING
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availableCOILSCoilCoilcoord: 142..162
NoneNo IPR availableCDDcd16449RING-HCcoord: 29..65
e-value: 4.94406E-5
score: 37.0617
NoneNo IPR availableSUPERFAMILYSSF57850RING/U-boxcoord: 21..97
IPR013083Zinc finger, RING/FYVE/PHD-typeGENE3DG3DSA:3.30.40.10coord: 6..125
e-value: 2.1E-15
score: 58.8
IPR001841Zinc finger, RING-typePROSITEPS50089ZF_RING_2coord: 29..65
score: 8.949