SMED30028488

Overview
NameSMED30028488
Smed IDSMED30028488
Length (bp)1549
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 SMED30028488 (SMED30028488) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30028488 (SMED30028488) in cells (dots) of each of the 12 neoblast clusters.

 

back to top

 

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 SMED30028488 (SMED30028488) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for SMED30028488 (SMED30028488) in cells (dots) of each of the 10 clusters of sub-leathally irradiated X1 and X2 cells.

 

back to top

 

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

 

back to top
Anatomical Expression

PAGE et. al., 2020



SMED30028488

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
epidermisSMED30028488SMESG000079760.1 dd_Smed_v4_8474_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
cephalic gangliaSMED30028488SMESG000079760.1 dd_Smed_v4_8474_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018		FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
head regionSMED30028488SMESG000079760.1 dd_Smed_v6_8474_0_1dd_Smed_v6PMID:28171748
Stückemann et al., 2017		whole organism asexual adult RNA-sequencing evidence
epidermisSMED30028488SMESG000079760.1 dd_Smed_v4_8474_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
Alignments
SMED30028488 aligns in the following genomic locations:
Alignment LocationAlignment Score
v31.004114:38996..40544 +7673
Homology
[Close]
BLAST of SMED30028488 vs. Planmine SMEST
Match: SMESG000079760.1 (SMESG000079760.1)

HSP 1 Score: 884.404 bits (2284), Expect = 0.000e+0
Identity = 477/480 (99.38%), Postives = 479/480 (99.79%), Query Frame = 1 
Query:   82 MNDDDEDYQIVLEKFQNDLKEAGLKFSCILYLIIGITASFAILTSELEKNFRETRSTVFISLLIVCQFMNIALIIYNKYLNRTYGEVVILVKKHILLYFIIIPLMAIVTIYLIVQFYIYNSSKKDENQKVMIALSVSQFIFLISTIFLMINQGSLKETETTSSKILVNKSTVILTIIGLSVSIVFYLTKVELEIFKGLTTKYYNVTFANSPNITDSFLKIDEYLFPTHIVFMTMSIGYLIGSLQNQIMNSDNNAERNIQNSDNLNFKXXXXXXXXXXXXXXXXXXXMPLTYLKNYNALIVFSSCATVIYIVGMILSVIYIHEMRNWEKKIENNKYILDKFLLWLGCFGQIVFAIVQISMMVQSDNRNGTTVIMCICSIFLIIQISLQNIVVNLIASRKIQRPSNESLFWKVCPPVXXXXXXXXXXXITIYLSPLSNVFSFGDMSVDLFHFGLHIFAICFTLIHRLHATVFFAIFLSKIYK 1521
            MNDDDEDYQIVLEKF+NDLKEAGLKFSCILYLIIGITASFAILTSELEKNFRETRSTVFISLLIVCQFMNIALIIYNKYLNRTYGEVVILVKKHILLYFIIIPLMAIVTIYLIVQFYIYNSSKKDENQKVMIALSVSQFIFLISTIFLMINQGSLKETETTSSKILVNKSTVILTIIGLSVSIVFYLTKVELEIFKGLTTKYYNVTFANSPNITDSFLKIDEYLFPTHIVFMTMSIGYLIGSLQNQIMNSDNNAERNIQNSDNLNFKISPVSIIIGIVLIVLPTITMPLTYLKNYNALIVFSSCATVIYIVGMILSVIYIHEMRNWEK+IENNKYILDKFLLWLGCFGQIVFAIVQISMMVQSDNRNGTTVIMCICSIFLIIQISLQNIVVNLIASRKIQRPSNESLF KVCPPVGLLGLNLGCLLITIYLSPLSNVFSFGDMSVDLFHFGLHIFAICFTLIHRLHATVFFAIFLSKIYK
Sbjct:    1 MNDDDEDYQIVLEKFKNDLKEAGLKFSCILYLIIGITASFAILTSELEKNFRETRSTVFISLLIVCQFMNIALIIYNKYLNRTYGEVVILVKKHILLYFIIIPLMAIVTIYLIVQFYIYNSSKKDENQKVMIALSVSQFIFLISTIFLMINQGSLKETETTSSKILVNKSTVILTIIGLSVSIVFYLTKVELEIFKGLTTKYYNVTFANSPNITDSFLKIDEYLFPTHIVFMTMSIGYLIGSLQNQIMNSDNNAERNIQNSDNLNFKISPVSIIIGIVLIVLPTITMPLTYLKNYNALIVFSSCATVIYIVGMILSVIYIHEMRNWEKEIENNKYILDKFLLWLGCFGQIVFAIVQISMMVQSDNRNGTTVIMCICSIFLIIQISLQNIVVNLIASRKIQRPSNESLFGKVCPPVGLLGLNLGCLLITIYLSPLSNVFSFGDMSVDLFHFGLHIFAICFTLIHRLHATVFFAIFLSKIYK 480
[Close]
BLAST of SMED30028488 vs. Planmine SMEST
Match: SMESG000079760.1 (SMESG000079760.1)

HSP 1 Score: 841.647 bits (2173), Expect = 0.000e+0
Identity = 460/480 (95.83%), Postives = 462/480 (96.25%), Query Frame = 1 
Query:   82 MNDDDEDYQIVLEKFQNDLKEAGLKFSCILYLIIGITASFAILTSELEKNFRETRSTVFISLLIVCQFMNIALIIYNKYLNRTYGEVVILVKKHILLYFIIIPLMAIVTIYLIVQFYIYNSSKKDENQKVMIALSVSQFIFLISTIFLMINQGSLKETETTSSKILVNKSTVILTIIGLSVSIVFYLTKVELEIFKGLTTKYYNVTFANSPNITDSFLKIDEYLFPTHIVFMTMSIGYLIGSLQNQIMNSDNNAERNIQNSDNLNFKXXXXXXXXXXXXXXXXXXXMPLTYLKNYNALIVFSSCATVIYIVGMILSVIYIHEMRNWEKKIENNKYILDKFLLWLGCFGQIVFAIVQISMMVQSDNRNGTTVIMCICSIFLIIQISLQNIVVNLIASRKIQRPSNESLFWKVCPPVXXXXXXXXXXXITIYLSPLSNVFSFGDMSVDLFHFGLHIFAICFTLIHRLHATVFFAIFLSKIYK 1521
            MNDDDEDYQIVLEKF+NDLKEAGLKFSCILYLIIGITASFAILTSELEKNFRETRSTVFISLLIVCQFMNIALIIYNKYLNRTYGEVVILVKKHILLYFIIIPLMAIVTIYLIVQFYIYNSSKKDENQKVMIALSVSQFIFLISTIFLMINQGSLKETETTSSKILVNKSTVILTIIGLSVSIVFYLTKVELEIFKGLTTKYYNVTFANSPNITDSFLKIDEYLFPTHIVFMTMSIGYLIGSLQNQIMNSDNNAERNIQNSDNLNFKISPVSIIIGIVLIVLPTITMPLTYLKNYNALIVFSSCATVIYIVGMILSVIYIHEMRNWEK+IENNKYILDKFLLWLGCFGQIVFAIVQISMMVQSDNRNGTT                 NIVVNLIASRKIQRPSNESLF KVCPPVGLLGLNLGCLLITIYLSPLSNVFSFGDMSVDLFHFGLHIFAICFTLIHRLHATVFFAIFLSKIYK
Sbjct:    1 MNDDDEDYQIVLEKFKNDLKEAGLKFSCILYLIIGITASFAILTSELEKNFRETRSTVFISLLIVCQFMNIALIIYNKYLNRTYGEVVILVKKHILLYFIIIPLMAIVTIYLIVQFYIYNSSKKDENQKVMIALSVSQFIFLISTIFLMINQGSLKETETTSSKILVNKSTVILTIIGLSVSIVFYLTKVELEIFKGLTTKYYNVTFANSPNITDSFLKIDEYLFPTHIVFMTMSIGYLIGSLQNQIMNSDNNAERNIQNSDNLNFKISPVSIIIGIVLIVLPTITMPLTYLKNYNALIVFSSCATVIYIVGMILSVIYIHEMRNWEKEIENNKYILDKFLLWLGCFGQIVFAIVQISMMVQSDNRNGTT-----------------NIVVNLIASRKIQRPSNESLFGKVCPPVGLLGLNLGCLLITIYLSPLSNVFSFGDMSVDLFHFGLHIFAICFTLIHRLHATVFFAIFLSKIYK 463
[Close]
BLAST of SMED30028488 vs. Planmine SMEST
Match: SMESG000040908.1 (SMESG000040908.1)

HSP 1 Score: 80.8777 bits (198), Expect = 5.300e-16
Identity = 121/495 (24.44%), Postives = 223/495 (45.05%), Query Frame = 1 
Query:  133 DLKEAGLKFSCILYLIIGITASFAILTSELEKNFRETRSTVF----ISLLIVCQFMNIALIIYNKYLNRTYGEVVILVKK-HILLYFIIIPLMAIVTIYLIVQFYIYNSSKKDENQKVMIALSVSQFIFLISTIFLMINQGSLKETETTSSKILVNKSTVILTIIGLSVSIVFYLTKVELEIFKGL---TTKYYNVTFANSPNITDSFLKIDEYLFPTHIVFMTMSIGYL-----------------------IGSLQNQIMNSDNNAERNIQNSDNLNFKXXXXXXXXXXXXXXXXXXXMPLTYLKNY----NALIVFSSCATVIYIVGMILSVIYIHEMRNWEKKIENNKYILDKFLLWLGCFGQIVFAIVQISMMVQSDNRNGTTVIMCICSIFLIIQISLQNIVVNLIASRKIQRPSNESLFWKVCPPVXXXXXXXXXXXITIY-LSPLSNVFSFG----DMSVDLFHFGLHIFAICFTLIHRLHATVFFA 1497
            D+ E  L+FSC++Y ++G   S++  + EL+     +R  +F     +++ +    +I LI +  Y N     +    K+ +IL Y + IPL+ +   YLI+   I +   ++   K  I L   +  F I+TI  +      K    T       +   ++TIIG+     F++   ++  F  +   T+ Y  +   N P +   F  +  Y+ P  I+F  + + YL                       I S+ NQ   S  +   N     NL      + + I ++   +  I +  ++L +     +  I+ ++ A+ IY++ ++L ++ I EM+ W K  E N  I+DK L W+G  GQ++ +  QIS+ +        +  + I   FLI+QI LQ + V L   R+   P  ++    +CP VG+L +NLG L ++++ +   ++  SF     DM + +F  G   F    +++ RLH+ + F 
Sbjct:    8 DILEKILEFSCLIYFVLGCLTSYSWASKELDYKTLNSRILLFWEPIAAIMGIVNVFHIILIGFFIYKNSKKKIMKKSHKEINILFYILSIPLLLVSMSYLIL-LIIRDFHCQETIGKFSIFLCFGELGFFIATIVFITFINISKLIIPTKQMAQFFRFLKLITIIGMVNYFFFHIVSQQIYNFISVASNTSIYPKINNRNIPALPFDFDSLRNYMQPLVILFCCICVIYLVIIFRLANANNPSISENDEYIQLIESVHNQQNLSQTSKNSNKSFMKNLQLPPISLILGILLITSSILIIIIINSFLNDKLLYKSGQIISATFASFIYLISIVLLILQIFEMKRWRKN-EENFNIVDKILTWIGVCGQLMISTAQISLNIYK--FEPASAFLLIEYFFLIVQILLQYVTVTLALDRQCIPPKIKTWQEFICPAVGILSINLGLLFLSLFDVINANSQKSFNSYETDMFIQIFGAGFQSFGETLSILQRLHSLLIFG 498
[Close]
BLAST of SMED30028488 vs. Planmine SMEST
Match: SMESG000020517.1 (SMESG000020517.1)

HSP 1 Score: 68.5514 bits (166), Expect = 4.899e-12
Identity = 53/173 (30.64%), Postives = 91/173 (52.60%), Query Frame = 1 
Query: 1003 IYIVGMILSVIYIHEMRNWEKKIENNKYILDKFLLWLGCFGQIVFAIVQISMMVQSDNRNGTTVIMCICSIFLIIQISLQNIVVNLIASRKIQRPSNESLFWKVCPPVXXXXXXXXXXXITIYLSPLSNVFSFGDMSVDL--------FHFGLHIFAICFTLIHRLHATVFFA 1497
            IY+  + L +I ++++  WEK +  +KY++D+ +LW+G  GQ+V  + QISM         +  I+   +I L  Q   Q +V++L   RK  +P  ES    +CPPVG+L LNL  ++ +++   + N  S    SV+L        F  G   F +   ++ RLH+++ F 
Sbjct:  336 IYLFSIFLLIIQMNDICRWEK-LGTDKYLIDRMILWVGATGQVVEIVAQISMNSYQYYPKLSGWIIAEYAI-LFFQTMFQTLVISLALDRKWSQPKLESWHEYLCPPVGMLSLNLSFMIFSLF--DIINTKSLNVFSVELNPYLFMRIFTNGFQSFGVALAILQRLHSSLIFG 504
[Close]
BLAST of SMED30028488 vs. Planmine SMEST
Match: SMESG000062786.1 (SMESG000062786.1)

HSP 1 Score: 67.781 bits (164), Expect = 8.564e-12
Identity = 57/191 (29.84%), Postives = 105/191 (54.97%), Query Frame = 1 
Query:  949 TYLKNYNALIVFSSCATVIYIVGMILSVIYIHEMRNWEKKIENNKYILDKFLLWLGCFGQIVFAIVQISMMVQS-DNRNGTTVIMC------ICSIFLIIQISLQNIVVNLIASRKIQRPSNESLFWKVCPPVXXXXXXXXXXXITIYLSPLSNV-FSFGDMSVDLFHFGLHIFAICFTLIHRLHATVFFA 1497
            T+L+    LI F++    +Y +G  LS+++I+E+  W   +E +  +++K L+W+G  GQ+  ++  +++  +S   +NGT + M         +I ++ Q  LQ I+++L   RK  RP   S    +CP VG++GLN+G LL++I       +  +   + +DLF+ GL       + + RLHA++ FA
Sbjct:  352 THLQLIGGLI-FTTFPIFVYALGSGLSIVHINEVERWPIFLERHGKVIEKCLIWIGAAGQLSISMATVAISFESLIVKNGTEIEMARNILLIPNNILIVFQTFLQTILISLAIDRKWIRPEINSWAELLCPAVGMMGLNIGLLLLSISEMNFPIIKHNENSLFIDLFYNGLRSIGGTLSTLQRLHASILFA 541
The following BLAST results are available for this feature:
BLAST of SMED30028488 vs. Ensembl Human
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Human e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30028488 vs. Ensembl Celegans
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Celegan e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30028488 vs. Ensembl Fly
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Drosophila e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30028488 vs. Ensembl Zebrafish
Analysis Date: 2016-08-08 (Schmidtea mediterranea smed_20140614 BLASTX Zebrafish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30028488 vs. Ensembl Xenopus
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Xenopus e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30028488 vs. Ensembl Mouse
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX Mouse e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30028488 vs. UniProt/SwissProt
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI UniProt)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30028488 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30028488 vs. Ensembl Cavefish
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Cavefish e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30028488 vs. Ensembl Sea Lamprey
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Sea Lamprey e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30028488 vs. Ensembl Yeast
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Yeast e!Fungi46)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30028488 vs. Ensembl Nematostella
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Nematostella e!Metazoa46)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30028488 vs. Ensembl Medaka
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Medaka e!99)
Total hits: 0
Match NameE-valueIdentityDescription
back to top
BLAST of SMED30028488 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 5
Match NameE-valueIdentityDescription
SMESG000079760.10.000e+099.38SMESG000079760.1[more]
SMESG000079760.10.000e+095.83SMESG000079760.1[more]
SMESG000040908.15.300e-1624.44SMESG000040908.1[more]
SMESG000020517.14.899e-1230.64SMESG000020517.1[more]
SMESG000062786.18.564e-1229.84SMESG000062786.1[more]
back to top
Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30028488 ID=SMED30028488|Name=SMED30028488|organism=Schmidtea mediterranea sexual|type=transcript|length=1549bp
CAATGACTAACAGAAAAAAATAATTGATTGTACTTAGTTATTGACTTATT
ATAACTGTCAGTCGTTATAAATTTATAAAAAATGAATGATGACGATGAAG
ATTATCAAATTGTTTTGGAAAAATTTCAAAATGATTTAAAAGAAGCAGGT
TTGAAATTTAGTTGCATATTATATTTAATCATAGGTATCACTGCTTCCTT
TGCTATTCTTACCAGCGAATTGGAAAAAAATTTTCGGGAAACCCGGAGTA
CGGTTTTTATTTCATTATTAATTGTATGCCAATTTATGAACATTGCTTTA
ATCATTTACAACAAATACTTAAATCGAACTTATGGAGAAGTCGTTATTCT
AGTGAAAAAGCATATTTTACTGTATTTTATTATCATTCCATTGATGGCCA
TAGTCACAATATATCTGATAGTTCAGTTTTATATATATAACAGCTCGAAG
AAAGATGAAAATCAAAAAGTTATGATTGCTCTCAGTGTTTCTCAATTTAT
CTTTCTAATCTCCACTATATTTCTAATGATCAATCAAGGATCCTTAAAAG
AAACGGAAACTACTAGTTCCAAAATTTTGGTCAATAAATCAACTGTGATA
TTAACCATTATAGGGTTGAGTGTTTCAATAGTTTTCTATTTGACAAAAGT
AGAGCTTGAAATATTCAAAGGTCTCACTACCAAATATTACAATGTAACCT
TTGCAAACTCTCCAAACATAACGGATTCCTTCCTAAAAATCGACGAATAT
CTCTTTCCTACTCACATCGTGTTTATGACAATGTCTATTGGTTATCTAAT
TGGCTCTCTACAAAACCAAATAATGAACTCGGATAACAATGCCGAAAGAA
ATATTCAAAATTCAGATAATTTAAATTTTAAAATATCACCCGTTTCAATA
ATAATTGGAATAGTTCTAATCGTTTTGCCCACCATAACTATGCCACTTAC
ATATTTGAAAAATTATAATGCTCTAATAGTATTTAGTAGCTGTGCAACTG
TGATTTATATTGTTGGAATGATTTTGTCCGTCATTTATATTCATGAAATG
AGAAATTGGGAGAAAAAAATTGAAAATAACAAATACATTCTGGACAAATT
CTTGTTATGGCTCGGATGTTTCGGGCAGATCGTCTTTGCAATCGTCCAAA
TTTCAATGATGGTCCAATCGGATAATAGAAACGGCACAACAGTTATTATG
TGTATCTGTTCAATTTTTTTAATTATACAAATTTCACTTCAGAATATTGT
TGTTAATTTGATTGCATCCAGAAAAATCCAAAGACCATCAAATGAAAGTT
TATTCTGGAAAGTTTGCCCACCAGTTGGATTACTTGGTTTGAATCTTGGA
TGCCTTTTAATTACAATATATTTGTCTCCGCTTTCCAATGTTTTCAGTTT
TGGTGATATGTCGGTTGATTTATTTCATTTCGGTTTACACATCTTTGCGA
TATGCTTTACGTTAATCCATAGACTACATGCAACTGTATTTTTTGCGATT
TTTTTAAGTAAAATTTATAAATAAATTCTTTTGTATAATTAATTTTTTT
back to top

protein sequence of SMED30028488-orf-1

>SMED30028488-orf-1 ID=SMED30028488-orf-1|Name=SMED30028488-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=481bp
MNDDDEDYQIVLEKFQNDLKEAGLKFSCILYLIIGITASFAILTSELEKN
FRETRSTVFISLLIVCQFMNIALIIYNKYLNRTYGEVVILVKKHILLYFI
IIPLMAIVTIYLIVQFYIYNSSKKDENQKVMIALSVSQFIFLISTIFLMI
NQGSLKETETTSSKILVNKSTVILTIIGLSVSIVFYLTKVELEIFKGLTT
KYYNVTFANSPNITDSFLKIDEYLFPTHIVFMTMSIGYLIGSLQNQIMNS
DNNAERNIQNSDNLNFKISPVSIIIGIVLIVLPTITMPLTYLKNYNALIV
FSSCATVIYIVGMILSVIYIHEMRNWEKKIENNKYILDKFLLWLGCFGQI
VFAIVQISMMVQSDNRNGTTVIMCICSIFLIIQISLQNIVVNLIASRKIQ
RPSNESLFWKVCPPVGLLGLNLGCLLITIYLSPLSNVFSFGDMSVDLFHF
GLHIFAICFTLIHRLHATVFFAIFLSKIYK*
back to top
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000034epidermis
PLANA:0000418head
PLANA:0002032epidermal cell
Vocabulary: INTERPRO
TermDefinition
IPR004878Otopetrin
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR004878OtopetrinPFAMPF03189Otopetrincoord: 251..404
e-value: 2.5E-7
score: 29.9
NoneNo IPR availableTMHMMTMhelixcoord: 411..433
NoneNo IPR availableTMHMMTMhelixcoord: 21..43
NoneNo IPR availableTMHMMTMhelixcoord: 130..152
NoneNo IPR availableTMHMMTMhelixcoord: 95..117
NoneNo IPR availableTMHMMTMhelixcoord: 264..286
NoneNo IPR availableTMHMMTMhelixcoord: 453..475
NoneNo IPR availableTMHMMTMhelixcoord: 369..391
NoneNo IPR availableTMHMMTMhelixcoord: 340..359
NoneNo IPR availableTMHMMTMhelixcoord: 297..319
NoneNo IPR availableTMHMMTMhelixcoord: 58..75
NoneNo IPR availableTMHMMTMhelixcoord: 224..243
NoneNo IPR availableTMHMMTMhelixcoord: 165..187