SMED30001295

Overview
NameSMED30001295
Smed IDSMED30001295
Length (bp)2612
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 SMED30001295 (SMED30001295) t-SNE clustered cells

Violin plots show distribution of expression levels for SMED30001295 (SMED30001295) 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 SMED30001295 (SMED30001295) in the t-SNE clustered sub-lethally irradiated X1 and X2 cells.

Violin plots show distribution of expression levels for SMED30001295 (SMED30001295) 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




SMED30001295

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
head regionSMED30001295 SmedASXL_006132SmedAsxl_ww_GCZZ01PMID:27034770
Currie et al., 2016
whole organism asexual adult RNA-sequencing evidence
head regionSMED30001295 SmedASXL_019107SmedAsxl_ww_GCZZ01PMID:27034770
Currie et al., 2016
whole organism asexual adult RNA-sequencing evidence
parenchymaSMED30001295 dd_Smed_v4_18837_0_1dd_Smed_v4PMID:29674431
Fincher et al., 2018
FACS sorted cell population asexual adult single-cell RNA-sequencing evidence
head regionSMED30001295 dd_Smed_v6_18837_0_1dd_Smed_v6PMID:28171748
Stückemann et al., 2017
whole organism asexual adult RNA-sequencing evidence
Note: Hover over icons to view figure legend
Alignments
SMED30001295 aligns in the following genomic locations:
Alignment LocationAlignment Score
v31.002275:52532..55150 +12653
Homology
BLAST of SMED30001295 vs. TrEMBL
Match: A0A448X8C9 (G_PROTEIN_RECEP_F1_2 domain-containing protein (Fragment) OS=Protopolystoma xenopodis OX=117903 GN=PXEA_LOCUS24171 PE=3 SV=1)

HSP 1 Score: 77.7962 bits (190), Expect = 5.575e-12
Identity = 55/141 (39.01%), Postives = 88/141 (62.41%), Query Frame = -2
Query:  542 GSLANLIVILLFNINTSNGI-SNXXXXXXXXXXXXXXXXXIPATLMWTIWKIRSTDTLCKIHMIIKATIIPASLLVLVLIAVDRFLIICFMPSKIITKKSGSYILILIFLVSIGLAMPFGMAFGVRSDMM-KMEDDDVLLP 958
            G + NL+VI  F+      + S++ I +L   DL+ICL+DIP TL   +W   +T  LC++H  +K  IIP S  +LVLIA++RFL+ICFMP   +  ++  Y+++ +F++ +GLAMP  +    RS ++ +    D+LLP
Sbjct:   58 GGVGNLLVIWAFSRQARRAVVSSLLIILLGITDLVICLVDIPVTLYLKVWFREATVVLCRLHGGLKGFIIPFSSGLLVLIALERFLLICFMPGTPLRPRATGYLIVGLFVICVGLAMPVSL----RSTLLERNSQGDLLLP 194          
BLAST of SMED30001295 vs. TrEMBL
Match: A0A5J4NP51 (G_PROTEIN_RECEP_F1_2 domain-containing protein OS=Paragonimus westermani OX=34504 GN=DEA37_0011069 PE=3 SV=1)

HSP 1 Score: 78.9518 bits (193), Expect = 3.104e-11
Identity = 49/121 (40.50%), Postives = 74/121 (61.16%), Query Frame = -2
Query:  599 GSLANLIVILLFNINTSNGI-SNXXXXXXXXXXXXXXXXXIPATLMWTIWKIRSTDTLCKIHMIIKATIIPASLLVLVLIAVDRFLIICFMPSKIITKKSGSYILILIFLVSIGLAMPFGM 958
            G + N +V+  F    + GI S++ I +LAC+D   C + IP T+   IWK ++ D LC++HM  K  I+P S  +LVLIA++RFL+ICF+P   + +    Y  +LI  V I LA+P G+
Sbjct:   44 GLIGNGLVVWAFRCQVTQGIVSSLLILLLACLDFTSCAVGIPTTIYLDIWKGQTVDWLCRLHMAFKGFIVPVSAFLLVLIALERFLLICFIPGIGLKRNHLRYAFVLILTVGILLAIPMGL 164          
BLAST of SMED30001295 vs. TrEMBL
Match: A0A183WA62 (G_PROTEIN_RECEP_F1_2 domain-containing protein OS=Trichobilharzia regenti OX=157069 GN=TRE_LOCUS9015 PE=3 SV=1)

HSP 1 Score: 76.6406 bits (187), Expect = 1.453e-10
Identity = 78/268 (29.10%), Postives = 134/268 (50.00%), Query Frame = -2
Query:  179 GSLANLIVILLFNINTSNGI-SNXXXXXXXXXXXXXXXXXIPATLMWTIWKIRSTDTLCKIHMIIKATIIPASLLVLVLIAVDRFLIICFMPSKIITKKSGSYILILIFLVSIGLAMPFGMAFGVRSDMMKMEDDDVLLPGLIXXXXXXXXXXXXXXXTITHYPLSVYIIPKTCEMNYEITSKMTIIRYQLSIFILFTVMMTXXXXXXXXXXXXVWKKQKRLLTKYATNEDGKYS-----NSLVSFQKP--PSQYTPMKSHHEFSTQQ 958
            G++ N +V+  F    S GI S + I +LAC DL ICLI IP TL   IW   +TD +C+IH+ +K  ++P S  +L+LIA++RFL+ICF+P   + +K     L++IF + +  A+P G+      D  K  D+ + L  L ++ ++  +        +T          K C+ +    +      +Q+ + ILF  +       Y  IF++VW+ +  +  KY T++  K S      ++ S  +P  P+ + P +    F  +Q
Sbjct:   55 GTIGNSLVVWAFRKQVSQGIVSGLFILLLACNDLFICLIVIPCTLYLDIWTGDTTDWICRIHLSMKGFVVPISACILMLIAMERFLLICFIPGIQMKRKHIVIALVIIFCIGLLCALPMGLHVTA-IDACKEHDELLDLNTLKHSLSTFKSKEWFVQLRVT----------KRCDKDETYLNDNLYWYHQICVLILFIGLFIGTAGTYALIFLFVWRHESFMYEKYGTSKAAKGSWVRIHAAMNSSGEPCSPAIWNPFRKRLSFRHKQ 311          
BLAST of SMED30001295 vs. TrEMBL
Match: A0A095AXD5 (G_PROTEIN_RECEP_F1_2 domain-containing protein OS=Schistosoma haematobium OX=6185 GN=MS3_07717 PE=3 SV=1)

HSP 1 Score: 76.2554 bits (186), Expect = 2.054e-10
Identity = 32/86 (37.21%), Postives = 58/86 (67.44%), Query Frame = -2
Query:  581 PATLMWTIWKIRSTDTLCKIHMIIKATIIPASLLVLVLIAVDRFLIICFMPSKIITKKSGSYILILIFLVSIGLAMPFGMAFGVRS 838
            P T+   +W+ R+ D +C++H+I+K+  +  S L LV+IA+DR+L++CF+P  I+TKK    +++  +++ I  A+P G+  GV S
Sbjct:  205 PTTIFLIVWETRTYDFICRLHVILKSFTLTVSALFLVIIALDRWLLVCFIPCVIMTKKCMKRLIVGTYILGILWAIPMGLHHGVHS 290          
BLAST of SMED30001295 vs. TrEMBL
Match: A0A430QLG1 (G_PROTEIN_RECEP_F1_2 domain-containing protein OS=Schistosoma bovis OX=6184 GN=DC041_0008792 PE=3 SV=1)

HSP 1 Score: 76.2554 bits (186), Expect = 2.167e-10
Identity = 32/86 (37.21%), Postives = 58/86 (67.44%), Query Frame = -2
Query:  581 PATLMWTIWKIRSTDTLCKIHMIIKATIIPASLLVLVLIAVDRFLIICFMPSKIITKKSGSYILILIFLVSIGLAMPFGMAFGVRS 838
            P T+   +W+ R+ D +C++H+I+K+  +  S L LV+IA+DR+L++CF+P  I+TKK    +++  +++ I  A+P G+  GV S
Sbjct:  205 PTTIFLIVWETRTYDFICRLHVILKSFTLTVSALFLVIIALDRWLLVCFIPCVIMTKKCMKRLIVGTYILGILWAIPMGLHHGVHS 290          
BLAST of SMED30001295 vs. Planmine SMEST
Match: SMESG000050757.1 (SMESG000050757.1)

HSP 1 Score: 128.642 bits (322), Expect = 2.009e-31
Identity = 112/322 (34.78%), Postives = 186/322 (57.76%), Query Frame = -2
Query:   11 GSLANLIVILLFNINTSNGISNXXXXXXXXXXXXXXXXXIPATLMWTIWKIRSTDTLCKIHMIIKATIIPASLLVLVLIAVDRFLIICFMPSKIITKKSGSYILILIFLVSIGLAMPFGMAFGVRSDMMKMEDDDVLLPGLIXXXXXXXXXXXX-XXXTITHYPLSVYIIPK-TCEMNYEITSKMTIIRYQLSIFILFTVMMTXXXXXXXXXXXXVWKKQKRLLTKYATNEDGKYSNSLVSFQKPPSQYTPMKSHHEFSTQQHDCFDHQIQPRTKHIYCTIS----HPKRRNRAHVKTGQXXXXXXXXXXXSYLPYFLIVNN 958
            G + N  VI++F+ +    +SN+ I  LA ID++IC+IDIP TL   +W+  S D +CK+H+ +KA  +P S L+LV+IA+DRFLIICF+PS +I KKS   IL+L+FL  I LA+P G+  G++    K   +DVL+P L  N+N + + +K  +       P   ++    +C ++    SK+    Y++++F+LFT +M +I++FY  IFI++W K +++ +   +N       + ++     S    M+S +    ++   + H +      + C+ +    H  RR + HVKT   L  I+ +FI+SYLPY LI N+
Sbjct:   44 GLIGNYFVIVVFSKHIKQAVSNLFITFLAIIDMIICVIDIPMTLYLVVWQKNSVDIVCKLHISLKAFCVPVSALILVMIAIDRFLIICFIPSILIRKKSAMIILLLVFLSGIVLAVPMGIHTGIKI-FFKTSINDVLMPPLSKNSNDTEDLFKVGNIDNAIERPAERHLFKSGSCGIDQSYISKLNFSYYKMALFVLFTFLMVLIIVFYSIIFIFLWSKHQKMKSYKNSNNRKNQKETSITLS---SNLLRMRSLN----KRKSSYKHSVDIDEPSLSCSSNLKRQHSHRRRKPHVKTAYTLALIAAAFIVSYLPYLLISND 357          
BLAST of SMED30001295 vs. Planmine SMEST
Match: SMESG000062718.1 (SMESG000062718.1)

HSP 1 Score: 60.4622 bits (145), Expect = 4.306e-9
Identity = 34/84 (40.48%), Postives = 57/84 (67.86%), Query Frame = -2
Query:  587 PATLMWTIWKIRSTDTLCKIHMIIKATIIPASLLVLVLIAVDRFLIICFMPSKIITKKSGSYILILIFLVSIGLAMPFGMAFGV 838
            P +L+  IW++ + D  CKI M  +  ++  S ++LVLIA+DRFLIICF+PSK ++ K   +++  + L+SI +++P G+  GV
Sbjct:  104 PTSLIVEIWRLPTYDIACKIVMAFRCFLLIFSPMLLVLIALDRFLIICFVPSKKMSLKQTLFVIGFMLLISISISIPSGLCTGV 187          
The following BLAST results are available for this feature:
BLAST of SMED30001295 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 SMED30001295 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 SMED30001295 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 SMED30001295 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 SMED30001295 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 SMED30001295 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 SMED30001295 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 SMED30001295 vs. TrEMBL
Analysis Date: 2020-05-01 (Schmidtea mediterranea smed_20140614 BLASTX EMBL-EBI TrEMBL)
Total hits: 5
Match NameE-valueIdentityDescription
A0A448X8C95.575e-1239.01G_PROTEIN_RECEP_F1_2 domain-containing protein (Fr... [more]
A0A5J4NP513.104e-1140.50G_PROTEIN_RECEP_F1_2 domain-containing protein OS=... [more]
A0A183WA621.453e-1029.10G_PROTEIN_RECEP_F1_2 domain-containing protein OS=... [more]
A0A095AXD52.054e-1037.21G_PROTEIN_RECEP_F1_2 domain-containing protein OS=... [more]
A0A430QLG12.167e-1037.21G_PROTEIN_RECEP_F1_2 domain-containing protein OS=... [more]
back to top
BLAST of SMED30001295 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 SMED30001295 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 SMED30001295 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 SMED30001295 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 SMED30001295 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 SMED30001295 vs. Planmine SMEST
Analysis Date: 2020-05-08 (Schmidtea mediterranea smed_20140614 BLASTX Planmine SMEST)
Total hits: 2
Match NameE-valueIdentityDescription
SMESG000050757.12.009e-3134.78SMESG000050757.1[more]
SMESG000062718.14.306e-940.48SMESG000062718.1[more]
back to top
Sequences
The following sequences are available for this feature:

transcript sequence

>SMED30001295 ID=SMED30001295|Name=SMED30001295|organism=Schmidtea mediterranea sexual|type=transcript|length=2612bp
CTTCCGATCTGTTATTCACAATGAGAAAGTATGGCAAATATGAAATGATA
AAACTGATGGAAATGAATATTAGTATCTGTCCGGTTTTCACGTGCGCCCT
ATTGCGTCGTTTCGGATGACTGATTGTGCAATAGATATGTTTGGTTCGGG
GTTGGATTTGATGGTCGAAACAGTCGTGTTGTTGCGTTGAGAATTCATGG
TGAGACTTCATCGGGGTGTATTGTGATGGAGGTTTCTGAAAGCTCACAAG
TGAATTGGAATATTTCCCGTCTTCATTTGTTGCGTATTTTGTCAGCAATC
GTTTCTGTTTTTTCCAAACGTAAATGAAAATGAAGAAATAAAACAAAACG
ATAATGGTCATCATCACTGTAAAAAGAATGAAAATTGATAGCTGATAGCG
AATTATTGTCATTTTACTGGTGATTTCGTAATTCATTTCACAGGTCTTTG
GAATGATGTAAACCGATAGCGGATAATGTGTAATTGTGGTATTGGAATTC
TTGTAGTTGTTTGGTGATGAGTTGGTATTGTTAATTAAACCCGGCAAAAG
CACATCATCATCTTCCATTTTCATCATGTCCGATCGTACACCGAACGCCA
TTCCAAATGGCATTGCTAGTCCTATTGAGACGAGAAATATTAAAATCAAA
ATATAACTCCCACTCTTTTTTGTAATAATTTTACTCGGCATAAAACAGAT
GATCAGAAACCGATCAACCGCAATCAGAACAAGTACCAGTAAGGATGCAG
GGATGATAGTGGCTTTTATTATCATATGTATTTTACAAAGCGTATCTGTG
GAGCGTATTTTCCAAATCGTCCACATGAGCGTAGCGGGAATGTCAATCAA
ACAAATCAGCAAGTCAATGCAAGCTAAAATCTTGATGCAAATATTCGAAA
TTCCATTGCTAGTGTTTATGTTGAACAATAGAATGACAATTAAATTTGCT
AGGCTACCAAACAATGATATTGTGATTAATAGAATTGTCAGTAAGATTAA
TGAAGGCATATATTTTTGAAAGTCAGCCTGGATGATGTCGACGTAGTTAT
ATGTAATTACCGGGTTATGAGACATGTTCATTTCGTATTTATTAGCGGAT
GGCAATTTGAAAGTTTTATTTACACACTTTCAATGGCCAATGAAATTGTG
ATTGGTTTTGATTGGTTAATTGATGAGCCAATCGATTGAGTTGAAAAGAG
TTGATTTTCTCTGTAAATCATATTTTTCTTTAGAAATATTGTCGAAAATA
AATTTAGAATTTATCTCGTTGAGGTATTGTATTTAGAAATGTTCAAATTG
AATAGTTTTGTCGCAACAAATTGAAGTAAATGGCAAATTAAAAGCCCAGT
CGTATATTTGGGTAGTTGATTTAATTTTGCTGATTTTTATTTGTTTCTTC
CATAATTAGTTAAGAAAAATTTTCTATTAAATAATCTTCTTTTACCGGTG
GGGTATGCGAAGAGGTTTAAATTATTCCTATAAAAGAAACTGAAAATCAT
ATAGGAAGACAGTTTAAATAATTTCACCTGCAGTGCACTTTCATTTAATT
CTTACCTTTTTTGGCAATTCTCCATTTAAAACTATCTGAATTTGTTAGCA
TGATATTCATTGACTGGAGAAGTTTTATATACAAAATCTCAGTAAAATCG
AAAACTTTTAAGGTGCACATAAGTAGACTTACAGTCATCTAGGATTATTT
TAAAATGCATATTAGTAAAAGTAGCACTTTCAAATATATGATTGCATTCC
TTCGTTTAATGGATTGTTGTATGTTTCATTTGTGTATTAAGGTTTTTCCG
AAAACCTTGGTATAGTGATGAGTATTGCCAGCAATTGTACCAATATATAG
TTACGATTGAAGAATGTATCAAGTAAAATTACTGGTTTATTATTGCTGAT
ATTTAATTCTTCAGGTCCCTCATGTCTCACATAGAGGAAAGTCATCTGCA
ATGCATTTTAGTGTTTCTATTTACTATGTTTAGTTTTTATGGATAACATC
ACTTGATTTTCTTTGAAATTTATAAGGTTCTCTTTTTATAATCATGTCTA
GAGATAGATACATTTAAATATGCTATGACAATGTCCAGTAGCGCCTTTTT
GAAAAATAATGGCAAACGTAAATCTTTAAAAAATAAATTTCAGATTTGTA
ATCAGCTTGAAAATCTGTGTCAGGTACAATTATTTTTACGTAAGAAATAA
ATGAAATGAAAGCCAGTGTAATTCATTATAAATCCAAATATAATTTCAGT
TAGCAACTTTAATGTAGAAAATGAAGGTTTCTTATTAATAGTATAAATCA
AATGTCAAACAATTTTGGCATAAAATTTGTCTTGGTTGTAGAAATAGCCG
ACGCAATGTTCTTCCTATCTGCGTATCTCGTAATGTAATCAGTAGTAGTG
GTTGGTCGTGGTCAGTCCCTCCCGTGCAATTTTTTATGTCGAATTATAAA
TTGCTAATAAATTTTTTACTTAAAACTGCAATACTTTTCCAAAAGTACTG
GCTCAAACTCTTCGTTTGTTAATCTATTTATTTATCTTCGTCAATCATTC
TTATCTTACATTTTTTAATCATTTAATTATTTTATCTTTTGAGCTTTTTT
GTCTTTTAGTAT
back to top

protein sequence of SMED30001295-orf-1

>SMED30001295-orf-1 ID=SMED30001295-orf-1|Name=SMED30001295-orf-1|organism=Schmidtea mediterranea sexual|type=polypeptide|length=107bp
MIRNRSTAIRTSTSKDAGMIVAFIIICILQSVSVERIFQIVHMSVAGMSI
KQISKSMQAKILMQIFEIPLLVFMLNNRMTIKFARLPNNDIVINRIVSKI
NEGIYF*
back to top

protein sequence of SMED30001295-orf-2

>SMED30001295-orf-2 ID=SMED30001295-orf-2|Name=SMED30001295-orf-2|organism=Schmidtea mediterranea sexual|type=polypeptide|length=360bp
MNMSHNPVITYNYVDIIQADFQKYMPSLILLTILLITISLFGSLANLIVI
LLFNINTSNGISNICIKILACIDLLICLIDIPATLMWTIWKIRSTDTLCK
IHMIIKATIIPASLLVLVLIAVDRFLIICFMPSKIITKKSGSYILILIFL
VSIGLAMPFGMAFGVRSDMMKMEDDDVLLPGLINNTNSSPNNYKNSNTTI
THYPLSVYIIPKTCEMNYEITSKMTIIRYQLSIFILFTVMMTIIVLFYFF
IFIYVWKKQKRLLTKYATNEDGKYSNSLVSFQKPPSQYTPMKSHHEFSTQ
QHDCFDHQIQPRTKHIYCTISHPKRRNRAHVKTGQILIFISISFIISYLP
YFLIVNNRSE
back to top
Annotated Terms
The following terms have been associated with this transcript:
Vocabulary: Planarian Anatomy
TermDefinition
PLANA:0000418head
Vocabulary: INTERPRO
TermDefinition
IPR000276GPCR_Rhodpsn
IPR017452GPCR_Rhodpsn_7TM
Vocabulary: molecular function
TermDefinition
GO:0004930G-protein coupled receptor activity
Vocabulary: cellular component
TermDefinition
GO:0016021integral component of membrane
Vocabulary: biological process
TermDefinition
GO:0007186G-protein coupled receptor signaling pathway
InterPro
Analysis Name: Schmidtea mediteranean smed_20140614 Interproscan
Date Performed: 2020-05-01
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
IPR000276G protein-coupled receptor, rhodopsin-likePRINTSPR00237GPCRRHODOPSNcoord: 106..128
score: 30.01
coord: 62..83
score: 28.78
coord: 333..357
score: 20.34
coord: 30..54
score: 22.39
coord: 229..252
score: 19.27
IPR000276G protein-coupled receptor, rhodopsin-likePFAMPF000017tm_1coord: 46..162
e-value: 3.4E-8
score: 33.2
IPR000276G protein-coupled receptor, rhodopsin-likePROSITEPS00237G_PROTEIN_RECEP_F1_1coord: 112..128
NoneNo IPR availablePANTHERPTHR24243G-PROTEIN COUPLED RECEPTORcoord: 27..353
NoneNo IPR availableCDDcd006377tm_classA_rhodopsin-likecoord: 41..270
e-value: 1.07065E-13
score: 68.4582
NoneNo IPR availableSUPERFAMILYSSF81321Family A G protein-coupled receptor-likecoord: 16..354
NoneNo IPR availableTMHMMTMhelixcoord: 33..55
NoneNo IPR availableTMHMMTMhelixcoord: 68..90
NoneNo IPR availableTMHMMTMhelixcoord: 143..165
NoneNo IPR availableTMHMMTMhelixcoord: 333..355
NoneNo IPR availableTMHMMTMhelixcoord: 100..122
NoneNo IPR availableTMHMMTMhelixcoord: 233..255
IPR017452GPCR, rhodopsin-like, 7TMPROSITEPS50262G_PROTEIN_RECEP_F1_2coord: 45..357
score: 21.736