CmoCh16G008890.1 (mRNA) Cucurbita moschata (Rifu) v1

Overview
NameCmoCh16G008890.1
TypemRNA
OrganismCucurbita moschata (Cucurbita moschata (Rifu) v1)
DescriptionRibosomal protein S13
LocationCmo_Chr16: 4976159 .. 4977508 (+)
Sequence length615
RNA-Seq ExpressionCmoCh16G008890.1
SyntenyCmoCh16G008890.1
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonCDSpolypeptide
Hold the cursor over a type above to highlight its positions in the sequence below.
ATGCCATATATTTCAGGAGCTAGATCAGTTGCCGATAAACAAGTCAGAATTGCCTCAACCAAAATTGATGGAATTGGACCTAAAAAAGCCATTAAGGTTCGTTATCAATTAGGTATCAGTGGGAACATCAAGATCAAAGAGTTAACTAAGTCTCAGATCGACCAAATTGAACAAATGATAGGTCAAGATCATATTGTTCATTTGGAATTGAAGAGGGGAGAACGAGCAGACATCGAACGAGTCATTTCTCTTTCTTGTTATCGTGGAATTAGTCATCAAGATGGATTGCCCTTACGCGGTCAACAAACTCATACTAATGCTAGGACTTATCGCAAGCGAATTCGGAAATGAAATCAGTCTACCGAAAAAGCCCTTGGTACTTGTCGGATCAATCACACAGATAGCTTAAATAGTTCACTGAAATTTGGTGTCTTTTTATTTGGTATTTCAGCGGTTACTAATGTAGTATACGTATAGTATGCCTCCTTTGCCACTCCATTAGTGGCTCGGCTTCGTCCTAGAAGCTACAGCTTTCGCCTCTGTTCACTATCGCTCATGACTGGTATATATATGGATCTACTTATTTATGTGTAGTGGTCGGCCTGAAAGAAGCTAGTCGCTTCCCGAATGCCTCTTGACTTATGGTCTAGTTTGATTTCCAATGCCTCCTTCCTTGCTGCCAACAGAGAGTAACAACCTTGCTTGCATTCGTCAAAGGGTAGCTTCTGCGCCCTTACTGCCTGCTTCAATTGATGTGAATGAGACTGAAAATCCTATTTATTTAGTCTTTTTCTCTCTGTCACTGAAACAAGAAGTTCTCTCTCTGTTTTCTTTTCGAATTCCGAGGATGAGCCGGCTGATCCTAACATCATTTATGAGGAGCCAGACGATGAAGCCTCCTCCTCAGATAAAGATGTCTCCGATGCGACTCTCCCGGCAAGAACCACTTTTTATATTGTGATTGCGGGTCCGGTCAGGTAATATCAGCTAAGGAGAGATGCTTTCCATCAGTCAAAAGCAGATATCGCCCCCACATGCTCCCCAGGTCTGCTTACTGAGGAATAGAAAGGGAAGAAAAGAACTGGAGCCAGAACTAGTTGGGTTGGGGTAAAGAGCCGTAAGCGCGGTGGGGGGTGACAGAGGACGTGCTCGTACGGTTCAAAGAAGGGTATGATCAACTCGTTGATTGTTGGGAACTTTCACTCCTCCATATTCGAAATATGCCTTTCTAGGAGCATTACGATCTGCAGCTCAAATGTACCTTATGAAGTCTCTATTGGTCTTATTCTTATTGTGCGCCTTGTGAGCGTGTTTGGATCCGCGAAGGCAATCGCTCAGATATTCTCCTAA

mRNA sequence

ATGCCATATATTTCAGGAGCTAGATCAGTTGCCGATAAACAAGTCAGAATTGCCTCAACCAAAATTGATGGAATTGGACCTAAAAAAGCCATTAAGGTTCGTTATCAATTAGGTATCAGTGGGAACATCAAGATCAAAGAGTTAACTAAGTCTCAGATCGACCAAATTGAACAAATGATAGGTCAAGATCATATTGTTCATTTGGAATTGAAGAGGGGAGAACGAGCAGACATCGAACGAGTCATTTCTCTTTCTTGTTATCTCATCAAGATGGATTGCCCTTACGCGGTCAACAAACTCATACTAATGCTAGGACTTATCGCAAGCGAATTCGGAAATGAAATCAGTCTACCGAAAAAGCCCTTGGATGAGCCGGCTGATCCTAACATCATTTATGAGGAGCCAGACGATGAAGCCTCCTCCTCAGATAAAGATGTCTCCGATGCGACTCTCCCGGCAAGAACCACTTTTTATATTGTGATTGCGGGTCCGGTCAGGAGCATTACGATCTGCAGCTCAAATGTACCTTATGAAGTCTCTATTGGTCTTATTCTTATTGTGCGCCTTGTGAGCGTGTTTGGATCCGCGAAGGCAATCGCTCAGATATTCTCCTAA

Coding sequence (CDS)

ATGCCATATATTTCAGGAGCTAGATCAGTTGCCGATAAACAAGTCAGAATTGCCTCAACCAAAATTGATGGAATTGGACCTAAAAAAGCCATTAAGGTTCGTTATCAATTAGGTATCAGTGGGAACATCAAGATCAAAGAGTTAACTAAGTCTCAGATCGACCAAATTGAACAAATGATAGGTCAAGATCATATTGTTCATTTGGAATTGAAGAGGGGAGAACGAGCAGACATCGAACGAGTCATTTCTCTTTCTTGTTATCTCATCAAGATGGATTGCCCTTACGCGGTCAACAAACTCATACTAATGCTAGGACTTATCGCAAGCGAATTCGGAAATGAAATCAGTCTACCGAAAAAGCCCTTGGATGAGCCGGCTGATCCTAACATCATTTATGAGGAGCCAGACGATGAAGCCTCCTCCTCAGATAAAGATGTCTCCGATGCGACTCTCCCGGCAAGAACCACTTTTTATATTGTGATTGCGGGTCCGGTCAGGAGCATTACGATCTGCAGCTCAAATGTACCTTATGAAGTCTCTATTGGTCTTATTCTTATTGTGCGCCTTGTGAGCGTGTTTGGATCCGCGAAGGCAATCGCTCAGATATTCTCCTAA

Protein sequence

MPYISGARSVADKQVRIASTKIDGIGPKKAIKVRYQLGISGNIKIKELTKSQIDQIEQMIGQDHIVHLELKRGERADIERVISLSCYLIKMDCPYAVNKLILMLGLIASEFGNEISLPKKPLDEPADPNIIYEEPDDEASSSDKDVSDATLPARTTFYIVIAGPVRSITICSSNVPYEVSIGLILIVRLVSVFGSAKAIAQIFS
Homology
[Close]
BLAST of CmoCh16G008890.1 vs. ExPASy Swiss-Prot
Match: P05488 (Ribosomal protein S13, mitochondrial OS=Nicotiana tabacum OX=4097 GN=RPS13 PE=3 SV=2)

HSP 1 Score: 151.4 bits (381), Expect = 1.1e-35
Identity = 76/87 (87.36%), Postives = 82/87 (94.25%), Query Frame = 0 

Query: 1  MPYISGARSVADKQVRIASTKIDGIGPKKAIKVRYQLGISGNIKIKELTKSQIDQIEQMI 60
          M YISGAR V D+QVRIASTKIDGIGPKKAI+VRY+LGISGNIKIKELTK QIDQIEQMI
Sbjct: 1  MLYISGARLVGDEQVRIASTKIDGIGPKKAIQVRYRLGISGNIKIKELTKYQIDQIEQMI 60

Query: 61 GQDHIVHLELKRGERADIERVISLSCY 88
          GQDH+VH ELKRGERADIER+IS+SCY
Sbjct: 61 GQDHVVHWELKRGERADIERLISISCY 87

[Close]
BLAST of CmoCh16G008890.1 vs. ExPASy Swiss-Prot
Match: P23209 (Ribosomal protein S13, mitochondrial OS=Daucus carota OX=4039 GN=RPS13 PE=3 SV=1)

HSP 1 Score: 142.5 bits (358), Expect = 5.2e-33
Identity = 73/87 (83.91%), Postives = 79/87 (90.80%), Query Frame = 0 

Query: 1  MPYISGARSVADKQVRIASTKIDGIGPKKAIKVRYQLGISGNIKIKELTKSQIDQIEQMI 60
          M YISGAR VADKQVRIA TK+ GIGPKKAI+V Y+LGISGNIKIKELTK QIDQ+EQMI
Sbjct: 1  MLYISGARLVADKQVRIALTKMYGIGPKKAIQVCYRLGISGNIKIKELTKYQIDQMEQMI 60

Query: 61 GQDHIVHLELKRGERADIERVISLSCY 88
          GQDH+VH ELKRGERADIER IS+SCY
Sbjct: 61 GQDHVVHWELKRGERADIERFISISCY 87

[Close]
BLAST of CmoCh16G008890.1 vs. ExPASy Swiss-Prot
Match: P08977 (Ribosomal protein S13, mitochondrial OS=Zea mays OX=4577 GN=RPS13 PE=3 SV=2)

HSP 1 Score: 141.4 bits (355), Expect = 1.2e-32
Identity = 71/87 (81.61%), Postives = 80/87 (91.95%), Query Frame = 0 

Query: 1  MPYISGARSVADKQVRIASTKIDGIGPKKAIKVRYQLGISGNIKIKELTKSQIDQIEQMI 60
          M YISGARS+ D+QVRIASTK+DGIGPKKAI++RY+LGISGNIKI ELTK QIDQIEQMI
Sbjct: 1  MSYISGARSLPDEQVRIASTKMDGIGPKKAIQLRYRLGISGNIKIHELTKYQIDQIEQMI 60

Query: 61 GQDHIVHLELKRGERADIERVISLSCY 88
           QDH+VH ELKRGERADIER+IS+S Y
Sbjct: 61 AQDHVVHWELKRGERADIERLISISRY 87

[Close]
BLAST of CmoCh16G008890.1 vs. ExPASy Swiss-Prot
Match: P07924 (Ribosomal protein S13, mitochondrial OS=Triticum aestivum OX=4565 GN=RPS13 PE=3 SV=2)

HSP 1 Score: 140.6 bits (353), Expect = 2.0e-32
Identity = 70/87 (80.46%), Postives = 80/87 (91.95%), Query Frame = 0 

Query: 1  MPYISGARSVADKQVRIASTKIDGIGPKKAIKVRYQLGISGNIKIKELTKSQIDQIEQMI 60
          M YISGARS+ D+QVRIASTK+DGIGPKKAI++RY+LGISGNIK+ ELTK QIDQIEQMI
Sbjct: 1  MSYISGARSLPDEQVRIASTKMDGIGPKKAIQLRYRLGISGNIKMNELTKYQIDQIEQMI 60

Query: 61 GQDHIVHLELKRGERADIERVISLSCY 88
           QDH+VH ELKRGERADIER+IS+S Y
Sbjct: 61 AQDHVVHWELKRGERADIERLISISRY 87

[Close]
BLAST of CmoCh16G008890.1 vs. ExPASy Swiss-Prot
Match: P15758 (Ribosomal protein S13, mitochondrial OS=Oenothera berteroana OX=3950 GN=RPS13 PE=3 SV=2)

HSP 1 Score: 134.8 bits (338), Expect = 1.1e-30
Identity = 71/87 (81.61%), Postives = 77/87 (88.51%), Query Frame = 0 

Query: 1  MPYISGARSVADKQVRIASTKIDGIGPKKAIKVRYQLGISGNIKIKELTKSQIDQIEQMI 60
          M YISGAR VAD+QVRIASTK+DGIGPKKAI+VR +LG  GNIK KELTK QIDQIEQM 
Sbjct: 1  MSYISGARLVADEQVRIASTKMDGIGPKKAIQVRSRLG--GNIKRKELTKYQIDQIEQMR 60

Query: 61 GQDHIVHLELKRGERADIERVISLSCY 88
          GQDH+VH ELKRGERADIER IS+SCY
Sbjct: 61 GQDHVVHWELKRGERADIERFISISCY 85

[Close]
BLAST of CmoCh16G008890.1 vs. ExPASy TrEMBL
Match: D5I3H3 (Ribosomal protein S13 OS=Cucurbita pepo OX=3663 GN=rps13 PE=3 SV=1)

HSP 1 Score: 157.5 bits (397), Expect = 5.8e-35
Identity = 81/87 (93.10%), Postives = 83/87 (95.40%), Query Frame = 0 

Query: 1  MPYISGARSVADKQVRIASTKIDGIGPKKAIKVRYQLGISGNIKIKELTKSQIDQIEQMI 60
          MPYISGAR VADKQVRIA TKIDGIGPKKAI+V Y+LGISGNIKIKELTKSQIDQIEQMI
Sbjct: 1  MPYISGARLVADKQVRIALTKIDGIGPKKAIQVCYRLGISGNIKIKELTKSQIDQIEQMI 60

Query: 61 GQDHIVHLELKRGERADIERVISLSCY 88
          GQDHIVH ELKRGERADIERVISLSCY
Sbjct: 61 GQDHIVHWELKRGERADIERVISLSCY 87

[Close]
BLAST of CmoCh16G008890.1 vs. ExPASy TrEMBL
Match: A0A7D6C5F5 (Ribosomal protein S13 OS=Luffa acutangula OX=56866 GN=rps13 PE=3 SV=1)

HSP 1 Score: 157.1 bits (396), Expect = 7.6e-35
Identity = 80/87 (91.95%), Postives = 83/87 (95.40%), Query Frame = 0 

Query: 1  MPYISGARSVADKQVRIASTKIDGIGPKKAIKVRYQLGISGNIKIKELTKSQIDQIEQMI 60
          M YISGARSVADKQVRIASTKIDGIGPKKAI+VRY+LGISGNIKIKELTK QIDQIEQMI
Sbjct: 1  MSYISGARSVADKQVRIASTKIDGIGPKKAIQVRYRLGISGNIKIKELTKYQIDQIEQMI 60

Query: 61 GQDHIVHLELKRGERADIERVISLSCY 88
          GQDHIVH ELKRGERADIER IS+SCY
Sbjct: 61 GQDHIVHWELKRGERADIERFISISCY 87

[Close]
BLAST of CmoCh16G008890.1 vs. ExPASy TrEMBL
Match: A0A2H4WYX4 (Ribosomal protein S13 OS=Guettarda scabra OX=153753 GN=rps13 PE=3 SV=1)

HSP 1 Score: 156.8 bits (395), Expect = 9.9e-35
Identity = 79/87 (90.80%), Postives = 84/87 (96.55%), Query Frame = 0 

Query: 1  MPYISGARSVADKQVRIASTKIDGIGPKKAIKVRYQLGISGNIKIKELTKSQIDQIEQMI 60
          M YISGARSVADKQVRIASTKIDGIGPKKAI+VRY+LGISGNIKIKELTK QIDQIEQMI
Sbjct: 1  MLYISGARSVADKQVRIASTKIDGIGPKKAIQVRYRLGISGNIKIKELTKYQIDQIEQMI 60

Query: 61 GQDHIVHLELKRGERADIERVISLSCY 88
          GQDH+VH ELKRGERADIER+IS+SCY
Sbjct: 61 GQDHVVHWELKRGERADIERLISISCY 87

[Close]
BLAST of CmoCh16G008890.1 vs. ExPASy TrEMBL
Match: G3EU28 (Ribosomal protein S13 OS=Cucumis melo subsp. melo OX=412675 GN=rps13 PE=3 SV=1)

HSP 1 Score: 156.4 bits (394), Expect = 1.3e-34
Identity = 80/87 (91.95%), Postives = 83/87 (95.40%), Query Frame = 0 

Query: 1  MPYISGARSVADKQVRIASTKIDGIGPKKAIKVRYQLGISGNIKIKELTKSQIDQIEQMI 60
          M YISGARSVADKQVRIAST+IDGIGPKKAI+VRY+LGISGNIKIKELTK QIDQIEQMI
Sbjct: 1  MSYISGARSVADKQVRIASTQIDGIGPKKAIQVRYRLGISGNIKIKELTKYQIDQIEQMI 60

Query: 61 GQDHIVHLELKRGERADIERVISLSCY 88
          GQDHIVH ELKRGERADIER ISLSCY
Sbjct: 61 GQDHIVHWELKRGERADIERFISLSCY 87

[Close]
BLAST of CmoCh16G008890.1 vs. ExPASy TrEMBL
Match: A0A3S9JII2 (Ribosomal protein S13 OS=Cucumis melo var. momordica OX=2034244 GN=rps13 PE=3 SV=1)

HSP 1 Score: 156.4 bits (394), Expect = 1.3e-34
Identity = 80/87 (91.95%), Postives = 83/87 (95.40%), Query Frame = 0 

Query: 1  MPYISGARSVADKQVRIASTKIDGIGPKKAIKVRYQLGISGNIKIKELTKSQIDQIEQMI 60
          M YISGARSVADKQVRIAST+IDGIGPKKAI+VRY+LGISGNIKIKELTK QIDQIEQMI
Sbjct: 1  MSYISGARSVADKQVRIASTQIDGIGPKKAIQVRYRLGISGNIKIKELTKYQIDQIEQMI 60

Query: 61 GQDHIVHLELKRGERADIERVISLSCY 88
          GQDHIVH ELKRGERADIER ISLSCY
Sbjct: 61 GQDHIVHWELKRGERADIERFISLSCY 87

[Close]
BLAST of CmoCh16G008890.1 vs. TAIR 10
Match: ATMG01130.1 (hypothetical protein )

HSP 1 Score: 53.5 bits (127), Expect = 2.3e-07
Identity = 30/36 (83.33%), Postives = 32/36 (88.89%), Query Frame = 0 

Query: 133 EEPDDEASSSDKDVSDATLPARTTFYIVI--AGPVR 167
           +EPDDEASSSDKDVSDATLPARTT+ IVI  AG VR
Sbjct: 32  DEPDDEASSSDKDVSDATLPARTTYSIVIFLAGSVR 67

The following BLAST results are available for this feature:
BLAST of CmoCh16G008890.1 vs. ExPASy Swiss-Prot
Match NameE-valueIdentityDescription
P054881.1e-3587.36Ribosomal protein S13, mitochondrial OS=Nicotiana tabacum OX=4097 GN=RPS13 PE=3 ... [more]
P232095.2e-3383.91Ribosomal protein S13, mitochondrial OS=Daucus carota OX=4039 GN=RPS13 PE=3 SV=1[more]
P089771.2e-3281.61Ribosomal protein S13, mitochondrial OS=Zea mays OX=4577 GN=RPS13 PE=3 SV=2[more]
P079242.0e-3280.46Ribosomal protein S13, mitochondrial OS=Triticum aestivum OX=4565 GN=RPS13 PE=3 ... [more]
P157581.1e-3081.61Ribosomal protein S13, mitochondrial OS=Oenothera berteroana OX=3950 GN=RPS13 PE... [more]
BLAST of CmoCh16G008890.1 vs. ExPASy TrEMBL
Match NameE-valueIdentityDescription
D5I3H35.8e-3593.10Ribosomal protein S13 OS=Cucurbita pepo OX=3663 GN=rps13 PE=3 SV=1[more]
A0A7D6C5F57.6e-3591.95Ribosomal protein S13 OS=Luffa acutangula OX=56866 GN=rps13 PE=3 SV=1[more]
A0A2H4WYX49.9e-3590.80Ribosomal protein S13 OS=Guettarda scabra OX=153753 GN=rps13 PE=3 SV=1[more]
G3EU281.3e-3491.95Ribosomal protein S13 OS=Cucumis melo subsp. melo OX=412675 GN=rps13 PE=3 SV=1[more]
A0A3S9JII21.3e-3491.95Ribosomal protein S13 OS=Cucumis melo var. momordica OX=2034244 GN=rps13 PE=3 SV... [more]
BLAST of CmoCh16G008890.1 vs. TAIR 10
Match NameE-valueIdentityDescription
ATMG01130.12.3e-0783.33hypothetical protein [more]
InterPro
Analysis Name: InterPro Annotations of Cucurbita moschata (Rifu) v1
Date Performed: 2021-10-25
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availableGENE3D1.10.8.50coord: 1..72
e-value: 3.1E-15
score: 58.1
NoneNo IPR availableMOBIDB_LITEmobidb-litedisorder_predictioncoord: 119..147
NoneNo IPR availablePANTHERPTHR10871:SF38RIBOSOMAL PROTEIN S13coord: 1..87
NoneNo IPR availablePANTHERPTHR1087130S RIBOSOMAL PROTEIN S13/40S RIBOSOMAL PROTEIN S18coord: 1..87
IPR001892Ribosomal protein S13PFAMPF00416Ribosomal_S13coord: 6..87
e-value: 8.7E-12
score: 45.5
IPR001892Ribosomal protein S13PROSITEPS50159RIBOSOMAL_S13_2coord: 4..87
score: 20.681166
IPR010979Ribosomal protein S13-like, H2THSUPERFAMILY46946S13-like H2TH domaincoord: 4..87

Relationships

This mRNA is a part of the following gene feature(s):

Feature NameUnique NameType
CmoCh16G008890CmoCh16G008890gene


The following exon feature(s) are a part of this mRNA:

Feature NameUnique NameType
CmoCh16G008890.1:exon:9989CmoCh16G008890.1:exon:9989exon
CmoCh16G008890.1:exon:9990CmoCh16G008890.1:exon:9990exon
CmoCh16G008890.1:exon:9991CmoCh16G008890.1:exon:9991exon
CmoCh16G008890.1:exon:9992CmoCh16G008890.1:exon:9992exon


The following CDS feature(s) are a part of this mRNA:

Feature NameUnique NameType
CmoCh16G008890.1:cdsCmoCh16G008890.1:cdsCDS
CmoCh16G008890.1:cdsCmoCh16G008890.1:cds_2CDS
CmoCh16G008890.1:cdsCmoCh16G008890.1:cds_3CDS
CmoCh16G008890.1:cdsCmoCh16G008890.1:cds_4CDS


The following polypeptide feature(s) derives from this mRNA:

Feature NameUnique NameType
CmoCh16G008890.1CmoCh16G008890.1-proteinpolypeptide


GO Annotation
GO Assignments
This mRNA is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0006412 translation
cellular_component GO:0005840 ribosome
cellular_component GO:0016021 integral component of membrane
cellular_component GO:0005739 mitochondrion
cellular_component GO:0015935 small ribosomal subunit
molecular_function GO:0003676 nucleic acid binding
molecular_function GO:0003723 RNA binding
molecular_function GO:0003735 structural constituent of ribosome