Gcaud1840.t1 (mRNA) Gracilaria caudata M_176_S67 male

You are viewing an mRNA, more information available on the corresponding polypeptide page

Overview
NameGcaud1840.t1
Unique NameGcaud1840.t1
TypemRNA
OrganismGracilaria caudata M_176_S67 male (Gracilaria caudata M_176_S67 male)
Sequence length162
Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
NODE_207_length_37223_cov_4.468356contigNODE_207_length_37223_cov_4.468356:5784..6269 +
Analyses
This mRNA is derived from or has results from the following analyses
Analysis NameDate Performed
Gracilaria caudata M_176_S67 male OGS1.02022-05-09
Properties
Property NameValue
Seed ortholog1173027.Mic7113_4876
Preferred namesmpB
PFAMsSmpB
Max annot lvl1117|Cyanobacteria
KEGG koko:K03664
Evalue7.15e-48
EggNOG OGsCOG0691@1|root,COG0691@2|Bacteria,1G542@1117|Cyanobacteria,1HAV9@1150|Oscillatoriales
Descriptionthe 2 termini fold to resemble tRNA(Ala) and it encodes a tag peptide , a short internal open reading frame. During trans-translation Ala- aminoacylated tmRNA acts like a tRNA, entering the A-site of stalled ribosomes, displacing the stalled mRNA. The ribosome then switches to translate the ORF on the tmRNA
COG categoryO
BRITEko00000
Relationships

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

Feature NameUnique NameSpeciesTypePosition
Gcaud1840Gcaud1840Gracilaria caudata M_176_S67 malegeneNODE_207_length_37223_cov_4.468356 5784..6269 +


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

Feature NameUnique NameSpeciesTypePosition
Gcaud1840.t1.start1Gcaud1840.t1.start1Gracilaria caudata M_176_S67 malestart_codonNODE_207_length_37223_cov_4.468356 5784..5786 +


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

Feature NameUnique NameSpeciesTypePosition
Gcaud1840.t1.CDS1Gcaud1840.t1.CDS1Gracilaria caudata M_176_S67 maleCDSNODE_207_length_37223_cov_4.468356 5784..6269 +


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

Feature NameUnique NameSpeciesTypePosition
Gcaud1840.t1.exon1Gcaud1840.t1.exon1Gracilaria caudata M_176_S67 maleexonNODE_207_length_37223_cov_4.468356 5784..6269 +


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

Feature NameUnique NameSpeciesTypePosition
Gcaud1840.t1.stop1Gcaud1840.t1.stop1Gracilaria caudata M_176_S67 malestop_codonNODE_207_length_37223_cov_4.468356 6267..6269 +


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

Feature NameUnique NameSpeciesTypePosition
Gcaud1840.t1Gcaud1840.t1Gracilaria caudata M_176_S67 malepolypeptideNODE_207_length_37223_cov_4.468356 5784..6269 +


Sequences
The following sequences are available for this feature:

mRNA sequence

>Gcaud1840.t1 ID=Gcaud1840.t1|Name=Gcaud1840.t1|organism=Gracilaria caudata M_176_S67 male|type=mRNA|length=162bp
MAKSKRPRNYSPTFDNRIARARYEFLEKHECGVELLGTEVKSVRLGQANL
RDSYAVIREGQLYVKNMRISHYPFATEKFNHEPLREKKLLLHKREIRKLA
SKVAEKGLTLVPTRLYFTNGFVKVEIALAKGKQERDRREDIKKRDDQREM
RRIEKIVVRGM*
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spliced messenger RNA

>Gcaud1840.t1 ID=Gcaud1840.t1|Name=Gcaud1840.t1|organism=Gracilaria caudata M_176_S67 male|type=mRNA|length=486bp|location=Sequence derived from alignment at NODE_207_length_37223_cov_4.468356:5784..6269+ (Gracilaria caudata M_176_S67 male)|Notes=Excludes all bases but those of type(s): exon.  
ATGGCCAAATCCAAGCGTCCGAGGAACTACAGTCCAACATTCGACAATCG
CATAGCAAGGGCCAGATACGAATTTCTCGAGAAACACGAGTGCGGCGTAG
AGCTGCTGGGAACGGAGGTCAAGTCTGTCCGTTTAGGACAGGCCAATCTC
CGCGACAGCTACGCTGTTATTCGTGAAGGTCAGTTGTACGTAAAGAACAT
GCGAATATCCCACTATCCCTTTGCCACAGAAAAGTTCAATCATGAGCCGC
TACGTGAGAAGAAGCTGCTACTGCACAAACGAGAAATACGAAAGCTTGCA
AGCAAAGTTGCGGAGAAAGGTCTCACGTTGGTACCCACTCGTTTATATTT
CACTAATGGATTCGTCAAGGTGGAAATCGCTTTGGCGAAAGGCAAACAAG
AACGGGATCGCCGCGAAGATATCAAAAAGAGGGATGATCAGCGTGAAATG
AGACGCATTGAGAAGATTGTCGTTCGCGGCATGTAG
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protein sequence of Gcaud1840.t1

>Gcaud1840.t1 ID=Gcaud1840.t1|Name=Gcaud1840.t1|organism=Gracilaria caudata M_176_S67 male|type=polypeptide|length=162bp
MAKSKRPRNYSPTFDNRIARARYEFLEKHECGVELLGTEVKSVRLGQANL
RDSYAVIREGQLYVKNMRISHYPFATEKFNHEPLREKKLLLHKREIRKLA
SKVAEKGLTLVPTRLYFTNGFVKVEIALAKGKQERDRREDIKKRDDQREM
RRIEKIVVRGM*
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mRNA from alignment at NODE_207_length_37223_cov_4.468356:5784..6269+

Legend: start_codonpolypeptideCDSexonstop_codon
Hold the cursor over a type above to highlight its positions in the sequence below.
>Gcaud1840.t1 ID=Gcaud1840.t1|Name=Gcaud1840.t1|organism=Gracilaria caudata M_176_S67 male|type=mRNA|length=486bp|location=Sequence derived from alignment at NODE_207_length_37223_cov_4.468356:5784..6269+ (Gracilaria caudata M_176_S67 male)
ATGGCCAAATCCAAGCGTCCGAGGAACTACAGTCCAACATTCGACAATCG
CATAGCAAGGGCCAGATACGAATTTCTCGAGAAACACGAGTGCGGCGTAG
AGCTGCTGGGAACGGAGGTCAAGTCTGTCCGTTTAGGACAGGCCAATCTC
CGCGACAGCTACGCTGTTATTCGTGAAGGTCAGTTGTACGTAAAGAACAT
GCGAATATCCCACTATCCCTTTGCCACAGAAAAGTTCAATCATGAGCCGC
TACGTGAGAAGAAGCTGCTACTGCACAAACGAGAAATACGAAAGCTTGCA
AGCAAAGTTGCGGAGAAAGGTCTCACGTTGGTACCCACTCGTTTATATTT
CACTAATGGATTCGTCAAGGTGGAAATCGCTTTGGCGAAAGGCAAACAAG
AACGGGATCGCCGCGAAGATATCAAAAAGAGGGATGATCAGCGTGAAATG
AGACGCATTGAGAAGATTGTCGTTCGCGGCATGTAG
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Coding sequence (CDS) from alignment at NODE_207_length_37223_cov_4.468356:5784..6269+

>Gcaud1840.t1 ID=Gcaud1840.t1|Name=Gcaud1840.t1|organism=Gracilaria caudata M_176_S67 male|type=CDS|length=486bp|location=Sequence derived from alignment at NODE_207_length_37223_cov_4.468356:5784..6269+ (Gracilaria caudata M_176_S67 male)
ATGGCCAAATCCAAGCGTCCGAGGAACTACAGTCCAACATTCGACAATCG
CATAGCAAGGGCCAGATACGAATTTCTCGAGAAACACGAGTGCGGCGTAG
AGCTGCTGGGAACGGAGGTCAAGTCTGTCCGTTTAGGACAGGCCAATCTC
CGCGACAGCTACGCTGTTATTCGTGAAGGTCAGTTGTACGTAAAGAACAT
GCGAATATCCCACTATCCCTTTGCCACAGAAAAGTTCAATCATGAGCCGC
TACGTGAGAAGAAGCTGCTACTGCACAAACGAGAAATACGAAAGCTTGCA
AGCAAAGTTGCGGAGAAAGGTCTCACGTTGGTACCCACTCGTTTATATTT
CACTAATGGATTCGTCAAGGTGGAAATCGCTTTGGCGAAAGGCAAACAAG
AACGGGATCGCCGCGAAGATATCAAAAAGAGGGATGATCAGCGTGAAATG
AGACGCATTGAGAAGATTGTCGTTCGCGGCATGTAG
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