mRNA_H-elongata_contig117326.1359.1 (mRNA) Himanthalia elongata Himel1 dioecious

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

Overview
NamemRNA_H-elongata_contig117326.1359.1
Unique NamemRNA_H-elongata_contig117326.1359.1
TypemRNA
OrganismHimanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)
Homology
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BLAST of mRNA_H-elongata_contig117326.1359.1 vs. uniprot
Match: UPI001CFA2F06 (pentatricopeptide repeat-containing protein At1g30610, chloroplastic-like isoform X1 n=4 Tax=Mangifera indica TaxID=29780 RepID=UPI001CFA2F06)

HSP 1 Score: 48.9 bits (115), Expect = 4.230e-5
Identity = 20/69 (28.99%), Postives = 40/69 (57.97%), Query Frame = 1 
Query:   13 DLNLQPSVSTYNAVLKSCVRGKNYSRALTTMTDLRKSGKRPEQKTWELLVEACVVCGRWECAVEVVRDM 219
            DL L+P +  Y AVL +CV+ KN+  A   +  +++ G++P   T+ L++E  +  G++    +  R++
Sbjct:   86 DLQLEPDIVVYTAVLNACVKRKNWEGAFWVLQQIKEKGQKPSASTYGLVMEVMLAFGKYNLVHDFSREV 154
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BLAST of mRNA_H-elongata_contig117326.1359.1 vs. uniprot
Match: UPI001F5DC7BA (pentatricopeptide repeat-containing protein At1g30610, chloroplastic-like isoform X1 n=3 Tax=Lolium rigidum TaxID=89674 RepID=UPI001F5DC7BA)

HSP 1 Score: 48.9 bits (115), Expect = 8.510e-5
Identity = 23/64 (35.94%), Postives = 36/64 (56.25%), Query Frame = 1 
Query:   13 DLNLQPSVSTYNAVLKSCVRGKNYSRALTTMTDLRKSGKRPEQKTWELLVEACVVCGRWECAVE 204
            D  L+P +  YNAVL SCV+ K +      +  L++   RP   T+ L++EA +VCG++    E
Sbjct:  723 DPRLEPDLIVYNAVLNSCVQQKQWEGTFWVLQQLKEKNIRPTNTTYGLVMEAMLVCGKYNLVYE 786
The following BLAST results are available for this feature:
BLAST of mRNA_H-elongata_contig117326.1359.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 2
Match NameE-valueIdentityDescription
UPI001CFA2F064.230e-528.99pentatricopeptide repeat-containing protein At1g30... [more]
UPI001F5DC7BA8.510e-535.94pentatricopeptide repeat-containing protein At1g30... [more]
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Alignments
The following features are aligned
Aligned FeatureFeature TypeAlignment Location
H-elongata_contig117326contigH-elongata_contig117326:485..718 +
Analyses
This mRNA is derived from or has results from the following analyses
Analysis NameDate Performed
Diamond blastx: OGS1.0 vs UniRef902022-09-19
OGS1.0 of Himanthalia elongata Himel1 dioecious2021-02-24
Properties
Property NameValue
Hectar predicted targeting categoryother localisation
Exons1
Model size234
Cds size234
Stop0
Start0
Relationships

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

Feature NameUnique NameSpeciesTypePosition
1622929684.193853-CDS-H-elongata_contig117326:484..7181622929684.193853-CDS-H-elongata_contig117326:484..718Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig117326 485..718 +
1691679118.3802128-CDS-H-elongata_contig117326:484..7181691679118.3802128-CDS-H-elongata_contig117326:484..718Himanthalia elongata Himel1 dioeciousCDSH-elongata_contig117326 485..718 +


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

Feature NameUnique NameSpeciesTypePosition
mRNA_H-elongata_contig117326.1359.1prot_H-elongata_contig117326.1359.1Himanthalia elongata Himel1 dioeciouspolypeptideH-elongata_contig117326 485..718 +


Sequences
The following sequences are available for this feature:

protein sequence of mRNA_H-elongata_contig117326.1359.1

>prot_H-elongata_contig117326.1359.1 ID=prot_H-elongata_contig117326.1359.1|Name=mRNA_H-elongata_contig117326.1359.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=78bp
DWSRDLNLQPSVSTYNAVLKSCVRGKNYSRALTTMTDLRKSGKRPEQKTW
ELLVEACVVCGRWECAVEVVRDMYGEEV
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mRNA from alignment at H-elongata_contig117326:485..718+

Legend: CDSpolypeptide
Hold the cursor over a type above to highlight its positions in the sequence below.
>mRNA_H-elongata_contig117326.1359.1 ID=mRNA_H-elongata_contig117326.1359.1|Name=mRNA_H-elongata_contig117326.1359.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=234bp|location=Sequence derived from alignment at H-elongata_contig117326:485..718+ (Himanthalia elongata Himel1 dioecious)
GACTGGTCCAGGGATCTCAACCTGCAGCCGTCGGTATCGACGTACAACGC
CGTGCTCAAGTCTTGCGTACGAGGGAAGAACTACTCGAGAGCCCTGACGA
CAATGACGGACCTGAGGAAGTCGGGGAAGAGGCCGGAGCAGAAGACGTGG
GAGTTGCTAGTGGAGGCGTGTGTTGTCTGCGGGAGGTGGGAGTGTGCCGT
GGAGGTGGTCCGGGACATGTACGGCGAAGAGGTG
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Coding sequence (CDS) from alignment at H-elongata_contig117326:485..718+

>mRNA_H-elongata_contig117326.1359.1 ID=mRNA_H-elongata_contig117326.1359.1|Name=mRNA_H-elongata_contig117326.1359.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=468bp|location=Sequence derived from alignment at H-elongata_contig117326:485..718+ (Himanthalia elongata Himel1 dioecious)
GACTGGTCCAGGGATCTCAACCTGCAGCCGTCGGTATCGACGTACAACGC
CGTGCTCAAGTCTTGCGTACGAGGGAAGAACTACTCGAGAGCCCTGACGA
CAATGACGGACCTGAGGAAGTCGGGGAAGAGGCCGGAGCAGAAGACGTGG
GAGTTGCTAGTGGAGGCGTGTGTTGTCTGCGGGAGGTGGGAGTGTGCCGT
GGAGGTGGTCCGGGACATGTACGGCGAAGAGGTGGACTGGTCCAGGGATC
TCAACCTGCAGCCGTCGGTATCGACGTACAACGCCGTGCTCAAGTCTTGC
GTACGAGGGAAGAACTACTCGAGAGCCCTGACGACAATGACGGACCTGAG
GAAGTCGGGGAAGAGGCCGGAGCAGAAGACGTGGGAGTTGCTAGTGGAGG
CGTGTGTTGTCTGCGGGAGGTGGGAGTGTGCCGTGGAGGTGGTCCGGGAC
ATGTACGGCGAAGAGGTG
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