mRNA_H-elongata_contig119882.1535.1 (mRNA) Himanthalia elongata Himel1 dioecious

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

Overview


Name	mRNA_H-elongata_contig119882.1535.1
Unique Name	mRNA_H-elongata_contig119882.1535.1
Type	mRNA
Organism	Himanthalia elongata Himel1 dioecious (Himanthalia elongata Himel1 dioecious)

Homology

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BLAST of mRNA_H-elongata_contig119882.1535.1 vs. uniprot
Match: A0A392M0Q4_9FABA (Copia-type polyprotein n=1 Tax=Trifolium medium TaxID=97028 RepID=A0A392M0Q4_9FABA)

HSP 1 Score: 51.6 bits (122), Expect = 2.560e-6
Identity = 20/47 (42.55%), Postives = 33/47 (70.21%), Query Frame = 1

Query:    1 RYDIDYQESYSPSPFASSIKIVVGVANENDWRMYHVDVKQAFVKAPL 141
            ++ IDY E ++P     ++++VV +A +N W+MYH+DVK AF+  PL
Sbjct:  292 KHGIDYNEVFAPVARIETVRLVVALACKNRWKMYHLDVKSAFLNGPL 338

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BLAST of mRNA_H-elongata_contig119882.1535.1 vs. uniprot
Match: A0A2K3JU38_TRIPR (Reverse transcriptase (Fragment) n=1 Tax=Trifolium pratense TaxID=57577 RepID=A0A2K3JU38_TRIPR)

HSP 1 Score: 49.7 bits (117), Expect = 7.480e-6
Identity = 20/47 (42.55%), Postives = 32/47 (68.09%), Query Frame = 1

Query:    1 RYDIDYQESYSPSPFASSIKIVVGVANENDWRMYHVDVKQAFVKAPL 141
            ++ IDY E ++      ++++VV +A +N WRMYH+DVK AF+  PL
Sbjct:   40 KHGIDYNEVFASVARIETVRLVVALACKNRWRMYHLDVKSAFLNGPL 86

[Close]

BLAST of mRNA_H-elongata_contig119882.1535.1 vs. uniprot
Match: A0A2Z6MGP9_TRISU (Uncharacterized protein n=1 Tax=Trifolium subterraneum TaxID=3900 RepID=A0A2Z6MGP9_TRISU)

HSP 1 Score: 50.1 bits (118), Expect = 8.970e-6
Identity = 21/44 (47.73%), Postives = 31/44 (70.45%), Query Frame = 1

Query:   10 IDYQESYSPSPFASSIKIVVGVANENDWRMYHVDVKQAFVKAPL 141
            ID+ E ++P     +I++VVG+AN N+W MY +DVK AF+  PL
Sbjct:  722 IDFDEVFAPVARIETIRLVVGLANSNNWPMYQMDVKCAFLNGPL 765

[Close]

BLAST of mRNA_H-elongata_contig119882.1535.1 vs. uniprot
Match: A0A2Z6MI56_TRISU (Uncharacterized protein n=1 Tax=Trifolium subterraneum TaxID=3900 RepID=A0A2Z6MI56_TRISU)

HSP 1 Score: 50.1 bits (118), Expect = 8.970e-6
Identity = 21/44 (47.73%), Postives = 31/44 (70.45%), Query Frame = 1

Query:   10 IDYQESYSPSPFASSIKIVVGVANENDWRMYHVDVKQAFVKAPL 141
            ID+ E ++P     +I++VVG+AN N+W MY +DVK AF+  PL
Sbjct:  762 IDFDEVFAPVARIETIRLVVGLANSNNWPMYQMDVKCAFLNGPL 805

[Close]

BLAST of mRNA_H-elongata_contig119882.1535.1 vs. uniprot
Match: A0A2K3MSU0_TRIPR (Copia-type polyprotein n=1 Tax=Trifolium pratense TaxID=57577 RepID=A0A2K3MSU0_TRIPR)

HSP 1 Score: 49.7 bits (117), Expect = 1.230e-5
Identity = 21/47 (44.68%), Postives = 30/47 (63.83%), Query Frame = 1

Query:    1 RYDIDYQESYSPSPFASSIKIVVGVANENDWRMYHVDVKQAFVKAPL 141
            R  IDY E ++P     +I++V  +AN NDW MY +DVK AF+  P+
Sbjct:  908 REGIDYGEVFAPVTRMETIRLVTAIANINDWPMYQMDVKSAFLNGPI 954

[Close]

BLAST of mRNA_H-elongata_contig119882.1535.1 vs. uniprot
Match: A0A392PM14_9FABA (Reverse transcriptase (Fragment) n=1 Tax=Trifolium medium TaxID=97028 RepID=A0A392PM14_9FABA)

HSP 1 Score: 48.9 bits (115), Expect = 1.870e-5
Identity = 19/44 (43.18%), Postives = 31/44 (70.45%), Query Frame = 1

Query:   10 IDYQESYSPSPFASSIKIVVGVANENDWRMYHVDVKQAFVKAPL 141
            IDY E Y+P     +++++VG+AN N+W ++ +DVK AF+  PL
Sbjct:   98 IDYDEVYAPVARIETVRLIVGIANINNWSIHQMDVKCAFLNGPL 141

[Close]

BLAST of mRNA_H-elongata_contig119882.1535.1 vs. uniprot
Match: A0A2Z6NYP5_TRISU (Uncharacterized protein n=1 Tax=Trifolium subterraneum TaxID=3900 RepID=A0A2Z6NYP5_TRISU)

HSP 1 Score: 48.5 bits (114), Expect = 3.150e-5
Identity = 21/47 (44.68%), Postives = 29/47 (61.70%), Query Frame = 1

Query:    1 RYDIDYQESYSPSPFASSIKIVVGVANENDWRMYHVDVKQAFVKAPL 141
            R  IDY E  +P     +I++V  +AN NDW MY +DVK AF+  P+
Sbjct:  748 REGIDYGEVIAPVTRMETIRLVTAIANMNDWPMYQMDVKSAFLNGPI 794

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BLAST of mRNA_H-elongata_contig119882.1535.1 vs. uniprot
Match: A0A2Z6PKK6_TRISU (Uncharacterized protein n=1 Tax=Trifolium subterraneum TaxID=3900 RepID=A0A2Z6PKK6_TRISU)

HSP 1 Score: 48.1 bits (113), Expect = 4.300e-5
Identity = 20/44 (45.45%), Postives = 30/44 (68.18%), Query Frame = 1

Query:   10 IDYQESYSPSPFASSIKIVVGVANENDWRMYHVDVKQAFVKAPL 141
            I++ E ++P     +I +VVG+AN N+W MY +DVK AF+  PL
Sbjct:  748 INFDEVFAPVAIIETITLVVGLANSNNWPMYQMDVKCAFLNGPL 791

[Close]

BLAST of mRNA_H-elongata_contig119882.1535.1 vs. uniprot
Match: A0A2Z6MET5_TRISU (Integrase catalytic domain-containing protein n=1 Tax=Trifolium subterraneum TaxID=3900 RepID=A0A2Z6MET5_TRISU)

HSP 1 Score: 48.1 bits (113), Expect = 4.300e-5
Identity = 21/47 (44.68%), Postives = 32/47 (68.09%), Query Frame = 1

Query:    1 RYDIDYQESYSPSPFASSIKIVVGVANENDWRMYHVDVKQAFVKAPL 141
            R  IDY+E Y+P     +I++VV +AN N+W ++ +DVK AF+  PL
Sbjct:  786 REGIDYEEVYAPVARIETIRLVVAMANINNWSIHQMDVKCAFLNGPL 832

[Close]

BLAST of mRNA_H-elongata_contig119882.1535.1 vs. uniprot
Match: A0A2N9GAP6_FAGSY (Uncharacterized protein n=1 Tax=Fagus sylvatica TaxID=28930 RepID=A0A2N9GAP6_FAGSY)

HSP 1 Score: 47.8 bits (112), Expect = 5.890e-5
Identity = 18/46 (39.13%), Postives = 31/46 (67.39%), Query Frame = 1

Query:    4 YDIDYQESYSPSPFASSIKIVVGVANENDWRMYHVDVKQAFVKAPL 141
            YDIDY+E+++P    SS++ ++ VA    W+++ +DVK AF+   L
Sbjct:  488 YDIDYKETFAPIARLSSVRTLLAVATSRQWKLFQMDVKNAFLNGDL 533

The following BLAST results are available for this feature:

BLAST of mRNA_H-elongata_contig119882.1535.1 vs. uniprot

BLAST of mRNA_H-elongata_contig119882.1535.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 13


Match Name	E-value	Identity	Description
A0A392M0Q4_9FABA	2.560e-6	42.55	Copia-type polyprotein n=1 Tax=Trifolium medium Ta...	[more]
A0A2K3JU38_TRIPR	7.480e-6	42.55	Reverse transcriptase (Fragment) n=1 Tax=Trifolium...	[more]
A0A2Z6MGP9_TRISU	8.970e-6	47.73	Uncharacterized protein n=1 Tax=Trifolium subterra...	[more]
A0A2Z6MI56_TRISU	8.970e-6	47.73	Uncharacterized protein n=1 Tax=Trifolium subterra...	[more]
A0A2K3MSU0_TRIPR	1.230e-5	44.68	Copia-type polyprotein n=1 Tax=Trifolium pratense ...	[more]
A0A392PM14_9FABA	1.870e-5	43.18	Reverse transcriptase (Fragment) n=1 Tax=Trifolium...	[more]
A0A2Z6NYP5_TRISU	3.150e-5	44.68	Uncharacterized protein n=1 Tax=Trifolium subterra...	[more]
A0A2Z6PKK6_TRISU	4.300e-5	45.45	Uncharacterized protein n=1 Tax=Trifolium subterra...	[more]
A0A2Z6MET5_TRISU	4.300e-5	44.68	Integrase catalytic domain-containing protein n=1 ...	[more]
A0A2N9GAP6_FAGSY	5.890e-5	39.13	Uncharacterized protein n=1 Tax=Fagus sylvatica Ta...	[more]

Pages

Alignments

The following features are aligned


Aligned Feature	Feature Type	Alignment Location
H-elongata_contig119882	contig	H-elongata_contig119882:1869..2009 +

Analyses

This mRNA is derived from or has results from the following analyses


Analysis Name	Date Performed
Diamond blastx: OGS1.0 vs UniRef90	2022-09-19
OGS1.0 of Himanthalia elongata Himel1 dioecious	2021-02-24

Properties


Property Name	Value
Hectar predicted targeting category	no signal peptide or anchor
Exons	1
Model size	141
Cds size	141
Stop	0
Start	0

Relationships

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


Feature Name	Unique Name	Species	Type	Position
1622929702.536635-CDS-H-elongata_contig119882:1868..2009	1622929702.536635-CDS-H-elongata_contig119882:1868..2009	Himanthalia elongata Himel1 dioecious	CDS	H-elongata_contig119882 1869..2009 +
1691679124.9147072-CDS-H-elongata_contig119882:1868..2009	1691679124.9147072-CDS-H-elongata_contig119882:1868..2009	Himanthalia elongata Himel1 dioecious	CDS	H-elongata_contig119882 1869..2009 +

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


Feature Name	Unique Name	Species	Type	Position
mRNA_H-elongata_contig119882.1535.1	prot_H-elongata_contig119882.1535.1	Himanthalia elongata Himel1 dioecious	polypeptide	H-elongata_contig119882 1869..2009 +

Sequences

The following sequences are available for this feature:

protein sequence
mRNA from alignment at H-elongata_contig119882:1869..2009+
coding sequence from alignment at H-elongata_contig119882:1869..2009+

protein sequence of mRNA_H-elongata_contig119882.1535.1

>prot_H-elongata_contig119882.1535.1 ID=prot_H-elongata_contig119882.1535.1|Name=mRNA_H-elongata_contig119882.1535.1|organism=Himanthalia elongata Himel1 dioecious|type=polypeptide|length=47bp
RYDIDYQESYSPSPFASSIKIVVGVANENDWRMYHVDVKQAFVKAPL

mRNA from alignment at H-elongata_contig119882:1869..2009+

Legend: CDSpolypeptide

Hold the cursor over a type above to highlight its positions in the sequence below.

>mRNA_H-elongata_contig119882.1535.1 ID=mRNA_H-elongata_contig119882.1535.1|Name=mRNA_H-elongata_contig119882.1535.1|organism=Himanthalia elongata Himel1 dioecious|type=mRNA|length=141bp|location=Sequence derived from alignment at H-elongata_contig119882:1869..2009+ (Himanthalia elongata Himel1 dioecious)
AGGTACGATATCGATTACCAAGAGTCGTATTCACCCTCACCGTTTGCTTC
ATCGATCAAAATTGTCGTGGGCGTAGCTAACGAGAACGACTGGAGGATGT
ATCATGTCGATGTTAAGCAAGCTTTCGTCAAGGCACCCCTA

Coding sequence (CDS) from alignment at H-elongata_contig119882:1869..2009+

>mRNA_H-elongata_contig119882.1535.1 ID=mRNA_H-elongata_contig119882.1535.1|Name=mRNA_H-elongata_contig119882.1535.1|organism=Himanthalia elongata Himel1 dioecious|type=CDS|length=282bp|location=Sequence derived from alignment at H-elongata_contig119882:1869..2009+ (Himanthalia elongata Himel1 dioecious)
AGGTACGATATCGATTACCAAGAGTCGTATTCACCCTCACCGTTTGCTTC
ATCGATCAAAATTGTCGTGGGCGTAGCTAACGAGAACGACTGGAGGATGT
ATCATGTCGATGTTAAGCAAGCTTTCGTCAAGGCACCCCTAAGGTACGAT
ATCGATTACCAAGAGTCGTATTCACCCTCACCGTTTGCTTCATCGATCAA
AATTGTCGTGGGCGTAGCTAACGAGAACGACTGGAGGATGTATCATGTCG
ATGTTAAGCAAGCTTTCGTCAAGGCACCCCTA