mRNA_P-canaliculata_contig102300.365.1 (mRNA) Pelvetia canaliculata dioecious

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

Overview


Name	mRNA_P-canaliculata_contig102300.365.1
Unique Name	mRNA_P-canaliculata_contig102300.365.1
Type	mRNA
Organism	Pelvetia canaliculata dioecious (Pelvetia canaliculata dioecious (Channelled wrack))

Homology

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BLAST of mRNA_P-canaliculata_contig102300.365.1 vs. uniprot
Match: A0A357IBD8_9GAMM (Cold shock domain protein CspD n=1 Tax=Gammaproteobacteria bacterium TaxID=1913989 RepID=A0A357IBD8_9GAMM)

HSP 1 Score: 57.4 bits (137), Expect = 1.840e-9
Identity = 26/42 (61.90%), Postives = 30/42 (71.43%), Query Frame = 1

Query:    1 MSSKSEVTVKWFNVEKSYGFAVNDAGEDVFIHYRSIQMVGLR 126
            MS +S  TVKWF+  K YGF VN  GEDVF+HYRSIQ  G +
Sbjct:    1 MSERSNGTVKWFDNAKGYGFIVNPDGEDVFVHYRSIQGDGYK 42

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BLAST of mRNA_P-canaliculata_contig102300.365.1 vs. uniprot
Match: A0A352KLI8_9GAMM (Cold-shock protein n=1 Tax=Gammaproteobacteria bacterium TaxID=1913989 RepID=A0A352KLI8_9GAMM)

HSP 1 Score: 56.6 bits (135), Expect = 3.700e-9
Identity = 25/42 (59.52%), Postives = 28/42 (66.67%), Query Frame = 1

Query:    1 MSSKSEVTVKWFNVEKSYGFAVNDAGEDVFIHYRSIQMVGLR 126
            MS + +  VKWFN  K YGF   D GEDVF+HYRSIQ  G R
Sbjct:    1 MSVREKGVVKWFNNSKGYGFITRDQGEDVFVHYRSIQGDGFR 42

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BLAST of mRNA_P-canaliculata_contig102300.365.1 vs. uniprot
Match: A0A7V2PUH6_9CHLR (Cold shock domain-containing protein n=1 Tax=Anaerolineae bacterium TaxID=2052143 RepID=A0A7V2PUH6_9CHLR)

HSP 1 Score: 55.8 bits (133), Expect = 7.270e-9
Identity = 25/43 (58.14%), Postives = 28/43 (65.12%), Query Frame = 1

Query:    1 MSSKSEVTVKWFNVEKSYGFAVNDAGEDVFIHYRSIQMVGLRR 129
            MS +   TVKWFN  K YGF   + GEDVF+HY SI M G RR
Sbjct:    1 MSERLTGTVKWFNARKGYGFIGYEEGEDVFVHYSSIDMEGYRR 43

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BLAST of mRNA_P-canaliculata_contig102300.365.1 vs. uniprot
Match: UPI001E5969DE (cold-shock protein n=1 Tax=Longispora fulva TaxID=619741 RepID=UPI001E5969DE)

HSP 1 Score: 55.8 bits (133), Expect = 1.090e-8
Identity = 24/40 (60.00%), Postives = 29/40 (72.50%), Query Frame = 1

Query:    7 SKSEVTVKWFNVEKSYGFAVNDAGEDVFIHYRSIQMVGLR 126
            S +E TVKWFN EK YGF   D G+DVF+H+ SIQM G +
Sbjct:   19 SVAEGTVKWFNSEKGYGFIAVDGGQDVFVHFSSIQMDGYK 58

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BLAST of mRNA_P-canaliculata_contig102300.365.1 vs. uniprot
Match: A0A1E4ZWN7_9GAMM (CSD domain-containing protein n=1 Tax=Chromatiales bacterium (ex Bugula neritina AB1) TaxID=1868282 RepID=A0A1E4ZWN7_9GAMM)

HSP 1 Score: 55.1 bits (131), Expect = 1.470e-8
Identity = 25/39 (64.10%), Postives = 29/39 (74.36%), Query Frame = 1

Query:   10 KSEVTVKWFNVEKSYGFAVNDAGEDVFIHYRSIQMVGLR 126
            KS  TVKWF+  K YGF VN+AGEDVF+HYRSI   G +
Sbjct:    3 KSIGTVKWFDNAKGYGFIVNEAGEDVFVHYRSIVGEGYK 41

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BLAST of mRNA_P-canaliculata_contig102300.365.1 vs. uniprot
Match: A0A1H0RPX6_MICTS (Cold-shock DNA-binding protein family n=8 Tax=Microbacteriaceae TaxID=85023 RepID=A0A1H0RPX6_MICTS)

HSP 1 Score: 54.7 bits (130), Expect = 1.940e-8
Identity = 22/35 (62.86%), Postives = 26/35 (74.29%), Query Frame = 1

Query:   22 TVKWFNVEKSYGFAVNDAGEDVFIHYRSIQMVGLR 126
            TVKWFN EK +GF   D G+DVF+HY SI+M G R
Sbjct:    5 TVKWFNAEKGFGFITVDDGQDVFVHYSSIEMSGFR 39

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BLAST of mRNA_P-canaliculata_contig102300.365.1 vs. uniprot
Match: A0A2M9E9Z1_9GAMM (Cold-shock protein n=7 Tax=Xanthomonadaceae TaxID=32033 RepID=A0A2M9E9Z1_9GAMM)

HSP 1 Score: 54.7 bits (130), Expect = 2.080e-8
Identity = 22/42 (52.38%), Postives = 30/42 (71.43%), Query Frame = 1

Query:    1 MSSKSEVTVKWFNVEKSYGFAVNDAGEDVFIHYRSIQMVGLR 126
            MS +   TVKWFN  K +GF   ++GEDVF+H+R+IQM G +
Sbjct:    1 MSDRETGTVKWFNDAKGFGFISRESGEDVFVHFRAIQMQGFK 42

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BLAST of mRNA_P-canaliculata_contig102300.365.1 vs. uniprot
Match: UPI001CE3EDC5 (cold shock domain-containing protein n=1 Tax=Pseudoclavibacter sp. Marseille-Q3772 TaxID=2866588 RepID=UPI001CE3EDC5)

HSP 1 Score: 54.7 bits (130), Expect = 2.130e-8
Identity = 25/39 (64.10%), Postives = 28/39 (71.79%), Query Frame = 1

Query:   22 TVKWFNVEKSYGFAVND----AGEDVFIHYRSIQMVGLR 126
            TVKWFN EK YGF   D    AG+DVF+HYRSI+M G R
Sbjct:    5 TVKWFNAEKGYGFITVDSADAAGQDVFVHYRSIEMDGFR 43

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BLAST of mRNA_P-canaliculata_contig102300.365.1 vs. uniprot
Match: A0A1B3WBV0_9GAMM (Cold-shock protein n=3 Tax=Xanthomonadaceae TaxID=32033 RepID=A0A1B3WBV0_9GAMM)

HSP 1 Score: 54.3 bits (129), Expect = 3.170e-8
Identity = 22/42 (52.38%), Postives = 30/42 (71.43%), Query Frame = 1

Query:    1 MSSKSEVTVKWFNVEKSYGFAVNDAGEDVFIHYRSIQMVGLR 126
            M+ +   TVKWFN  K +GF   D+GEDVF+H+R+IQM G +
Sbjct:    3 MAEREIGTVKWFNDAKGFGFISRDSGEDVFVHFRAIQMPGFK 44

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BLAST of mRNA_P-canaliculata_contig102300.365.1 vs. uniprot
Match: A0A6N7GPF5_9ACTN (Cold-shock protein n=4 Tax=Micromonosporaceae TaxID=28056 RepID=A0A6N7GPF5_9ACTN)

HSP 1 Score: 53.9 bits (128), Expect = 4.190e-8
Identity = 22/35 (62.86%), Postives = 26/35 (74.29%), Query Frame = 1

Query:   22 TVKWFNVEKSYGFAVNDAGEDVFIHYRSIQMVGLR 126
            TVKWFN EK YGF   D GEDVF+H+ SI+M G +
Sbjct:    5 TVKWFNSEKGYGFIAVDGGEDVFVHFSSIEMDGYK 39

The following BLAST results are available for this feature:

BLAST of mRNA_P-canaliculata_contig102300.365.1 vs. uniprot

BLAST of mRNA_P-canaliculata_contig102300.365.1 vs. uniprot
Analysis Date: 2022-09-19 (Diamond blastx: OGS1.0 vs UniRef90)
Total hits: 25


Match Name	E-value	Identity	Description
A0A357IBD8_9GAMM	1.840e-9	61.90	Cold shock domain protein CspD n=1 Tax=Gammaproteo...	[more]
A0A352KLI8_9GAMM	3.700e-9	59.52	Cold-shock protein n=1 Tax=Gammaproteobacteria bac...	[more]
A0A7V2PUH6_9CHLR	7.270e-9	58.14	Cold shock domain-containing protein n=1 Tax=Anaer...	[more]
UPI001E5969DE	1.090e-8	60.00	cold-shock protein n=1 Tax=Longispora fulva TaxID=...	[more]
A0A1E4ZWN7_9GAMM	1.470e-8	64.10	CSD domain-containing protein n=1 Tax=Chromatiales...	[more]
A0A1H0RPX6_MICTS	1.940e-8	62.86	Cold-shock DNA-binding protein family n=8 Tax=Micr...	[more]
A0A2M9E9Z1_9GAMM	2.080e-8	52.38	Cold-shock protein n=7 Tax=Xanthomonadaceae TaxID=...	[more]
UPI001CE3EDC5	2.130e-8	64.10	cold shock domain-containing protein n=1 Tax=Pseud...	[more]
A0A1B3WBV0_9GAMM	3.170e-8	52.38	Cold-shock protein n=3 Tax=Xanthomonadaceae TaxID=...	[more]
A0A6N7GPF5_9ACTN	4.190e-8	62.86	Cold-shock protein n=4 Tax=Micromonosporaceae TaxI...	[more]

Pages

Alignments

The following features are aligned


Aligned Feature	Feature Type	Alignment Location
P-canaliculata_contig102300	contig	P-canaliculata_contig102300:594..793 -

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 Pelvetia canaliculata dioecious	2021-02-24

Properties


Property Name	Value
Hectar predicted targeting category	no signal peptide or anchor
Exons	1
Model size	200
Cds size	132
Stop	1
Start	1

Relationships

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


Feature Name	Unique Name	Species	Type	Position
1622815596.9325325-UTR-P-canaliculata_contig102300:593..661	1622815596.9325325-UTR-P-canaliculata_contig102300:593..661	Pelvetia canaliculata dioecious	UTR	P-canaliculata_contig102300 594..661 -
1693494157.4418163-UTR-P-canaliculata_contig102300:593..661	1693494157.4418163-UTR-P-canaliculata_contig102300:593..661	Pelvetia canaliculata dioecious	UTR	P-canaliculata_contig102300 594..661 -

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


Feature Name	Unique Name	Species	Type	Position
1622815596.9443192-CDS-P-canaliculata_contig102300:661..793	1622815596.9443192-CDS-P-canaliculata_contig102300:661..793	Pelvetia canaliculata dioecious	CDS	P-canaliculata_contig102300 662..793 -
1693494157.452953-CDS-P-canaliculata_contig102300:661..793	1693494157.452953-CDS-P-canaliculata_contig102300:661..793	Pelvetia canaliculata dioecious	CDS	P-canaliculata_contig102300 662..793 -

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


Feature Name	Unique Name	Species	Type	Position
mRNA_P-canaliculata_contig102300.365.1	prot_P-canaliculata_contig102300.365.1	Pelvetia canaliculata dioecious	polypeptide	P-canaliculata_contig102300 662..793 -

Sequences

The following sequences are available for this feature:

protein sequence
mRNA from alignment at P-canaliculata_contig102300:594..793-
coding sequence from alignment at P-canaliculata_contig102300:594..793-

protein sequence of mRNA_P-canaliculata_contig102300.365.1

>prot_P-canaliculata_contig102300.365.1 ID=prot_P-canaliculata_contig102300.365.1|Name=mRNA_P-canaliculata_contig102300.365.1|organism=Pelvetia canaliculata dioecious|type=polypeptide|length=44bp
MSSKSEVTVKWFNVEKSYGFAVNDAGEDVFIHYRSIQMVGLRR*

mRNA from alignment at P-canaliculata_contig102300:594..793-

Legend: polypeptideCDSUTR

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

>mRNA_P-canaliculata_contig102300.365.1 ID=mRNA_P-canaliculata_contig102300.365.1|Name=mRNA_P-canaliculata_contig102300.365.1|organism=Pelvetia canaliculata dioecious|type=mRNA|length=200bp|location=Sequence derived from alignment at P-canaliculata_contig102300:594..793- (Pelvetia canaliculata dioecious)
ATGAGCAGTAAATCCGAGGTAACCGTTAAATGGTTCAACGTAGAAAAGAG
CTACGGCTTTGCAGTCAATGACGCTGGCGAGGATGTCTTTATCCACTACC
GATCCATACAAATGGTTGGTTTAAGACGCTAGAGGAAGGCCAGAGAATCA
GATTCACCCAGGTTAGGTCAGAGAAAAGCTGGCAGGCTGCGGAAGTGCTG

Coding sequence (CDS) from alignment at P-canaliculata_contig102300:594..793-

>mRNA_P-canaliculata_contig102300.365.1 ID=mRNA_P-canaliculata_contig102300.365.1|Name=mRNA_P-canaliculata_contig102300.365.1|organism=Pelvetia canaliculata dioecious|type=CDS|length=264bp|location=Sequence derived from alignment at P-canaliculata_contig102300:594..793- (Pelvetia canaliculata dioecious)
ATGAGCAGTAAATCCGAGGTAACCGTTAAATGGTTCAACGTAGAAAAGAG
CTACGGCTTTGCAGTCAATGACGCTGGCGAGGATGTCTTTATCCACTACC
GATCCATACAAATGGTTGGTTTAAGACGCTAGATGAGCAGTAAATCCGAG
GTAACCGTTAAATGGTTCAACGTAGAAAAGAGCTACGGCTTTGCAGTCAA
TGACGCTGGCGAGGATGTCTTTATCCACTACCGATCCATACAAATGGTTG
GTTTAAGACGCTAG