AlfalfaGEDB | Msa0346060

M. sativa cultivar zhongmu-4 / Msa0346060

KEGG: -
GO: -
PFAM: -

Nr:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0346060	XP_003598119.1	83.190	464	34	3	1	420	1	464	0.0	721

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Swissprot:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
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Trembl:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0346060	G7IV97	83.190	464	34	3	1	420	1	464	0.0	721

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TFs/TRs:

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Gene ID	Type	Classification
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Protein Kinases:

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Gene ID	Type	Classification
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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0022550	Msa0346060	0.802572	5.265233e-49	-8.615850e-47
Msa0081520	Msa0346060	0.811509	6.756040e-51	-8.615850e-47
Msa0094850	Msa0346060	0.817296	3.549366e-52	-8.615850e-47
Msa0102870	Msa0346060	0.832913	7.204521e-56	-8.615850e-47
Msa0152400	Msa0346060	0.800679	1.287238e-48	-8.615850e-47
Msa0173890	Msa0346060	0.810288	1.241884e-50	-8.615850e-47
Msa0197880	Msa0346060	0.809563	1.778559e-50	-8.615850e-47
Msa0206840	Msa0346060	0.822269	2.592733e-53	-8.615850e-47
Msa0258310	Msa0346060	0.812089	5.051357e-51	-8.615850e-47
Msa0265850	Msa0346060	0.812832	3.475809e-51	-8.615850e-47

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PPI

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Gene1	Gene2	Type
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Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0346060	MtrunA17_Chr3g0078491	86.256	422	33	4	1	420	1	399	0.0	683
Msa0346060	MtrunA17_Chr8g0356011	27.209	430	249	17	9	416	24	411	2.60e-15	77.4

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Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
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Find 56 sgRNAs with CRISPR-Local

Find 230 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAACCAAGGACGAAAGCAA+AGG	0.593213	3_1:-5993209	Msa0346060:CDS
AAAAGAGTCTTTACCTCAAA+AGG	0.312680	3_1:-5993537	Msa0346060:CDS
AAAAGAGTCTTTACCTCAAA+AGG	0.355490	3_1:-5993579	Msa0346060:CDS
AAAAGATTCTTGATTCAACA+AGG	0.644606	3_1:-5993094	Msa0346060:CDS
AAACAAAAGCTAATATACAC+TGG	0.628935	3_1:-5992996	Msa0346060:CDS
AAAGAGTCTTTACCTCAAAA+GGG	0.542957	3_1:-5993536	Msa0346060:CDS
AAAGAGTCTTTACCTCAAAA+GGG	0.558710	3_1:-5993578	Msa0346060:CDS
AAAGCAACCATAAGAAAATA+TGG	0.331016	3_1:-5994838	Msa0346060:exon
AAATAATAATAAAGCTGATG+AGG	0.583535	3_1:-5993831	Msa0346060:CDS
AACATACAAAGAGAAGGGAA+AGG	0.642709	3_1:-5993153	Msa0346060:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
CAAGAACATATGAATAGAAG+TGG	+	chr3_1:5993090-5993109	None:intergenic	30.0%
AAATTCTGATAAGCAATGGA+AGG	+	chr3_1:5993247-5993266	None:intergenic	30.0%
TTGAACTTACGTAGAGTTAT+AGG	+	chr3_1:5993463-5993482	None:intergenic	30.0%
TATAAAAGGCTAACATCTGT+TGG	+	chr3_1:5993599-5993618	None:intergenic	30.0%
AATTATTTAATGCACCCTAC+AGG	-	chr3_1:5993692-5993711	Msa0346060:CDS	30.0%
TGATGAGGTAAATGATCAAA+AGG	-	chr3_1:5993964-5993983	Msa0346060:CDS	30.0%
AAAAGAGTCTTTACCTCAAA+AGG	-	chr3_1:5994201-5994220	Msa0346060:intron	30.0%
AAAGAGTCTTTACCTCAAAA+GGG	-	chr3_1:5994202-5994221	Msa0346060:intron	30.0%
AAAAGAGTCTTTACCTCAAA+AGG	-	chr3_1:5994201-5994220	Msa0346060:intron	30.0%
AAAGAGTCTTTACCTCAAAA+GGG	-	chr3_1:5994202-5994221	Msa0346060:intron	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr3_1	gene	5992926	5994876	5992926	ID=Msa0346060;Name=Msa0346060
chr3_1	mRNA	5992926	5994876	5992926	ID=Msa0346060-mRNA-1;Parent=Msa0346060;Name=Msa0346060-mRNA-1;_AED=0.04;_eAED=0.04;_QI=35\|1\|0.5\|1\|1\|1\|2\|0\|420
chr3_1	exon	5992926	5994088	5992926	ID=Msa0346060-mRNA-1:exon:1755;Parent=Msa0346060-mRNA-1
chr3_1	exon	5994742	5994876	5994742	ID=Msa0346060-mRNA-1:exon:1754;Parent=Msa0346060-mRNA-1
chr3_1	five_prime_UTR	5994842	5994876	5994842	ID=Msa0346060-mRNA-1:five_prime_utr;Parent=Msa0346060-mRNA-1
chr3_1	CDS	5994742	5994841	5994742	ID=Msa0346060-mRNA-1:cds;Parent=Msa0346060-mRNA-1
chr3_1	CDS	5992926	5994088	5992926	ID=Msa0346060-mRNA-1:cds;Parent=Msa0346060-mRNA-1

Gene Sequence

>Msa0346060

ATGGCTACCTTGCAATCATATGACTACGAAGATGTGCATCCAGTAATTGAAAAAAAGAATACTCCAGACTCACACCTTCTGATTGTTCAAATTCCTGATGGTTTTGCACGAGGGGATATTGGTGCTAAAGTTGAGTATGATTTTGGAAGGGTGAGAGTTTTTGGTGAAAGATCAGCTGGATCAAATAAAAGGATCCGTTTCAATGTAAAGTATCAAGTTCCATCACATTGTGATATTGGCAATATTAAAGGTAAGATTGATGGAAAAATTGTCACAATCACAATGCCAAATATTCCAGGTAGTGTCCCCCAACCAGAAGAAGAACCAGTTGAAGAAAATAATAATAAAGCTGATGAGGTAAATGATCAAAAGGATCAACAAAACACTTCTGTTCAAGATCCTAAATCAAATGTTGAAAGTAAAGAAGATGCTACCCCACAGGATGCTCAAAAAGTTCAAGAAGAAAATTCTCAAAAAGATCAAGTTGCAAAAGTTGATAGCAAAGGAGAGACTTATCATGAGACTTCAACTTCACAAGAAGCCACACAAGAGTCTTTACCTCAAAAGGATCAAGAAGAAATTTCACAAAAAGAGTCTTTACCTCAAAAGGGCCAAGAAGAAATTTCTCAAAAAGAGTCTTTACCTCAAAAGGGTCAAGAAGAAATTTCTCAAAAAACTCAAGTTACAAAAGTTGAGAGTAAGGAAAATGCTCATCAAGAGACTTCAACTCAATCAGAAGGTACACATGAGTCTAAACCTCAAAAGGGTCAAGATCAAGGAATTCAAAATAAACCTACAGATACAAAAGATGCAAAACTTCAAACAGAAGAAAGTGTAAAAGATGAGAATAAGGAAAAACAAATGGTTGTAAAAGAAGAAACTAAGGATCATCTTAAGAAAGCTATAGAAACAGTAAAGTCACATGTGGTAGATGATTCTTACCCTACACTTGAAAGGAAAACCAAGGACGAAAGCAAAGGATCTGCCACAGTTGAAACTTTTCCTCCAATGAAAACATACAAAGAGAAGGGAAAGGAAATCATCAATGATAAATTTGGTGATCATGATGAGAAAAAGATTCTTGATTCAACAAGGACAAGAATCAAAGACATGGCTTTATCCACTACTCAAGCTGTAACTAGTTATGCAAAGAGGTTCAGTGAAGAAGATAAACAAAAGCTAATATACACTGGTGCAACAATTCTTGTGGTTGCACTTGGTGTTTATGCTTCCTACAAGTATCGTTCTTCGCGTAGAGCATAG

Protein sequence

>Msa0346060

MATLQSYDYEDVHPVIEKKNTPDSHLLIVQIPDGFARGDIGAKVEYDFGRVRVFGERSAGSNKRIRFNVKYQVPSHCDIGNIKGKIDGKIVTITMPNIPGSVPQPEEEPVEENNNKADEVNDQKDQQNTSVQDPKSNVESKEDATPQDAQKVQEENSQKDQVAKVDSKGETYHETSTSQEATQESLPQKDQEEISQKESLPQKGQEEISQKESLPQKGQEEISQKTQVTKVESKENAHQETSTQSEGTHESKPQKGQDQGIQNKPTDTKDAKLQTEESVKDENKEKQMVVKEETKDHLKKAIETVKSHVVDDSYPTLERKTKDESKGSATVETFPPMKTYKEKGKEIINDKFGDHDEKKILDSTRTRIKDMALSTTQAVTSYAKRFSEEDKQKLIYTGATILVVALGVYASYKYRSSRRA*