AlfalfaGEDB | Msa0080200

M. sativa cultivar zhongmu-4 / Msa0080200

KEGG: -
GO: -
PFAM: PF00436.28

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
Msa0080200	XP_003591190.1	99.528	212	1	0	1	212	1	212	1.15e-154	437

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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
Msa0080200	sp\|Q84J78\|SSBP_ARATH	64.623	212	64	1	1	212	1	201	4.09e-95	278

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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
Msa0080200	G7I9F0	99.528	212	1	0	1	212	1	212	5.50e-155	437

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TFs/TRs:

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Gene ID	Type	Classification
No data available in table

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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
Msa0003780	Msa0080200	0.818302	2.104272e-52	-8.615850e-47
Msa0011960	Msa0080200	0.854820	9.542159e-62	-8.615850e-47
Msa0012240	Msa0080200	0.809482	1.851685e-50	-8.615850e-47
Msa0025730	Msa0080200	0.843596	1.271679e-58	-8.615850e-47
Msa0027260	Msa0080200	0.833340	5.641228e-56	-8.615850e-47
Msa0029270	Msa0080200	0.856998	2.200885e-62	-8.615850e-47
Msa0032090	Msa0080200	0.840131	1.045691e-57	-8.615850e-47
Msa0032430	Msa0080200	0.822029	2.947382e-53	-8.615850e-47
Msa0032580	Msa0080200	0.941343	4.906891e-101	-8.615850e-47
Msa0033110	Msa0080200	0.810452	1.144820e-50	-8.615850e-47

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PPI

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Gene1	Gene2	Type
No data available in table

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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
Msa0080200	MtrunA17_Chr1g0192461	99.528	212	1	0	1	212	1	212	1.06e-158	437
Msa0080200	MtrunA17_Chr4g0062401	37.838	111	56	2	70	174	96	199	3.00e-20	85.5

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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
Msa0080200	AT4G11060.1	64.623	212	64	1	1	212	1	201	4.16e-96	278
Msa0080200	AT3G18580.1	34.328	134	82	1	81	208	79	212	5.05e-25	97.8

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Find 71 sgRNAs with CRISPR-Local

Find 245 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACTTCGCCTCATCAGGAG+TGG	0.617457	1_2:-58445916	Msa0080200:CDS
AACACCCTGCAGCTGTAACT+CGG	0.490793	1_2:+58449107	None:intergenic
AACTGCAACAACTTCTTGCA+AGG	0.494380	1_2:+58449541	None:intergenic
AAGGCCCGAGTTACAGCTGC+AGG	0.468832	1_2:-58449112	Msa0080200:CDS
AATGTGACCATCTTTACAGT+TGG	0.540656	1_2:-58447946	Msa0080200:CDS
ACACCCTGCAGCTGTAACTC+GGG	0.523237	1_2:+58449108	None:intergenic
ACCATCTTTACAGTTGGAAC+GGG	0.406475	1_2:-58447940	Msa0080200:CDS
ACGAAATCCCCAACCTCTAC+TGG	0.367940	1_2:+58449080	None:intergenic
ACTGCAACAACTTCTTGCAA+GGG	0.583777	1_2:+58449542	None:intergenic
AGAAGAGCGTCGAAGATGCT+TGG	0.484612	1_2:+58449479	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TTCATGGACCTAACAATATT+GGG	+	chr1_2:58445442-58445461	None:intergenic	30.0%
ATTCATGGACCTAACAATAT+TGG	+	chr1_2:58445443-58445462	None:intergenic	30.0%
ATAGAAGCTAATTTCAACCT+GGG	+	chr1_2:58446474-58446493	None:intergenic	30.0%
AATAGAAGCTAATTTCAACC+TGG	+	chr1_2:58446475-58446494	None:intergenic	30.0%
TTAACTTCTAGTCTATGGAA+TGG	+	chr1_2:58446613-58446632	None:intergenic	30.0%
TTCGATTAACTTCTAGTCTA+TGG	+	chr1_2:58446618-58446637	None:intergenic	30.0%
ACATAAAATAAGATCCAGTC+TGG	+	chr1_2:58446644-58446663	None:intergenic	30.0%
TAACATGTCATTAGAAGCAA+AGG	+	chr1_2:58446959-58446978	None:intergenic	30.0%
TCAAAACAGGCAATTATTTG+TGG	-	chr1_2:58447027-58447046	Msa0080200:intron	30.0%
GCAATTATTTGTGGTAAAGT+TGG	-	chr1_2:58447036-58447055	Msa0080200:intron	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_2	gene	58445400	58449664	58445400	ID=Msa0080200;Name=Msa0080200
chr1_2	mRNA	58445400	58449664	58445400	ID=Msa0080200-mRNA-1;Parent=Msa0080200;Name=Msa0080200-mRNA-1;_AED=0.05;_eAED=0.05;_QI=138\|1\|1\|1\|0.8\|0.66\|6\|287\|212
chr1_2	exon	58445400	58445703	58445400	ID=Msa0080200-mRNA-1:exon:18723;Parent=Msa0080200-mRNA-1
chr1_2	exon	58445881	58445940	58445881	ID=Msa0080200-mRNA-1:exon:18722;Parent=Msa0080200-mRNA-1
chr1_2	exon	58447638	58447738	58447638	ID=Msa0080200-mRNA-1:exon:18721;Parent=Msa0080200-mRNA-1
chr1_2	exon	58447820	58448028	58447820	ID=Msa0080200-mRNA-1:exon:18720;Parent=Msa0080200-mRNA-1
chr1_2	exon	58449068	58449267	58449068	ID=Msa0080200-mRNA-1:exon:18719;Parent=Msa0080200-mRNA-1
chr1_2	exon	58449475	58449664	58449475	ID=Msa0080200-mRNA-1:exon:18718;Parent=Msa0080200-mRNA-1
chr1_2	five_prime_UTR	58449527	58449664	58449527	ID=Msa0080200-mRNA-1:five_prime_utr;Parent=Msa0080200-mRNA-1
chr1_2	CDS	58449475	58449526	58449475	ID=Msa0080200-mRNA-1:cds;Parent=Msa0080200-mRNA-1
chr1_2	CDS	58449068	58449267	58449068	ID=Msa0080200-mRNA-1:cds;Parent=Msa0080200-mRNA-1
chr1_2	CDS	58447820	58448028	58447820	ID=Msa0080200-mRNA-1:cds;Parent=Msa0080200-mRNA-1
chr1_2	CDS	58447638	58447738	58447638	ID=Msa0080200-mRNA-1:cds;Parent=Msa0080200-mRNA-1
chr1_2	CDS	58445881	58445940	58445881	ID=Msa0080200-mRNA-1:cds;Parent=Msa0080200-mRNA-1
chr1_2	CDS	58445687	58445703	58445687	ID=Msa0080200-mRNA-1:cds;Parent=Msa0080200-mRNA-1
chr1_2	three_prime_UTR	58445400	58445686	58445400	ID=Msa0080200-mRNA-1:three_prime_utr;Parent=Msa0080200-mRNA-1

Gene Sequence

>Msa0080200

ATGAATTCTGTTGCGCTAAGACTTTCCAAGCATCTTCGACGCTCTTCTCACGCTTCTGTTCCAAGAAGCGCGGTGTTATGCTACTCAACATTTACGTCTGAAACTGATGCTGGTCAGCCTTCACGTGATAATAATGGGCTAAACAAGGAAGAATTAGATGATGAGTTTGATGATTTCCTTGGTGGAAGGCCCGAGTTACAGCTGCAGGGTGTTGATCCCAGTAGAGGTTGGGGATTTCGTGGTGTGCACAAGGCAATTATTTGTGGTAAAGTTGGCCAAGCTCCTGTACAGAAGATATTAAGGAATGGGAAGAATGTGACCATCTTTACAGTTGGAACGGGGGGGATGTATGACCAGAGAATTGTAGGATCAAAGGATTTGCCTAAACCTGCTCAGTGGCATCGCATTGCGGTGCATAATGAAGTACTAGGGGCTTATGCAGTCCAACAACTTTTTAAAAATTCTTCAGTGTATGTTGAGGGTGAAATTGAGACTAGAGTTTATAATGATAGTATTAATGGTGAAGTCAAAAGCATTCCAGAGATATGCGTTCGTCGTGATGGGAAACTTCGCCTCATCAGGAGTGGAGAGAGCGTTGATAAAACTTCCTTGGATGAATTTAGAGAGGGTTTGTTTTAG

Protein sequence

>Msa0080200

MNSVALRLSKHLRRSSHASVPRSAVLCYSTFTSETDAGQPSRDNNGLNKEELDDEFDDFLGGRPELQLQGVDPSRGWGFRGVHKAIICGKVGQAPVQKILRNGKNVTIFTVGTGGMYDQRIVGSKDLPKPAQWHRIAVHNEVLGAYAVQQLFKNSSVYVEGEIETRVYNDSINGEVKSIPEICVRRDGKLRLIRSGESVDKTSLDEFREGLF*