AlfalfaGEDB | Msa0065540

M. sativa cultivar zhongmu-4 / Msa0065540

KEGG: K21554
GO: -
PFAM: PF02362.24

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
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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
Msa0065540	A0A072VGK8	81.183	372	33	3	1	372	1	335	0.0	548

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TFs/TRs:

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Gene ID	Type	Classification
Msa0065540	TF	B3

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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
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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
Msa0065540	MtrunA17_Chr1g0169171	80.236	339	30	3	34	372	1	302	7.58e-174	486
Msa0065540	MtrunA17_Chr1g0169081	57.412	371	107	5	4	371	1	323	2.61e-128	371
Msa0065540	MtrunA17_Chr1g0169161	68.391	174	54	1	198	371	161	333	1.11e-82	255
Msa0065540	MtrunA17_Chr3g0125151	81.600	125	21	1	246	370	1	123	4.07e-71	218
Msa0065540	MtrunA17_Chr3g0125161	78.788	132	28	0	2	133	13	144	1.10e-63	200

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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 74 sgRNAs with CRISPR-Local

Find 143 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAATCAATTGAAATGCTAA+GGG	0.582870	1_2:+28045063	Msa0065540:CDS
AAAGAAGCACTCTGATAGAA+TGG	0.512843	1_2:+28043425	Msa0065540:CDS
AAAGATGAAGGTGATGGACG+AGG	0.565087	1_2:+28043872	Msa0065540:CDS
AAATAAAGTTTGTTGCCGAT+AGG	0.559250	1_2:-28043726	None:intergenic
AAGAACTAAACCAATATGTT+TGG	0.413033	1_2:-28044461	None:intergenic
AAGAAGTTAGGGAACTCCTT+GGG	0.485576	1_2:-28043387	None:intergenic
AAGGAAGATGCAGATGCTGA+GGG	0.629715	1_2:-28042444	None:intergenic
AAGGAATAAAGGAGATGGAA+AGG	0.528969	1_2:+28044154	Msa0065540:CDS
AATAAAGTTTGTTGCCGATA+GGG	0.473847	1_2:-28043725	None:intergenic
AATTATGACTAACATTCCCA+AGG	0.667042	1_2:+28043371	Msa0065540:exon

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
ACCAAAACTCAATATTCCAA+AGG	+	chr1_2:28042470-28042489	Msa0065540:five_prime_UTR	30.0%
AACAGACCATGTAAATTAAG+AGG	-	chr1_2:28042526-28042545	None:intergenic	30.0%
CATTTACCTTGTGAAGAAAA+TGG	-	chr1_2:28042577-28042596	None:intergenic	30.0%
GTGAACAAGAAGAAATAAAG+AGG	-	chr1_2:28042628-28042647	None:intergenic	30.0%
AGAACAAAATGTATGTTGGA+AGG	-	chr1_2:28042669-28042688	None:intergenic	30.0%
AGGAAGAACAAAATGTATGT+TGG	-	chr1_2:28042673-28042692	None:intergenic	30.0%
TGATGTATTGAAGTGAGAAA+AGG	-	chr1_2:28042693-28042712	None:intergenic	30.0%
TATTATGAGAAACACTTGTG+TGG	+	chr1_2:28042803-28042822	Msa0065540:intron	30.0%
ATAAGTGAGAAAATCTTGTG+TGG	-	chr1_2:28042979-28042998	None:intergenic	30.0%
TGGGAATGTTAGTCATAATT+TGG	-	chr1_2:28043371-28043390	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_2	gene	28042447	28045108	28042447	ID=Msa0065540;Name=Msa0065540
chr1_2	mRNA	28042447	28045108	28042447	ID=Msa0065540-mRNA-1;Parent=Msa0065540;Name=Msa0065540-mRNA-1;_AED=0.13;_eAED=0.15;_QI=56\|0.4\|0.33\|1\|0.8\|0.83\|6\|0\|372
chr1_2	exon	28042447	28042491	28042447	ID=Msa0065540-mRNA-1:exon:9634;Parent=Msa0065540-mRNA-1
chr1_2	exon	28043364	28043446	28043364	ID=Msa0065540-mRNA-1:exon:9635;Parent=Msa0065540-mRNA-1
chr1_2	exon	28043621	28044224	28043621	ID=Msa0065540-mRNA-1:exon:9636;Parent=Msa0065540-mRNA-1
chr1_2	exon	28044348	28044472	28044348	ID=Msa0065540-mRNA-1:exon:9637;Parent=Msa0065540-mRNA-1
chr1_2	exon	28044666	28044743	28044666	ID=Msa0065540-mRNA-1:exon:9638;Parent=Msa0065540-mRNA-1
chr1_2	exon	28044869	28045108	28044869	ID=Msa0065540-mRNA-1:exon:9639;Parent=Msa0065540-mRNA-1
chr1_2	five_prime_UTR	28042447	28042491	28042447	ID=Msa0065540-mRNA-1:five_prime_utr;Parent=Msa0065540-mRNA-1
chr1_2	five_prime_UTR	28043364	28043374	28043364	ID=Msa0065540-mRNA-1:five_prime_utr;Parent=Msa0065540-mRNA-1
chr1_2	CDS	28043375	28043446	28043375	ID=Msa0065540-mRNA-1:cds;Parent=Msa0065540-mRNA-1
chr1_2	CDS	28043621	28044224	28043621	ID=Msa0065540-mRNA-1:cds;Parent=Msa0065540-mRNA-1
chr1_2	CDS	28044348	28044472	28044348	ID=Msa0065540-mRNA-1:cds;Parent=Msa0065540-mRNA-1
chr1_2	CDS	28044666	28044743	28044666	ID=Msa0065540-mRNA-1:cds;Parent=Msa0065540-mRNA-1
chr1_2	CDS	28044869	28045108	28044869	ID=Msa0065540-mRNA-1:cds;Parent=Msa0065540-mRNA-1

Gene Sequence

>Msa0065540

ATGACTAACATTCCCAAGGAGTTCCCTAACTTCTTCAAAGTCTTCCTCACAAAGAAGCACTCTGATAGAATGCTTATCCCAACGGCTTTTGTGAAGCTGATGCTTTCAAAACAAAGGCTGTTGAAGGATTTTATCCTAAGAGATCATAGAGGAAGTGATTGGCATGTCAAAGTGCGCCCTATCGGCAACAAACTTTATTTTGATGATGGTTGGAAACTATTTAGAGAAGAAAATTCTTTAGAGAACAATGACTTCCTTGTTTTCACACACATTGAAAACAATGTATTCAAGTTCAAAATCCTTGAACTATCCTCAATGTGTGAAAAGATGAAGGTGATGGACGAGGAGGAAAATACTAATACGATGGAGGATGAGGAAGAGGAAGATGGTGATGATGATTATGATAATCATGATGATGATGATTACACAATGGTAGAGGAAGAAGATGGTGATGATAACGATGACATTGATGAGGAGAAGGATGAGGATGATGTTCATGATGATGATGATTACACAATGGTAGATGAAGAAGAAGATGGTGATGATAACGATGATGTTGATGAGGAGGAGGACGAGAATGTTGCTGATATAATAATGAAAGAAAAAAGGAATAAAGGAGATGGAAAGGGAATCAGCAGAAGTTGTGAACATCAACATTGTAGAAGCTCCAAAACATGGAGCATTGGAAGTAGCTCTGCAGCTCCAAATCTTGAAGATGATGAAATTGATGCTGAAATGTATATTCAGCCAGGAAATCCATACTTCTATGCAAAACAATATGACAACAGACCAAACATATTGAATATTTCGAAGAATGTCATCAAGGATTTCTGCCTTTGCTTTACAAAACATATCACCCTTGTATGTTGCCACTGCAAGGATGTTCAAAGTAACGGAATAGCAGCCTATCATCATGTATTGCCGCAAATGAGCACAAAACATATTGAAAAGAGAGGAGAAATACGTAAATGGAAAGATGGCCGAGTATTTGTGCGAGGGTGGGAAGATTTCTGCAGAAAGAGCAAGATCACAGAAAATGATAGATGTTTGTGTGAACTTGTGTTGCATGAAGGAAAATCAATTGAAATGCTAAGGGTGCACGTTGTTAGGGAGAAATGA

Protein sequence

>Msa0065540

MTNIPKEFPNFFKVFLTKKHSDRMLIPTAFVKLMLSKQRLLKDFILRDHRGSDWHVKVRPIGNKLYFDDGWKLFREENSLENNDFLVFTHIENNVFKFKILELSSMCEKMKVMDEEENTNTMEDEEEEDGDDDYDNHDDDDYTMVEEEDGDDNDDIDEEKDEDDVHDDDDYTMVDEEEDGDDNDDVDEEEDENVADIIMKEKRNKGDGKGISRSCEHQHCRSSKTWSIGSSSAAPNLEDDEIDAEMYIQPGNPYFYAKQYDNRPNILNISKNVIKDFCLCFTKHITLVCCHCKDVQSNGIAAYHHVLPQMSTKHIEKRGEIRKWKDGRVFVRGWEDFCRKSKITENDRCLCELVLHEGKSIEMLRVHVVREK*