AlfalfaGEDB | Msa0020990

M. sativa cultivar zhongmu-4 / Msa0020990

KEGG: K13448
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
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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
Msa0020990	sp\|Q2QY10\|CBP_ORYSJ	54.945	182	43	6	24	199	38	186	9.92e-44	150

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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
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TFs/TRs:

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Gene ID	Type	Classification
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Protein Kinases:

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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0020970	Msa0020990	0.920595	1.048311e-87	-8.615850e-47
Msa0020990	Msa1147980	0.813446	2.549597e-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
Msa0020990	MtrunA17_Chr1g0172721	94.975	199	10	0	1	199	1	199	2.19e-128	363
Msa0020990	MtrunA17_Chr2g0321531	56.604	53	23	0	130	182	87	139	3.76e-15	72.0

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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
Msa0020990	AT3G10300.1	51.185	211	76	10	6	199	29	229	8.05e-43	144
Msa0020990	AT3G10300.3	51.691	207	81	9	6	199	29	229	5.98e-42	144
Msa0020990	AT3G10300.4	51.185	211	76	10	6	199	29	229	1.27e-41	143
Msa0020990	AT3G10300.2	51.905	210	76	10	6	199	29	229	1.37e-41	143
Msa0020990	AT3G10300.6	51.923	208	79	9	6	199	29	229	4.09e-41	143
Msa0020990	AT3G10300.5	52.709	203	71	10	6	192	29	222	5.80e-41	141
Msa0020990	AT5G04170.1	51.515	198	56	7	6	199	87	248	9.86e-38	134

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Find 104 sgRNAs with CRISPR-Local

Find 104 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAACCTAGTTTCACAAAAT+TGG	0.171856	1_1:+37026425	None:intergenic
AACACTAATGTCAAGAAGAT+TGG	0.446887	1_1:-37026473	Msa0020990:CDS
AACGGGCTTGCATACGCCGG+TGG	0.606292	1_1:+37026677	None:intergenic
AACTATGCTTGGATCGGTGC+CGG	0.438940	1_1:+37026625	None:intergenic
AAGCATAGTTGCATGCTTTC+AGG	0.288562	1_1:-37026612	Msa0020990:CDS
AAGGAAGACTCTCACTCCGC+CGG	0.637026	1_1:-37026722	Msa0020990:CDS
AATCTTCTTGACATTAGTGT+TGG	0.520354	1_1:+37026475	None:intergenic
ACGGAACTAGTGAAGCGAAC+GGG	0.538388	1_1:+37026660	None:intergenic
ACTATGCTTGGATCGGTGCC+GGG	0.531309	1_1:+37026626	None:intergenic
AGATGGAGGAGGGGCGCCGT+AGG	0.513785	1_1:+37026850	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AATCTTCTTGACATTAGTGT+TGG	+	chr1_1:37026986-37027005	None:intergenic	30.0%
AACACTAATGTCAAGAAGAT+TGG	-	chr1_1:37026985-37027004	Msa0020990:CDS	30.0%
TCGATGATAAAGAATTGCAG+AGG	-	chr1_1:37026896-37026915	Msa0020990:CDS	35.0%
CGATGATAAAGAATTGCAGA+GGG	-	chr1_1:37026897-37026916	Msa0020990:CDS	35.0%
TCACATCCACCATCATCATA+CGG	-	chr1_1:37026538-37026557	Msa0020990:CDS	40.0%
AAGCATAGTTGCATGCTTTC+AGG	-	chr1_1:37026846-37026865	Msa0020990:CDS	40.0%
CCAAATCAACCTCCCAGTTA+CGG	-	chr1_1:37026448-37026467	Msa0020990:CDS	45.0%
GCATGCAACTATGCTTGGAT+CGG	+	chr1_1:37026842-37026861	None:intergenic	45.0%
CATAGTTGCATGCTTTCAGG+TGG	-	chr1_1:37026849-37026868	Msa0020990:CDS	45.0%
CAACCTCCCAGTTACGGTTA+CGG	-	chr1_1:37026454-37026473	Msa0020990:CDS	50.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_1	gene	37026436	37027044	37026436	ID=Msa0020990;Name=Msa0020990
chr1_1	mRNA	37026436	37027044	37026436	ID=Msa0020990-mRNA-1;Parent=Msa0020990;Name=Msa0020990-mRNA-1;_AED=0.44;_eAED=0.44;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|202
chr1_1	exon	37026436	37027044	37026436	ID=Msa0020990-mRNA-1:exon:11630;Parent=Msa0020990-mRNA-1
chr1_1	CDS	37026436	37027044	37026436	ID=Msa0020990-mRNA-1:cds;Parent=Msa0020990-mRNA-1

Gene Sequence

>Msa0020990

ATGTCCGGCTACCCAAATCAACCTCCCAGTTACGGTTACGGCTACGGCACACCACCACCGTCCCAATCCTACGGCGCGCCACCTCCATCCCAATCTCACGGCTCACATCCACCATCATCATACGGTGCCCCTCCGCCATCTCAATCCCACGGCTCACATCCACCATCCCAACCCTACGGCGCCCCTCCTCCATCTCAATCCTACGGCGCACCACCGCCATCTCAGTCCTACGGTGCACCTCCCCCCACCTCCTACGGCCAACCCTCCGCTCCTTACGCTGCCCCTTACCAGAAACCACCAAAGGAAGACTCTCACTCCGCCGGCGGCGGTGGCGCTGCCTACCCACCACCGGCGTATGCAAGCCCGTTCGCTTCACTAGTTCCGTCGACATTCCCTCCCGGCACCGATCCAAGCATAGTTGCATGCTTTCAGGTGGCGGATCAAGATGGAAGTGGTTTGATCGATGATAAAGAATTGCAGAGGGCTTTGTCTTCTTACAATCAGAGCTTCAGTTTGAGAACTGTTCATCTTCTCATGTATCACTTCACCAACACTAATGTCAAGAAGATTGGTACGTACTTTTTCTCTTCATTCCTTCCAATTTTGTGA

Protein sequence

>Msa0020990

MSGYPNQPPSYGYGYGTPPPSQSYGAPPPSQSHGSHPPSSYGAPPPSQSHGSHPPSQPYGAPPPSQSYGAPPPSQSYGAPPPTSYGQPSAPYAAPYQKPPKEDSHSAGGGGAAYPPPAYASPFASLVPSTFPPGTDPSIVACFQVADQDGSGLIDDKELQRALSSYNQSFSLRTVHLLMYHFTNTNVKKIGTYFFSSFLPIL*