AlfalfaGEDB | Msa0016870

M. sativa cultivar zhongmu-4 / Msa0016870

KEGG: -
GO: -
PFAM: PF00320.30

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
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TFs/TRs:

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Gene ID	Type	Classification
Msa0016870	TF	C2C2-GATA

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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
Msa0016870	MtrunA17_Chr5g0399781	51.852	54	25	1	3	56	12	64	1.43e-11	59.7
Msa0016870	MtrunA17_Chr4g0055611	66.667	36	12	0	3	38	12	47	7.05e-11	58.5

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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
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Find 20 sgRNAs with CRISPR-Local

Find 98 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AACAAAAGCTTCAAAGTCTA+TGG	0.184389	1_1:+27982674	Msa0016870:CDS
ACAAAAGCTTCAAAGTCTAT+GGG	0.556384	1_1:+27982675	Msa0016870:CDS
ATCAGACCTTGACGTTGAAA+AGG	0.465983	1_1:+27982153	Msa0016870:CDS
ATCGATTGTGAAGAATCAAA+TGG	0.491491	1_1:+27982642	Msa0016870:CDS
ATTTGATTCTTCACAATCGA+TGG	0.523804	1_1:-27982640	None:intergenic
CATAGTATTGGCTTCTCATA+CGG	0.490978	1_1:-27982052	None:intergenic
CCAAGCAATGAGATAGGCAT+TGG	0.496933	1_1:+27982769	Msa0016870:CDS
CCAATACTATGTAACGCTTG+TGG	0.608782	1_1:+27982064	Msa0016870:CDS
CCAATGCCTATCTCATTGCT+TGG	0.566560	1_1:-27982769	None:intergenic
CCACAAGCGTTACATAGTAT+TGG	0.448818	1_1:-27982064	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
ATGCTCTTATTGACAATGAA+AGG	-	chr1_1:27982407-27982426	None:intergenic	30.0%
TTCATTCAAAACCTAATACC+GGG	-	chr1_1:27982443-27982462	None:intergenic	30.0%
ACTCCACATTCATACATTTA+TGG	+	chr1_1:27982496-27982515	Msa0016870:intron	30.0%
ATTTGATTCTTCACAATCGA+TGG	-	chr1_1:27982643-27982662	None:intergenic	30.0%
ATCGATTGTGAAGAATCAAA+TGG	+	chr1_1:27982642-27982661	Msa0016870:CDS	30.0%
AACAAAAGCTTCAAAGTCTA+TGG	+	chr1_1:27982674-27982693	Msa0016870:CDS	30.0%
ACAAAAGCTTCAAAGTCTAT+GGG	+	chr1_1:27982675-27982694	Msa0016870:CDS	30.0%
ATGCTCTTATTGACAATGAA+AGG	-	chr1_1:27982407-27982426	None:intergenic	30.0%
TTCATTCAAAACCTAATACC+GGG	-	chr1_1:27982443-27982462	None:intergenic	30.0%
ACTCCACATTCATACATTTA+TGG	+	chr1_1:27982496-27982515	Msa0016870:intron	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_1	gene	27982016	27982837	27982016	ID=Msa0016870;Name=Msa0016870
chr1_1	mRNA	27982016	27982837	27982016	ID=Msa0016870-mRNA-1;Parent=Msa0016870;Name=Msa0016870-mRNA-1;_AED=0.45;_eAED=0.45;_QI=0\|0\|0\|1\|1\|1\|2\|0\|134
chr1_1	exon	27982016	27982214	27982016	ID=Msa0016870-mRNA-1:exon:9418;Parent=Msa0016870-mRNA-1
chr1_1	exon	27982632	27982837	27982632	ID=Msa0016870-mRNA-1:exon:9419;Parent=Msa0016870-mRNA-1
chr1_1	CDS	27982016	27982214	27982016	ID=Msa0016870-mRNA-1:cds;Parent=Msa0016870-mRNA-1
chr1_1	CDS	27982632	27982837	27982632	ID=Msa0016870-mRNA-1:cds;Parent=Msa0016870-mRNA-1

Gene Sequence

>Msa0016870

ATGGTTTTGACAGAAACTAAACTTTGGCGTAAAGGACCGTATGAGAAGCCAATACTATGTAACGCTTGTGGACTACATTTCAAGGCTAAAGGAACCCTTGATAACTATCTTCCGAAGACATCCCAACAAAATCAGTTATCAGACCTTGACGTTGAAAAGGAATCTGAAAGTGATCCCGAGCTTTCAAACCAATCTCCAGAAAGGACACCATCGATTGTGAAGAATCAAATGGAGGAGTTTCAACAAAAGCTTCAAAGTCTATGGGAATCTGAGAAAGAATCAAATGAATCATCTGCAGACAATATTTTGTTGTTTGATAATATGAACAACTGTATACCAAGCAATGAGATAGGCATTGGATGCACTCTACTGAAGACAGATGTTACTTCTAAAAAATCTGCATGA

Protein sequence

>Msa0016870

MVLTETKLWRKGPYEKPILCNACGLHFKAKGTLDNYLPKTSQQNQLSDLDVEKESESDPELSNQSPERTPSIVKNQMEEFQQKLQSLWESEKESNESSADNILLFDNMNNCIPSNEIGIGCTLLKTDVTSKKSA*