AlfalfaGEDB | MS.gene060654

M. sativa cultivar XinJiangDaYe / MS.gene060654

KEGG: -
GO: -
PFAM: -

Nr:

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
MS.gene060654.t1	KEH38590.1	83.3	78	13	0	1	78	1	78	8.20E-31	142.5

Swissprot:

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score

Trembl:

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
MS.gene060654.t1	A0A072VKA7	83.3	78	13	0	1	78	1	78	5.9e-31	142.5

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network:

Gene1	Gene2	correlation coefficient	p_value	FDR
MS.gene055952	MS.gene060654	0.802023	6.83E-49	-1.69E-46
MS.gene060654	MS.gene068308	0.804021	2.64E-49	-1.69E-46
MS.gene060654	MS.gene068494	0.804327	2.28E-49	-1.69E-46
MS.gene060654	MS.gene49642	0.853489	2.31E-61	-1.69E-46
MS.gene060654	MS.gene49643	0.849153	3.88E-60	-1.69E-46
MS.gene060654	MS.gene49651	0.833485	5.19E-56	-1.69E-46
MS.gene060654	MS.gene53827	0.803359	3.62E-49	-1.69E-46
MS.gene060654	MS.gene63897	0.806537	7.84E-50	-1.69E-46
MS.gene060654	MS.gene78453	0.810853	9.37E-51	-1.69E-46
MS.gene060654	MS.gene96324	0.815479	9.05E-52	-1.69E-46

PPI:

Gene1	Gene2	Type

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
MS.gene060654.t1	MTR_2g075235	83.333	78	13	0	1	78	1	78	6.52e-42	131
MS.gene060654.t1	MTR_2g075985	44.872	78	33	3	1	75	1	71	8.06e-11	52.8

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score

Find 13 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
CCCAAGCTTGTGCATTGTTT+TGG	0.286557	2.2:-16454541	MS.gene060654:CDS
AAGTGTGCAGGTCTAGATTT+AGG	0.373865	2.2:-16454487	MS.gene060654:CDS
ACCAAAACAATGCACAAGCT+TGG	0.431606	2.2:+16454540	None:intergenic
CCAAAACAATGCACAAGCTT+GGG	0.437976	2.2:+16454541	None:intergenic
GGTGGCACGACGTGTCCAAC+TGG	0.461368	2.2:-16454520	MS.gene060654:CDS
TGATCGCCTTGACAATGGCC+TGG	0.548419	2.2:+16454460	None:intergenic
AACATTGATCGCCTTGACAA+TGG	0.557949	2.2:+16454455	None:intergenic
CACTTCAGTATGCAACCAGT+TGG	0.567825	2.2:+16454505	None:intergenic
ACAAGCTTGGGAGTGAGACT+AGG	0.568533	2.2:+16454553	None:intergenic
GGTCAACCAGGCCATTGTCA+AGG	0.576506	2.2:-16454466	MS.gene060654:CDS
GGTTGCATACTGAAGTGTGC+AGG	0.627224	2.2:-16454499	MS.gene060654:CDS
GGTCTAGATTTAGGTCAACC+AGG	0.635168	2.2:-16454478	MS.gene060654:CDS
AAGTACACGATCAATGCATG+TGG	0.683510	2.2:+16454851	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	TTTGATCACTTTTTTAAAAA+TGG	+	chr2.2:16454613-16454632	None:intergenic	15.0%
!!	CAAAATATATATAAACCCAA+AGG	+	chr2.2:16454552-16454571	None:intergenic	20.0%
!!!	AAAAGTGATCAAATTTTGAA+TGG	-	chr2.2:16454620-16454639	MS.gene060654:intron	20.0%
!!!	AAAGTGATCAAATTTTGAAT+GGG	-	chr2.2:16454621-16454640	MS.gene060654:intron	20.0%
!	TACAATCAATAGATTAGAGA+GGG	+	chr2.2:16454690-16454709	None:intergenic	25.0%
!!	ATCATTTCAGTTTTACCTTT+GGG	-	chr2.2:16454534-16454553	MS.gene060654:CDS	25.0%
!!!	AAACTAGTAAATTTGTTACC+TGG	+	chr2.2:16454507-16454526	None:intergenic	25.0%
	CTACAATCAATAGATTAGAG+AGG	+	chr2.2:16454691-16454710	None:intergenic	30.0%
!	CTCTCTAATCTATTGATTGT+AGG	-	chr2.2:16454689-16454708	MS.gene060654:intron	30.0%
!	GAGAGGGTTATAAGAAATTT+TGG	+	chr2.2:16454674-16454693	None:intergenic	30.0%
!	GATCATTTCAGTTTTACCTT+TGG	-	chr2.2:16454533-16454552	MS.gene060654:CDS	30.0%
!	TCTAATCTATTGATTGTAGG+TGG	-	chr2.2:16454692-16454711	MS.gene060654:intron	30.0%
	AACATTGATCGCCTTGACAA+TGG	+	chr2.2:16454841-16454860	None:intergenic	40.0%
	AAGTACACGATCAATGCATG+TGG	+	chr2.2:16454445-16454464	None:intergenic	40.0%
	AAGTGTGCAGGTCTAGATTT+AGG	-	chr2.2:16454806-16454825	MS.gene060654:intron	40.0%
	ACCAAAACAATGCACAAGCT+TGG	+	chr2.2:16454756-16454775	None:intergenic	40.0%
	CCAAAACAATGCACAAGCTT+GGG	+	chr2.2:16454755-16454774	None:intergenic	40.0%
!!!	AAGCTTGTGCATTGTTTTGG+TGG	-	chr2.2:16454755-16454774	MS.gene060654:intron	40.0%
!!!	ATTGCTTCGATTTTGACTCC+AGG	-	chr2.2:16454486-16454505	MS.gene060654:CDS	40.0%
	CACTTCAGTATGCAACCAGT+TGG	+	chr2.2:16454791-16454810	None:intergenic	45.0%
	GGTCTAGATTTAGGTCAACC+AGG	-	chr2.2:16454815-16454834	MS.gene060654:CDS	45.0%
!	CCCAAGCTTGTGCATTGTTT+TGG	-	chr2.2:16454752-16454771	MS.gene060654:intron	45.0%
	ACAAGCTTGGGAGTGAGACT+AGG	+	chr2.2:16454743-16454762	None:intergenic	50.0%
	GGTTGCATACTGAAGTGTGC+AGG	-	chr2.2:16454794-16454813	MS.gene060654:intron	50.0%
	GGTCAACCAGGCCATTGTCA+AGG	-	chr2.2:16454827-16454846	MS.gene060654:CDS	55.0%
	TGATCGCCTTGACAATGGCC+TGG	+	chr2.2:16454836-16454855	None:intergenic	55.0%
	GGTGGCACGACGTGTCCAAC+TGG	-	chr2.2:16454773-16454792	MS.gene060654:intron	65.0%

Chromosome	Type	Strat	End	Strand	Name
chr2.2	gene	16454438	16454877	16454438	ID=MS.gene060654
chr2.2	mRNA	16454438	16454877	16454438	ID=MS.gene060654.t1;Parent=MS.gene060654
chr2.2	exon	16454808	16454877	16454808	ID=MS.gene060654.t1.exon1;Parent=MS.gene060654.t1
chr2.2	CDS	16454808	16454877	16454808	ID=cds.MS.gene060654.t1;Parent=MS.gene060654.t1
chr2.2	exon	16454438	16454604	16454438	ID=MS.gene060654.t1.exon2;Parent=MS.gene060654.t1
chr2.2	CDS	16454438	16454604	16454438	ID=cds.MS.gene060654.t1;Parent=MS.gene060654.t1

Gene Sequence

>MS.gene060654

ATGGCCACATGCATTGATCGTGTACTTTTTTTCATTGCAATCTTATGCATTGCTTCGATTTTGACTCCAGGTAACAAATTTACTAGTTTGATATAGATCATTTCAGTTTTACCTTTGGGTTTATATATATTTTGAGAAAATATGAATTTTATTCTTGAATGTTTTAACAATTCCATTTTTAAAAAAGTGATCAAATTTTGAATGGGTTAATCATATTCAATACTATGATGCATCCAAAATTTCTTATAACCCTCTCTAATCTATTGATTGTAGGTGGAGCAACAAATGAAGACAAATTCATTCCTAGTCTCACTCCCAAGCTTGTGCATTGTTTTGGTGGCACGACGTGTCCAACTGGTTGCATACTGAAGTGTGCAGGTCTAGATTTAGGTCAACCAGGCCATTGTCAAGGCGATCAATGTTGTTGTGCTGCAATATAA

Protein sequence

>MS.gene060654.t1

MATCIDRVLFFIAILCIASILTPGGATNEDKFIPSLTPKLVHCFGGTTCPTGCILKCAGLDLGQPGHCQGDQCCCAAI