AlfalfaGEDB | MS.gene061106

M. sativa cultivar XinJiangDaYe / MS.gene061106

KEGG: -
GO: -
PFAM: PF03107.19

Nr:

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
MS.gene061106.t1	XP_003589678.1	98.6	146	2	0	1	146	168	313	4.20E-60	240.7

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.gene061106.t1	G7IA18	98.6	146	2	0	1	146	168	313	3.0e-60	240.7

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network:

Gene1	Gene2	correlation coefficient	p_value	FDR
MS.gene061106	MS.gene24290	0.80494	1.70E-49	-1.69E-46
MS.gene061106	MS.gene26954	0.812694	3.73E-51	-1.69E-46
MS.gene061106	MS.gene57640	-0.811444	6.98E-51	-1.69E-46
MS.gene061106	MS.gene63549	0.977219	2.41E-143	-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.gene061106.t1	MTR_1g034960	98.630	146	2	0	1	146	168	313	6.32e-103	297

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
MS.gene061106.t1	AT1G20990	50.467	107	50	3	42	145	209	315	2.99e-28	106

Find 36 sgRNAs with CRISPR-Local

Find 37 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TGTGCTAAGAATAAAGTTAA+TGG	0.247808	1.4:-19496971	MS.gene061106:CDS
CAAGTTGTGATTGAATTTAT+TGG	0.281922	1.4:-19496878	MS.gene061106:CDS
TGAAGGTATTGGTGAAAGTA+TGG	0.294851	1.4:-19496846	MS.gene061106:CDS
TAGAGTTCCATTTCCTCCTT+TGG	0.301378	1.4:+19496799	None:intergenic
GTCTTCAAGCTAATGGTATT+AGG	0.329280	1.4:-19496949	MS.gene061106:CDS
TTGAGAGTGTGTGGATGATT+TGG	0.350556	1.4:+19497133	None:intergenic
GGTGGGTTTGTTGAAGGTAT+TGG	0.358236	1.4:-19496857	MS.gene061106:CDS
AATATTACCAAAGGAGGAAA+TGG	0.372011	1.4:-19496806	MS.gene061106:CDS
ATCGGTGTTTGTTGCGGCCC+CGG	0.388093	1.4:+19497087	None:intergenic
TGAGAGTGTGTGGATGATTT+GGG	0.389020	1.4:+19497134	None:intergenic
GTTAATGGTCTTCAAGCTAA+TGG	0.394008	1.4:-19496956	MS.gene061106:CDS
GAGTGCAAGAAACGAAGGTC+GGG	0.467602	1.4:-19497040	MS.gene061106:CDS
AGTAGTATTATTATTAGCAC+TGG	0.474464	1.4:+19496775	None:intergenic
TTCAATTTCTGTGTTGAGCA+TGG	0.482378	1.4:+19497159	None:intergenic
GTTTGTTGCGGCCCCGGTGG+TGG	0.489625	1.4:+19497093	None:intergenic
TTTATTGGTGGGTTTGTTGA+AGG	0.497338	1.4:-19496863	MS.gene061106:CDS
CACATTCAACAACCACCACC+GGG	0.505441	1.4:-19497105	MS.gene061106:CDS
CTTGTTCAAAATATTACCAA+AGG	0.523980	1.4:-19496815	MS.gene061106:CDS
AACGATCGTGTTGGAAAGAT+CGG	0.526444	1.4:+19497069	None:intergenic
ACACATTCAACAACCACCAC+CGG	0.526885	1.4:-19497106	MS.gene061106:CDS
GTTCAAAATATTACCAAAGG+AGG	0.564880	1.4:-19496812	MS.gene061106:CDS
GCAGCAGCAGAAAGAACACT+TGG	0.575529	1.4:+19496914	None:intergenic
CTCGTTGCAAACGATCGTGT+TGG	0.577724	1.4:+19497060	None:intergenic
GGAAAGATCGGTGTTTGTTG+CGG	0.583663	1.4:+19497081	None:intergenic
TGTGTAAGTTTGAGAGTGTG+TGG	0.589605	1.4:+19497124	None:intergenic
GAAGGTATTGGTGAAAGTAT+GGG	0.605206	1.4:-19496845	MS.gene061106:CDS
GTTGTGATTGAATTTATTGG+TGG	0.605324	1.4:-19496875	MS.gene061106:CDS
GGGGAAAGTGTATCGGTGCA+CGG	0.605648	1.4:-19497020	MS.gene061106:CDS
TTGTGATTGAATTTATTGGT+GGG	0.605849	1.4:-19496874	MS.gene061106:CDS
GAAGGTCGGGGAAAGTGTAT+CGG	0.622440	1.4:-19497027	MS.gene061106:CDS
CGAGTGCAAGAAACGAAGGT+CGG	0.625441	1.4:-19497041	MS.gene061106:CDS
GGTGTTTGTTGCGGCCCCGG+TGG	0.636946	1.4:+19497090	None:intergenic
AGTGCAAGAAACGAAGGTCG+GGG	0.650929	1.4:-19497039	MS.gene061106:CDS
GTGTTGAGCATGGCACAACA+TGG	0.659309	1.4:+19497169	None:intergenic
GCAACGAGTGCAAGAAACGA+AGG	0.666806	1.4:-19497045	MS.gene061106:CDS
ACATTCAACAACCACCACCG+GGG	0.748062	1.4:-19497104	MS.gene061106:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!	AGTAGTATTATTATTAGCAC+TGG	+	chr1.4:19497160-19497179	None:intergenic	25.0%
!	CAAGTTGTGATTGAATTTAT+TGG	-	chr1.4:19497054-19497073	MS.gene061106:CDS	25.0%
!	CTTGTTCAAAATATTACCAA+AGG	-	chr1.4:19497117-19497136	MS.gene061106:CDS	25.0%
!	TGTGCTAAGAATAAAGTTAA+TGG	-	chr1.4:19496961-19496980	MS.gene061106:CDS	25.0%
!	TTGTGATTGAATTTATTGGT+GGG	-	chr1.4:19497058-19497077	MS.gene061106:CDS	25.0%
	AATATTACCAAAGGAGGAAA+TGG	-	chr1.4:19497126-19497145	MS.gene061106:CDS	30.0%
	GTTCAAAATATTACCAAAGG+AGG	-	chr1.4:19497120-19497139	MS.gene061106:CDS	30.0%
	GTTGTGATTGAATTTATTGG+TGG	-	chr1.4:19497057-19497076	MS.gene061106:CDS	30.0%
	GTCTTCAAGCTAATGGTATT+AGG	-	chr1.4:19496983-19497002	MS.gene061106:CDS	35.0%
	GTTAATGGTCTTCAAGCTAA+TGG	-	chr1.4:19496976-19496995	MS.gene061106:CDS	35.0%
	TTCAATTTCTGTGTTGAGCA+TGG	+	chr1.4:19496776-19496795	None:intergenic	35.0%
!!	GAAAGAACACTTGGTTTTTC+AGG	+	chr1.4:19497012-19497031	None:intergenic	35.0%
!!	GAAGGTATTGGTGAAAGTAT+GGG	-	chr1.4:19497087-19497106	MS.gene061106:CDS	35.0%
!!	TGAAGGTATTGGTGAAAGTA+TGG	-	chr1.4:19497086-19497105	MS.gene061106:CDS	35.0%
!!	TTTATTGGTGGGTTTGTTGA+AGG	-	chr1.4:19497069-19497088	MS.gene061106:CDS	35.0%
	AACGATCGTGTTGGAAAGAT+CGG	+	chr1.4:19496866-19496885	None:intergenic	40.0%
	TAGAGTTCCATTTCCTCCTT+TGG	+	chr1.4:19497136-19497155	None:intergenic	40.0%
!	TGAGAGTGTGTGGATGATTT+GGG	+	chr1.4:19496801-19496820	None:intergenic	40.0%
!	TGTGTAAGTTTGAGAGTGTG+TGG	+	chr1.4:19496811-19496830	None:intergenic	40.0%
!	TTGAGAGTGTGTGGATGATT+TGG	+	chr1.4:19496802-19496821	None:intergenic	40.0%
	ACACATTCAACAACCACCAC+CGG	-	chr1.4:19496826-19496845	MS.gene061106:CDS	45.0%
!	GGAAAGATCGGTGTTTGTTG+CGG	+	chr1.4:19496854-19496873	None:intergenic	45.0%
!!	GGTGGGTTTGTTGAAGGTAT+TGG	-	chr1.4:19497075-19497094	MS.gene061106:CDS	45.0%
	ACATTCAACAACCACCACCG+GGG	-	chr1.4:19496828-19496847	MS.gene061106:CDS	50.0%
	AGTGCAAGAAACGAAGGTCG+GGG	-	chr1.4:19496893-19496912	MS.gene061106:CDS	50.0%
	CACATTCAACAACCACCACC+GGG	-	chr1.4:19496827-19496846	MS.gene061106:CDS	50.0%
	CGAGTGCAAGAAACGAAGGT+CGG	-	chr1.4:19496891-19496910	MS.gene061106:CDS	50.0%
	CTCGTTGCAAACGATCGTGT+TGG	+	chr1.4:19496875-19496894	None:intergenic	50.0%
	GAGTGCAAGAAACGAAGGTC+GGG	-	chr1.4:19496892-19496911	MS.gene061106:CDS	50.0%
	GCAACGAGTGCAAGAAACGA+AGG	-	chr1.4:19496887-19496906	MS.gene061106:CDS	50.0%
	GCAGCAGCAGAAAGAACACT+TGG	+	chr1.4:19497021-19497040	None:intergenic	50.0%
	GTGTTGAGCATGGCACAACA+TGG	+	chr1.4:19496766-19496785	None:intergenic	50.0%
!	GAAGGTCGGGGAAAGTGTAT+CGG	-	chr1.4:19496905-19496924	MS.gene061106:CDS	50.0%
!	GGGGAAAGTGTATCGGTGCA+CGG	-	chr1.4:19496912-19496931	MS.gene061106:CDS	55.0%
!	ATCGGTGTTTGTTGCGGCCC+CGG	+	chr1.4:19496848-19496867	None:intergenic	60.0%
!	GGTGTTTGTTGCGGCCCCGG+TGG	+	chr1.4:19496845-19496864	None:intergenic	70.0%
!	GTTTGTTGCGGCCCCGGTGG+TGG	+	chr1.4:19496842-19496861	None:intergenic	70.0%

Chromosome	Type	Strat	End	Strand	Name
chr1.4	gene	19496757	19497197	19496757	ID=MS.gene061106
chr1.4	mRNA	19496757	19497197	19496757	ID=MS.gene061106.t1;Parent=MS.gene061106
chr1.4	exon	19496757	19497197	19496757	ID=MS.gene061106.t1.exon1;Parent=MS.gene061106.t1
chr1.4	CDS	19496757	19497197	19496757	ID=cds.MS.gene061106.t1;Parent=MS.gene061106.t1

Gene Sequence

>MS.gene061106

ATGCATCCATGTTGTGCCATGCTCAACACAGAAATTGAATTCCCAAATCATCCACACACTCTCAAACTTACACATTCAACAACCACCACCGGGGCCGCAACAAACACCGATCTTTCCAACACGATCGTTTGCAACGAGTGCAAGAAACGAAGGTCGGGGAAAGTGTATCGGTGCACGGTGTGTAACTACAATCTTCATGCATTTTGTGCTAAGAATAAAGTTAATGGTCTTCAAGCTAATGGTATTAGGCTTCCTGAAAAACCAAGTGTTCTTTCTGCTGCTGCTAAAGTTGCTTCTCAAGTTGTGATTGAATTTATTGGTGGGTTTGTTGAAGGTATTGGTGAAAGTATGGGTGAAGTTCTTGTTCAAAATATTACCAAAGGAGGAAATGGAACTCTAACCAGTGCTAATAATAATACTACTACAAAACCTCGTAAATAA

Protein sequence

>MS.gene061106.t1

MHPCCAMLNTEIEFPNHPHTLKLTHSTTTTGAATNTDLSNTIVCNECKKRRSGKVYRCTVCNYNLHAFCAKNKVNGLQANGIRLPEKPSVLSAAAKVASQVVIEFIGGFVEGIGESMGEVLVQNITKGGNGTLTSANNNTTTKPRK