AlfalfaGEDB | MS.gene20009

M. sativa cultivar XinJiangDaYe / MS.gene20009

KEGG: -
GO: GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:1903506 GO:2000112 GO:2001141
PFAM: PF02671.24

Nr:

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
MS.gene20009.t1	KEH43393.1	89	73	8	0	7	79	1	73	4.30E-27	130.2

Swissprot:

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
MS.gene20009.t1	O48686	51.5	68	32	1	11	78	10	76	1.3e-11	70.1

Trembl:

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
MS.gene20009.t1	A0A072VPT4	89.0	73	8	0	7	79	1	73	3.1e-27	130.2

TFs/TRs:

Gene ID	Type	Classification
MS.gene20009.t1	TR	Others

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network:

Gene1	Gene2	correlation coefficient	p_value	FDR

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.gene20009.t1	MTR_1g091047	89.041	73	8	0	7	79	1	73	1.02e-40	128
MS.gene20009.t1	MTR_3g006150	63.077	65	22	2	15	78	90	153	1.08e-17	72.8
MS.gene20009.t1	MTR_8g062700	51.471	68	32	1	11	78	38	104	1.09e-17	75.9
MS.gene20009.t1	MTR_8g062700	51.471	68	32	1	11	78	38	104	1.09e-17	75.9
MS.gene20009.t1	MTR_5g036670	51.471	68	32	1	11	78	39	105	4.84e-17	73.9
MS.gene20009.t1	MTR_1g109550	53.731	67	29	2	12	78	13	77	1.22e-16	69.3
MS.gene20009.t1	MTR_3g006065	61.538	65	23	2	15	78	90	153	2.16e-16	69.7
MS.gene20009.t1	MTR_1g105010	47.222	72	37	1	8	79	9	79	5.60e-16	67.0
MS.gene20009.t1	MTR_6g008970	48.529	68	34	1	11	78	59	125	1.82e-15	69.7
MS.gene20009.t1	MTR_1g105960	50.000	62	30	1	17	78	3	63	2.38e-14	62.8
MS.gene20009.t1	MTR_1g100260	54.545	66	27	1	16	78	25	90	2.68e-14	63.2
MS.gene20009.t1	MTR_1g105955	49.180	61	30	1	18	78	98	157	7.14e-14	63.2
MS.gene20009.t1	MTR_1g105955	50.000	62	30	1	17	78	18	78	7.29e-14	63.2
MS.gene20009.t1	MTR_6g008995	46.875	64	33	1	15	78	37	99	5.13e-13	62.8
MS.gene20009.t1	MTR_7g013410	45.000	60	32	1	19	78	2	60	1.06e-12	59.3
MS.gene20009.t1	MTR_5g073430	44.595	74	39	2	5	77	2	74	1.47e-12	58.2
MS.gene20009.t1	MTR_3g006125	49.231	65	31	2	15	78	180	243	3.35e-12	59.7
MS.gene20009.t1	MTR_3g006125	48.101	79	38	3	2	79	77	153	6.23e-12	58.9
MS.gene20009.t1	MTR_8g062350	44.928	69	37	1	11	79	10	77	3.82e-12	58.9
MS.gene20009.t1	MTR_3g006185	44.000	75	40	2	5	78	88	161	5.02e-12	58.2
MS.gene20009.t1	MTR_3g006185	48.649	74	35	3	7	79	1	72	1.88e-11	56.6
MS.gene20009.t1	MTR_3g006105	48.438	64	31	2	15	77	99	161	2.26e-11	56.6
MS.gene20009.t1	MTR_3g006105	47.297	74	36	3	7	79	1	72	8.12e-11	55.1
MS.gene20009.t1	MTR_1g104940	44.444	72	38	2	9	79	7	77	3.37e-11	55.1
MS.gene20009.t1	MTR_1g093310	47.619	63	26	2	15	77	9	64	3.87e-11	53.9

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
MS.gene20009.t1	AT1G24190	51.471	68	32	1	11	78	10	76	2.96e-17	74.7
MS.gene20009.t1	AT1G24190	51.471	68	32	1	11	78	10	76	2.96e-17	74.7
MS.gene20009.t1	AT1G24190	51.471	68	32	1	11	78	10	76	2.96e-17	74.7
MS.gene20009.t1	AT1G70060	51.471	68	32	1	11	78	10	76	1.66e-16	72.8
MS.gene20009.t1	AT1G70060	51.471	68	32	1	11	78	10	76	1.66e-16	72.8
MS.gene20009.t1	AT3G01320	50.000	68	33	1	11	78	53	119	1.85e-16	72.4
MS.gene20009.t1	AT3G01320	50.000	68	33	1	11	78	53	119	1.85e-16	72.4
MS.gene20009.t1	AT1G59890	53.125	64	29	1	15	78	45	107	3.54e-16	71.6
MS.gene20009.t1	AT1G59890	53.125	64	29	1	15	78	45	107	3.55e-16	71.6
MS.gene20009.t1	AT1G59890	53.125	64	29	1	15	78	45	107	3.55e-16	71.6
MS.gene20009.t1	AT1G59890	53.125	64	29	1	15	78	45	107	3.55e-16	71.6
MS.gene20009.t1	AT5G15020	50.000	68	33	1	11	78	48	114	4.28e-16	71.6
MS.gene20009.t1	AT5G15020	50.000	68	33	1	11	78	48	114	4.45e-16	71.2
MS.gene20009.t1	AT1G10450	50.000	64	31	1	15	78	33	95	2.44e-14	66.6
MS.gene20009.t1	AT1G10450	50.000	64	31	1	15	78	33	95	2.44e-14	66.6
MS.gene20009.t1	AT1G10450	50.000	64	31	1	15	78	84	146	2.85e-14	66.2
MS.gene20009.t1	AT1G70030	44.928	69	37	1	11	79	18	85	3.16e-13	60.5
MS.gene20009.t1	AT5G15025	45.070	71	38	1	8	78	40	109	4.27e-13	60.1
MS.gene20009.t1	AT1G70030	44.928	69	37	1	11	79	18	85	8.79e-13	59.7
MS.gene20009.t1	AT1G70030	44.928	69	37	1	11	79	7	74	1.05e-12	59.7
MS.gene20009.t1	AT4G12020	47.619	63	31	2	15	77	308	368	5.74e-11	57.0
MS.gene20009.t1	AT4G12020	47.619	63	31	2	15	77	308	368	5.78e-11	57.0
MS.gene20009.t1	AT4G12020	47.619	63	31	2	15	77	308	368	5.78e-11	57.0
MS.gene20009.t1	AT4G12020	47.619	63	31	2	15	77	308	368	5.78e-11	57.0
MS.gene20009.t1	AT4G12020	47.619	63	31	2	15	77	308	368	5.78e-11	57.0
MS.gene20009.t1	AT4G12020	47.619	63	31	2	15	77	308	368	5.78e-11	57.0
MS.gene20009.t1	AT4G12020	47.619	63	31	2	15	77	241	301	5.78e-11	57.0
MS.gene20009.t1	AT4G12020	47.619	63	31	2	15	77	308	368	5.78e-11	57.0
MS.gene20009.t1	AT4G12020	47.619	63	31	2	15	77	308	368	5.78e-11	57.0
MS.gene20009.t1	AT4G12020	47.619	63	31	2	15	77	308	368	5.78e-11	57.0
MS.gene20009.t1	AT4G12020	47.619	63	31	2	15	77	308	368	5.78e-11	57.0

Find 15 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TTCCAGCCCTCAAATCTTTC+AGG	0.146764	1.4:-72553883	None:intergenic
AGGACATACAGATTTAATTC+TGG	0.276544	1.4:+72553955	MS.gene20009:CDS
AGAGTGAAGAAGCTGTTTAA+AGG	0.330293	1.4:+72553935	MS.gene20009:CDS
GGACATACAGATTTAATTCT+GGG	0.368970	1.4:+72553956	MS.gene20009:CDS
CTAGTTTATCGTGGCCGATT+AGG	0.401292	1.4:-72553793	None:intergenic
CTAATCGGCCACGATAAACT+AGG	0.408504	1.4:+72553794	MS.gene20009:CDS
TAAAACTCCTGAAAGATTTG+AGG	0.415830	1.4:+72553876	MS.gene20009:CDS
AAAACTCCTGAAAGATTTGA+GGG	0.424484	1.4:+72553877	MS.gene20009:CDS
CTCCTGAAAGATTTGAGGGC+TGG	0.459564	1.4:+72553881	MS.gene20009:CDS
AACTATGCAAATCAGTTCAA+TGG	0.478283	1.4:+72553647	None:intergenic
AAGATGAAGAACTTCCTAAT+CGG	0.484584	1.4:+72553779	MS.gene20009:intron
GGAAGAAGAACTGATATAAG+AGG	0.514625	1.4:+72553902	MS.gene20009:CDS
TAATCGGCCACGATAAACTA+GGG	0.576900	1.4:+72553795	MS.gene20009:CDS
CGATAAACTAGGGTTTCTCA+AGG	0.627978	1.4:+72553805	MS.gene20009:CDS
TGAGAAACCCTAGTTTATCG+TGG	0.656216	1.4:-72553802	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	TTGGTTTTATTATTTTGAAT+TGG	+	chr1.4:72553705-72553724	MS.gene20009:intron	15.0%
!!!	TTTTAACAAAATAGTTTTAG+AGG	+	chr1.4:72554100-72554119	MS.gene20009:intron	15.0%
!!	ATTTATGTCCATTATTTATG+TGG	+	chr1.4:72554166-72554185	MS.gene20009:intron	20.0%
!	AGAAAAAAGAAATTCCTTCA+AGG	-	chr1.4:72554253-72554272	None:intergenic	25.0%
!	TCGTTAATCCACATAAATAA+TGG	-	chr1.4:72554177-72554196	None:intergenic	25.0%
	AAAACTCCTGAAAGATTTGA+GGG	+	chr1.4:72553877-72553896	MS.gene20009:CDS	30.0%
	AAAAGTAGTTACTAACCAGT+TGG	-	chr1.4:72553998-72554017	None:intergenic	30.0%
	AAGATGAAGAACTTCCTAAT+CGG	+	chr1.4:72553779-72553798	MS.gene20009:intron	30.0%
	AGGACATACAGATTTAATTC+TGG	+	chr1.4:72553955-72553974	MS.gene20009:CDS	30.0%
	ATATACGTATTGTATTGCTG+TGG	+	chr1.4:72554225-72554244	MS.gene20009:intron	30.0%
	GGACATACAGATTTAATTCT+GGG	+	chr1.4:72553956-72553975	MS.gene20009:CDS	30.0%
	TAAAACTCCTGAAAGATTTG+AGG	+	chr1.4:72553876-72553895	MS.gene20009:CDS	30.0%
	TAACATGATGAACAACTACA+TGG	-	chr1.4:72554201-72554220	None:intergenic	30.0%
!	TTCAAAATTTTCGTTCCAAC+TGG	+	chr1.4:72553980-72553999	MS.gene20009:CDS	30.0%
	AGAAATAAATCGAGTGAAGG+AGG	-	chr1.4:72553686-72553705	None:intergenic	35.0%
	AGAGTGAAGAAGCTGTTTAA+AGG	+	chr1.4:72553935-72553954	MS.gene20009:CDS	35.0%
	CCAAGAAATAAATCGAGTGA+AGG	-	chr1.4:72553689-72553708	None:intergenic	35.0%
	GGAAGAAGAACTGATATAAG+AGG	+	chr1.4:72553902-72553921	MS.gene20009:CDS	35.0%
	TGAACAAATGTGAAGTGCAA+TGG	-	chr1.4:72554022-72554041	None:intergenic	35.0%
!	CCTTCACTCGATTTATTTCT+TGG	+	chr1.4:72553686-72553705	MS.gene20009:intron	35.0%
	AATCGAGTGAAGGAGGATTA+AGG	-	chr1.4:72553679-72553698	None:intergenic	40.0%
	CGATAAACTAGGGTTTCTCA+AGG	+	chr1.4:72553805-72553824	MS.gene20009:CDS	40.0%
	TAATCGGCCACGATAAACTA+GGG	+	chr1.4:72553795-72553814	MS.gene20009:CDS	40.0%
	TGAGAAACCCTAGTTTATCG+TGG	-	chr1.4:72553805-72553824	None:intergenic	40.0%
	CTAATCGGCCACGATAAACT+AGG	+	chr1.4:72553794-72553813	MS.gene20009:CDS	45.0%
	CTAGTTTATCGTGGCCGATT+AGG	-	chr1.4:72553796-72553815	None:intergenic	45.0%
	GTATTGCTGTGGATCCTTGA+AGG	+	chr1.4:72554236-72554255	MS.gene20009:intron	45.0%
	TTCCAGCCCTCAAATCTTTC+AGG	-	chr1.4:72553886-72553905	None:intergenic	45.0%
	CTCCTGAAAGATTTGAGGGC+TGG	+	chr1.4:72553881-72553900	MS.gene20009:CDS	50.0%

Chromosome	Type	Strat	End	Strand	Name
chr1.4	gene	72553651	72554290	72553651	ID=MS.gene20009
chr1.4	mRNA	72553651	72554290	72553651	ID=MS.gene20009.t1;Parent=MS.gene20009
chr1.4	exon	72553651	72553668	72553651	ID=MS.gene20009.t1.exon1;Parent=MS.gene20009.t1
chr1.4	CDS	72553651	72553668	72553651	ID=cds.MS.gene20009.t1;Parent=MS.gene20009.t1
chr1.4	exon	72553782	72554001	72553782	ID=MS.gene20009.t1.exon2;Parent=MS.gene20009.t1
chr1.4	CDS	72553782	72554001	72553782	ID=cds.MS.gene20009.t1;Parent=MS.gene20009.t1
chr1.4	exon	72554286	72554290	72554286	ID=MS.gene20009.t1.exon3;Parent=MS.gene20009.t1
chr1.4	CDS	72554286	72554290	72554286	ID=cds.MS.gene20009.t1;Parent=MS.gene20009.t1

Gene Sequence

>MS.gene20009

ATGCAAATCAGTTCAATGGTATGCACCTTAATCCTCCTTCACTCGATTTATTTCTTGGTTTTATTATTTTGAATTGGAATTAGTAGTACTTAAACTGAATAATAATAATAATAATTTTGTGAACAATAAAGATGAAGAACTTCCTAATCGGCCACGATAAACTAGGGTTTCTCAAGGCAGTGAAAGCTGCATTTGAATATAACAGAATAAAGTATCATCAGTTTTTAAAACTCCTGAAAGATTTGAGGGCTGGAAGAAGAACTGATATAAGAGGTGTCATGACTAGAGTGAAGAAGCTGTTTAAAGGACATACAGATTTAATTCTGGGATTCAAAATTTTCGTTCCAACTGGTTAGTAACTACTTTTTCCATTGCACTTCACATTTGTTCACACTTTTCTGTTGTTTTTTCTTTGCTATATGCTTCTACATTATATCTTTATCTGCATCTTTTAACAAAATAGTTTTAGAGGAGCATTTTCTATGTGTAGTTATATTACTTACATTTGTTGAAATATTTATGTCCATTATTTATGTGGATTAACGAACCATGTAGTTGTTCATCATGTTAGTTTATATACGTATTGTATTGCTGTGGATCCTTGAAGGAATTTCTTTTTTCTTTTCTCTTTTTAGTGTGA

Protein sequence

>MS.gene20009.t1

MQISSMMKNFLIGHDKLGFLKAVKAAFEYNRIKYHQFLKLLKDLRAGRRTDIRGVMTRVKKLFKGHTDLILGFKIFVPTV