AlfalfaGEDB | MS.gene040903

M. sativa cultivar XinJiangDaYe / MS.gene040903

KEGG: -
GO: GO:0003674 GO:0003676 GO:0005488 GO:0097159 GO:1901363
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.gene040903.t1	XP_013466645.1	93	257	11	2	1	256	1	251	1.80E-127	465.3

Swissprot:

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
MS.gene040903.t1	Q39263	41.6	185	77	7	96	256	83	260	1.0e-25	118.6

Trembl:

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
MS.gene040903.t1	A0A072VGF6	93.0	257	11	2	1	256	1	251	1.3e-127	465.3

TFs/TRs:

Gene ID	Type	Classification
MS.gene040903.t1	TF	C2H2

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.gene040903.t1	MTR_1g033340	92.996	257	11	2	1	256	1	251	3.39e-179	492
MS.gene040903.t1	MTR_5g077370	43.726	263	107	10	6	256	4	237	1.77e-55	178
MS.gene040903.t1	MTR_3g065020	40.316	253	133	7	5	256	3	238	5.55e-55	177
MS.gene040903.t1	MTR_2g104900	66.234	77	21	2	96	167	81	157	2.61e-27	105
MS.gene040903.t1	MTR_1g013130	40.909	132	56	2	58	167	49	180	5.00e-24	97.4
MS.gene040903.t1	MTR_1g107055	34.595	185	96	8	41	217	8	175	2.31e-20	86.3
MS.gene040903.t1	MTR_3g106230	44.828	116	42	6	68	167	49	158	7.37e-20	85.5
MS.gene040903.t1	MTR_4g006575	55.556	72	24	2	96	167	67	130	5.76e-18	80.5
MS.gene040903.t1	MTR_4g006600	55.556	72	24	2	96	167	67	130	5.76e-18	80.5
MS.gene040903.t1	MTR_4g128340	52.632	76	32	2	96	169	45	118	2.25e-16	74.7
MS.gene040903.t1	MTR_7g086860	51.923	52	24	1	81	132	16	66	5.27e-12	62.4
MS.gene040903.t1	MTR_7g083210	69.697	33	10	0	96	128	39	71	2.91e-11	61.2

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
MS.gene040903.t1	AT1G66140	41.758	182	81	6	96	256	83	260	5.19e-37	131
MS.gene040903.t1	AT1G24625	40.000	210	86	9	54	256	33	209	4.20e-31	114
MS.gene040903.t1	AT1G80730	55.682	88	23	2	96	167	66	153	1.19e-23	95.9
MS.gene040903.t1	AT5G10970	54.321	81	33	2	90	167	96	175	9.83e-21	89.0
MS.gene040903.t1	AT5G25160	51.163	86	36	3	87	167	50	134	9.65e-20	85.5
MS.gene040903.t1	AT5G57520	51.515	66	32	0	96	161	50	115	1.41e-15	72.4
MS.gene040903.t1	AT5G14010	46.575	73	28	1	92	153	32	104	9.39e-15	70.5
MS.gene040903.t1	AT5G01860	57.500	40	17	0	96	135	65	104	2.29e-11	62.0

Find 47 sgRNAs with CRISPR-Local

Find 52 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TCAGCTTCCAAGTTCAAATT+TGG	0.203450	1.2:-17785309	None:intergenic
ATGAAGATGTCGGCGTATTT+TGG	0.224650	1.2:+17785904	MS.gene040903:CDS
GACATCAGAATGCTCATAAA+AGG	0.253068	1.2:+17785640	MS.gene040903:CDS
TTAGCTTCTTTACCTCTTCA+TGG	0.299313	1.2:+17785723	MS.gene040903:CDS
AGAAGTTGTGGCACTGTCTT+TGG	0.313022	1.2:-17785400	None:intergenic
TTTATCTGCCTGAAACTTCC+AGG	0.347691	1.2:-17785927	None:intergenic
AAATTCGAGAAAGATTGTTT+TGG	0.369690	1.2:+17785858	MS.gene040903:CDS
AGCTAAGCTTGTATACCTTT+CGG	0.370401	1.2:-17785706	None:intergenic
ACGATGATGGCATATGGTTT+TGG	0.377290	1.2:-17785794	None:intergenic
CCTATCCTGATCTTACTTTG+AGG	0.413927	1.2:+17786039	MS.gene040903:CDS
TCCTTCAAATCTTCATCGCT+CGG	0.430932	1.2:-17785486	None:intergenic
GCCGAGCGATGAAGATTTGA+AGG	0.434759	1.2:+17785485	MS.gene040903:CDS
CACAACTTCTTGTCTTACTA+AGG	0.439607	1.2:+17785413	MS.gene040903:CDS
TTCTTTAGCTCACAAGCGTT+AGG	0.463186	1.2:+17785615	MS.gene040903:CDS
TCGGCTCGAAGTTGAGAGTC+AGG	0.476212	1.2:-17785467	None:intergenic
GTAGTAGATGTTTGTTGAGG+AGG	0.483825	1.2:-17786017	None:intergenic
TCTTTCTCGAATTTCGCTGC+AGG	0.490019	1.2:-17785849	None:intergenic
GAAGACTCCAAATTTGAACT+TGG	0.507535	1.2:+17785302	MS.gene040903:CDS
ACTAAGGCAGACATCAATCC+AGG	0.507613	1.2:+17785429	MS.gene040903:CDS
ATCAGCATCGACGACGATGA+TGG	0.511996	1.2:-17785807	None:intergenic
CAAAGCGCGCTATGCAAGTA+GGG	0.513002	1.2:+17785676	MS.gene040903:CDS
TAAAGCCTCAAAGTAAGATC+AGG	0.515851	1.2:-17786044	None:intergenic
TCTCTTGTAATTATTGTAGG+AGG	0.522769	1.2:+17785589	MS.gene040903:CDS
TGATTCTTGTAAGTATATGT+TGG	0.525252	1.2:-17785364	None:intergenic
GCAAAGCGCGCTATGCAAGT+AGG	0.525984	1.2:+17785675	MS.gene040903:CDS
ACATCAGAATGCTCATAAAA+GGG	0.526603	1.2:+17785641	MS.gene040903:CDS
CCTCAAAGTAAGATCAGGAT+AGG	0.529476	1.2:-17786039	None:intergenic
GAGAAAACTCTATGAATCGT+TGG	0.530449	1.2:-17785570	None:intergenic
CATCGTCGTCGATGCTGATG+AGG	0.540974	1.2:+17785811	MS.gene040903:CDS
AGGTCAAGGGAAATAGAACC+TGG	0.542650	1.2:-17785447	None:intergenic
AGTATATGTTGGAACCTACT+TGG	0.544787	1.2:-17785353	None:intergenic
TCGACGACGATGATGGCATA+TGG	0.558903	1.2:-17785800	None:intergenic
CGAAGTTGAGAGTCAGGTCA+AGG	0.567959	1.2:-17785461	None:intergenic
ATCGTCGTCGATGCTGATGA+GGG	0.568860	1.2:+17785812	MS.gene040903:CDS
TTTAGCTCACAAGCGTTAGG+AGG	0.570693	1.2:+17785618	MS.gene040903:CDS
TAGGTAGTAGATGTTTGTTG+AGG	0.576261	1.2:-17786020	None:intergenic
AACTCTATGAATCGTTGGTG+CGG	0.596598	1.2:-17785565	None:intergenic
TTAGAAGTAAGCAGCCAAGT+AGG	0.598009	1.2:+17785339	MS.gene040903:CDS
AAAGAAGAAGAACCATGAAG+AGG	0.622542	1.2:-17785735	None:intergenic
CTTAGTAAGACAAGAAGTTG+TGG	0.624602	1.2:-17785412	None:intergenic
AAGTAGGGATGTTTACCGAA+AGG	0.636930	1.2:+17785691	MS.gene040903:CDS
GAAGTTGAGAGTCAGGTCAA+GGG	0.642054	1.2:-17785460	None:intergenic
TTTATGCATAATGAAGATGT+CGG	0.651635	1.2:+17785894	MS.gene040903:CDS
GACACTAATAGTGAAGTACT+AGG	0.655462	1.2:+17785516	MS.gene040903:CDS
TCTTCATTATGCATAAACAT+CGG	0.674163	1.2:-17785888	None:intergenic
TCATAAAAGGGAGAGAACGA+TGG	0.677286	1.2:+17785653	MS.gene040903:CDS
GCATGAGCTTGAATCCCAAG+AGG	0.685243	1.2:-17785762	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	TTTTCTCTTGTAATTATTGT+AGG	+	chr1.2:17785586-17785605	MS.gene040903:CDS	20.0%
!	TCTTCATTATGCATAAACAT+CGG	-	chr1.2:17785891-17785910	None:intergenic	25.0%
!	TGATTCTTGTAAGTATATGT+TGG	-	chr1.2:17785367-17785386	None:intergenic	25.0%
!	TTTATGCATAATGAAGATGT+CGG	+	chr1.2:17785894-17785913	MS.gene040903:CDS	25.0%
!!	AAATTCGAGAAAGATTGTTT+TGG	+	chr1.2:17785858-17785877	MS.gene040903:CDS	25.0%
	ACATCAGAATGCTCATAAAA+GGG	+	chr1.2:17785641-17785660	MS.gene040903:CDS	30.0%
	TCTCTTGTAATTATTGTAGG+AGG	+	chr1.2:17785589-17785608	MS.gene040903:CDS	30.0%
	AAAGAAGAAGAACCATGAAG+AGG	-	chr1.2:17785738-17785757	None:intergenic	35.0%
	AGCTAAGCTTGTATACCTTT+CGG	-	chr1.2:17785709-17785728	None:intergenic	35.0%
	AGTATATGTTGGAACCTACT+TGG	-	chr1.2:17785356-17785375	None:intergenic	35.0%
	CACAACTTCTTGTCTTACTA+AGG	+	chr1.2:17785413-17785432	MS.gene040903:CDS	35.0%
	CTTAGTAAGACAAGAAGTTG+TGG	-	chr1.2:17785415-17785434	None:intergenic	35.0%
	GAAGACTCCAAATTTGAACT+TGG	+	chr1.2:17785302-17785321	MS.gene040903:CDS	35.0%
	GACATCAGAATGCTCATAAA+AGG	+	chr1.2:17785640-17785659	MS.gene040903:CDS	35.0%
	GAGAAAACTCTATGAATCGT+TGG	-	chr1.2:17785573-17785592	None:intergenic	35.0%
	TAAAGCCTCAAAGTAAGATC+AGG	-	chr1.2:17786047-17786066	None:intergenic	35.0%
	TCAGCTTCCAAGTTCAAATT+TGG	-	chr1.2:17785312-17785331	None:intergenic	35.0%
	TTAGCTTCTTTACCTCTTCA+TGG	+	chr1.2:17785723-17785742	MS.gene040903:CDS	35.0%
!	CTTCTTCTTTTCATCCTCTT+GGG	+	chr1.2:17785748-17785767	MS.gene040903:CDS	35.0%
!	GACACTAATAGTGAAGTACT+AGG	+	chr1.2:17785516-17785535	MS.gene040903:CDS	35.0%
!	TAGGTAGTAGATGTTTGTTG+AGG	-	chr1.2:17786023-17786042	None:intergenic	35.0%
!	TCTTCTTCTTTTCATCCTCT+TGG	+	chr1.2:17785747-17785766	MS.gene040903:CDS	35.0%
	AACTCTATGAATCGTTGGTG+CGG	-	chr1.2:17785568-17785587	None:intergenic	40.0%
	AAGTAGGGATGTTTACCGAA+AGG	+	chr1.2:17785691-17785710	MS.gene040903:CDS	40.0%
	CCTATCCTGATCTTACTTTG+AGG	+	chr1.2:17786039-17786058	MS.gene040903:CDS	40.0%
	CCTCAAAGTAAGATCAGGAT+AGG	-	chr1.2:17786042-17786061	None:intergenic	40.0%
	TCATAAAAGGGAGAGAACGA+TGG	+	chr1.2:17785653-17785672	MS.gene040903:CDS	40.0%
	TCCTTCAAATCTTCATCGCT+CGG	-	chr1.2:17785489-17785508	None:intergenic	40.0%
	TTAGAAGTAAGCAGCCAAGT+AGG	+	chr1.2:17785339-17785358	MS.gene040903:CDS	40.0%
	TTTATCTGCCTGAAACTTCC+AGG	-	chr1.2:17785930-17785949	None:intergenic	40.0%
!	ATGAAGATGTCGGCGTATTT+TGG	+	chr1.2:17785904-17785923	MS.gene040903:CDS	40.0%
!	GTAGTAGATGTTTGTTGAGG+AGG	-	chr1.2:17786020-17786039	None:intergenic	40.0%
!	TTCTTTAGCTCACAAGCGTT+AGG	+	chr1.2:17785615-17785634	MS.gene040903:CDS	40.0%
!!	ACGATGATGGCATATGGTTT+TGG	-	chr1.2:17785797-17785816	None:intergenic	40.0%
!!!	TATTTTGGCCTGGAAGTTTC+AGG	+	chr1.2:17785919-17785938	MS.gene040903:CDS	40.0%
	ACTAAGGCAGACATCAATCC+AGG	+	chr1.2:17785429-17785448	MS.gene040903:CDS	45.0%
	AGAAGTTGTGGCACTGTCTT+TGG	-	chr1.2:17785403-17785422	None:intergenic	45.0%
	AGGTCAAGGGAAATAGAACC+TGG	-	chr1.2:17785450-17785469	None:intergenic	45.0%
	GAAGTTGAGAGTCAGGTCAA+GGG	-	chr1.2:17785463-17785482	None:intergenic	45.0%
	TCTTTCTCGAATTTCGCTGC+AGG	-	chr1.2:17785852-17785871	None:intergenic	45.0%
!	TTTAGCTCACAAGCGTTAGG+AGG	+	chr1.2:17785618-17785637	MS.gene040903:CDS	45.0%
	ATCGTCGTCGATGCTGATGA+GGG	+	chr1.2:17785812-17785831	MS.gene040903:CDS	50.0%
	CAAAGCGCGCTATGCAAGTA+GGG	+	chr1.2:17785676-17785695	MS.gene040903:CDS	50.0%
	CGAAGTTGAGAGTCAGGTCA+AGG	-	chr1.2:17785464-17785483	None:intergenic	50.0%
	GCATGAGCTTGAATCCCAAG+AGG	-	chr1.2:17785765-17785784	None:intergenic	50.0%
	GCCGAGCGATGAAGATTTGA+AGG	+	chr1.2:17785485-17785504	MS.gene040903:CDS	50.0%
!	TCGACGACGATGATGGCATA+TGG	-	chr1.2:17785803-17785822	None:intergenic	50.0%
!!	ATCAGCATCGACGACGATGA+TGG	-	chr1.2:17785810-17785829	None:intergenic	50.0%
	CATCGTCGTCGATGCTGATG+AGG	+	chr1.2:17785811-17785830	MS.gene040903:CDS	55.0%
	GCAAAGCGCGCTATGCAAGT+AGG	+	chr1.2:17785675-17785694	MS.gene040903:CDS	55.0%
!	TCGGCTCGAAGTTGAGAGTC+AGG	-	chr1.2:17785470-17785489	None:intergenic	55.0%
!!!	GATGTCGGCGTATTTTGGCC+TGG	+	chr1.2:17785909-17785928	MS.gene040903:CDS	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr1.2	gene	17785297	17786067	17785297	ID=MS.gene040903
chr1.2	mRNA	17785297	17786067	17785297	ID=MS.gene040903.t1;Parent=MS.gene040903
chr1.2	exon	17785297	17786067	17785297	ID=MS.gene040903.t1.exon1;Parent=MS.gene040903.t1
chr1.2	CDS	17785297	17786067	17785297	ID=cds.MS.gene040903.t1;Parent=MS.gene040903.t1

Gene Sequence

>MS.gene040903

ATGATGAAGACTCCAAATTTGAACTTGGAAGCTGAAAATAGTTTAGAAGTAAGCAGCCAAGTAGGTTCCAACATATACTTACAAGAATCATCTCATGATCTTACCAAAGACAGTGCCACAACTTCTTGTCTTACTAAGGCAGACATCAATCCAGGTTCTATTTCCCTTGACCTGACTCTCAACTTCGAGCCGAGCGATGAAGATTTGAAGGAAACAAGCGACACTAATAGTGAAGTACTAGGAGCTAATCAAGCTCATAATACTGTTTCCGCACCAACGATTCATAGAGTTTTCTCTTGTAATTATTGTAGGAGGAAATTCTTTAGCTCACAAGCGTTAGGAGGACATCAGAATGCTCATAAAAGGGAGAGAACGATGGCAAAGCGCGCTATGCAAGTAGGGATGTTTACCGAAAGGTATACAAGCTTAGCTTCTTTACCTCTTCATGGTTCTTCTTCTTTTCATCCTCTTGGGATTCAAGCTCATGCTGCAATGCACCAAAACCATATGCCATCATCGTCGTCGATGCTGATGAGGGCTCAAAATATGAGACCTGCAGCGAAATTCGAGAAAGATTGTTTTGGAGCAGCACCGATGTTTATGCATAATGAAGATGTCGGCGTATTTTGGCCTGGAAGTTTCAGGCAGATAAATCAAAGTGTTCATAATTCAAATTTGAATCATAACTCAAATTTAAATACTAGTTTTGTAGCAACTGAACCTCCTCAACAAACATCTACTACCTATCCTGATCTTACTTTGAGGCTTTAA

Protein sequence

>MS.gene040903.t1

MMKTPNLNLEAENSLEVSSQVGSNIYLQESSHDLTKDSATTSCLTKADINPGSISLDLTLNFEPSDEDLKETSDTNSEVLGANQAHNTVSAPTIHRVFSCNYCRRKFFSSQALGGHQNAHKRERTMAKRAMQVGMFTERYTSLASLPLHGSSSFHPLGIQAHAAMHQNHMPSSSSMLMRAQNMRPAAKFEKDCFGAAPMFMHNEDVGVFWPGSFRQINQSVHNSNLNHNSNLNTSFVATEPPQQTSTTYPDLTLRL