AlfalfaGEDB | Msa0582900

M. sativa cultivar zhongmu-4 / Msa0582900

KEGG: K02710|K02712
GO: GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0009536 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464
PFAM: PF02533.18

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0582900	RDY14692.1	90.722	97	9	0	1	97	4	100	7.75e-56	178

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0582900	sp\|Q49L15\|PSBK_EUCGG	91.667	60	5	0	1	60	1	60	1.80e-32	110

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0582900	A0A371II05	90.722	97	9	0	1	97	4	100	3.70e-56	178

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0039200	Msa0582900	0.801429	9.040783e-49	-8.615850e-47
Msa0086820	Msa0582900	0.802522	5.390309e-49	-8.615850e-47
Msa0095140	Msa0582900	0.844688	6.474135e-59	-8.615850e-47
Msa0095200	Msa0582900	0.857613	1.448520e-62	-8.615850e-47
Msa0095240	Msa0582900	0.810645	1.039705e-50	-8.615850e-47
Msa0095270	Msa0582900	0.848618	5.463253e-60	-8.615850e-47
Msa0095300	Msa0582900	0.817848	2.665434e-52	-8.615850e-47
Msa0133670	Msa0582900	0.804858	1.765688e-49	-8.615850e-47
Msa0133880	Msa0582900	0.806727	7.148851e-50	-8.615850e-47
Msa0141670	Msa0582900	0.804244	2.370645e-49	-8.615850e-47
Msa0175900	Msa0582900	0.807209	5.652126e-50	-8.615850e-47
Msa0221860	Msa0582900	0.810582	1.072747e-50	-8.615850e-47
Msa0222120	Msa0582900	0.800778	1.228748e-48	-8.615850e-47
Msa0449930	Msa0582900	0.802421	5.654306e-49	-8.615850e-47
Msa0268180	Msa0582900	0.907702	3.810305e-81	-8.615850e-47
Msa0268220	Msa0582900	0.800351	1.501111e-48	-8.615850e-47
Msa0268340	Msa0582900	0.811615	6.407649e-51	-8.615850e-47
Msa0268380	Msa0582900	0.889616	2.064730e-73	-8.615850e-47
Msa0268420	Msa0582900	0.897952	8.531999e-77	-8.615850e-47
Msa0268460	Msa0582900	0.813453	2.540088e-51	-8.615850e-47
Msa0268500	Msa0582900	0.822829	1.921042e-53	-8.615850e-47
Msa0268540	Msa0582900	0.898032	7.892685e-77	-8.615850e-47
Msa0268650	Msa0582900	0.890969	6.087329e-74	-8.615850e-47
Msa0268690	Msa0582900	0.815464	9.123527e-52	-8.615850e-47
Msa0268730	Msa0582900	0.896614	3.116241e-76	-8.615850e-47
Msa0268850	Msa0582900	0.905603	3.604422e-80	-8.615850e-47
Msa0268900	Msa0582900	0.824327	8.570117e-54	-8.615850e-47
Msa0268930	Msa0582900	0.878620	2.423780e-69	-8.615850e-47
Msa0269060	Msa0582900	0.908075	2.539907e-81	-8.615850e-47
Msa0269100	Msa0582900	0.814811	1.274117e-51	-8.615850e-47
Msa0306130	Msa0582900	0.802202	6.273456e-49	-8.615850e-47
Msa0344200	Msa0582900	0.849653	2.817005e-60	-8.615850e-47
Msa0547050	Msa0582900	0.803340	3.652465e-49	-8.615850e-47
Msa0558890	Msa0582900	0.801308	9.574258e-49	-8.615850e-47
Msa0560180	Msa0582900	0.806274	8.906239e-50	-8.615850e-47
Msa0582530	Msa0582900	0.853164	2.863876e-61	-8.615850e-47
Msa0582570	Msa0582900	0.812778	3.572578e-51	-8.615850e-47
Msa0582580	Msa0582900	0.812014	5.245791e-51	-8.615850e-47
Msa0582620	Msa0582900	0.901840	1.782283e-78	-8.615850e-47
Msa0582710	Msa0582900	0.858643	7.155258e-63	-8.615850e-47
Msa0582740	Msa0582900	0.916953	9.564257e-86	-8.615850e-47
Msa0582830	Msa0582900	0.849837	2.502256e-60	-8.615850e-47
Msa0582900	Msa0601780	0.811480	6.854357e-51	-8.615850e-47
Msa0582900	Msa0640880	0.805161	1.525633e-49	-8.615850e-47
Msa0582900	Msa0642910	0.802281	6.045098e-49	-8.615850e-47
Msa0582900	Msa0654060	0.800311	1.529568e-48	-8.615850e-47
Msa0582900	Msa0782330	0.811693	6.162268e-51	-8.615850e-47
Msa0582900	Msa0900320	0.800958	1.128956e-48	-8.615850e-47
Msa0582900	Msa0924860	0.840440	8.683723e-58	-8.615850e-47
Msa0582900	Msa0931090	0.858262	9.293977e-63	-8.615850e-47
Msa0582900	Msa0931150	0.862247	5.800346e-64	-8.615850e-47
Msa0582900	Msa0931200	0.848722	5.112412e-60	-8.615850e-47
Msa0582900	Msa0931280	0.862192	6.028964e-64	-8.615850e-47
Msa0582900	Msa0958020	0.809611	1.736814e-50	-8.615850e-47
Msa0582900	Msa0983710	0.843186	1.635365e-58	-8.615850e-47
Msa0582900	Msa0992570	0.824143	9.468963e-54	-8.615850e-47
Msa0582900	Msa0992590	0.805949	1.042793e-49	-8.615850e-47
Msa0582900	Msa1002040	0.818522	1.875752e-52	-8.615850e-47
Msa0582900	Msa1024580	0.811186	7.939552e-51	-8.615850e-47
Msa0582900	Msa1030280	0.830658	2.594421e-55	-8.615850e-47
Msa0582900	Msa1086020	0.828267	9.884963e-55	-8.615850e-47
Msa0582900	Msa1086060	0.893132	8.356850e-75	-8.615850e-47
Msa0582900	Msa1086160	0.870846	1.071504e-66	-8.615850e-47
Msa0582900	Msa1086170	0.894575	2.167636e-75	-8.615850e-47
Msa0582900	Msa1086290	0.886135	4.450396e-72	-8.615850e-47
Msa0582900	Msa1086340	0.826429	2.726724e-54	-8.615850e-47
Msa0582900	Msa1086370	0.881546	2.193303e-70	-8.615850e-47
Msa0582900	Msa1086440	0.841694	4.069169e-58	-8.615850e-47
Msa0582900	Msa1086480	0.857716	1.350096e-62	-8.615850e-47
Msa0582900	Msa1086520	0.804519	2.077600e-49	-8.615850e-47
Msa0582900	Msa1086630	0.817957	2.517971e-52	-8.615850e-47
Msa0582900	Msa1086690	0.809124	2.209024e-50	-8.615850e-47
Msa0582900	Msa1086830	0.811875	5.624100e-51	-8.615850e-47
Msa0582900	Msa1086870	0.889653	1.997802e-73	-8.615850e-47
Msa0582900	Msa1091690	0.847372	1.205867e-59	-8.615850e-47
Msa0582900	Msa1143140	0.852345	4.906854e-61	-8.615850e-47
Msa0582900	Msa1143150	0.834527	2.846945e-56	-8.615850e-47
Msa0582900	Msa1157160	0.817773	2.770650e-52	-8.615850e-47
Msa0582900	Msa1195860	0.804763	1.847800e-49	-8.615850e-47
Msa0582900	Msa1284030	0.814564	1.444860e-51	-8.615850e-47
Msa0582900	Msa1323060	0.807548	4.789984e-50	-8.615850e-47
Msa0582900	Msa1327820	0.814471	1.514707e-51	-8.615850e-47
Msa0582900	Msa1354850	0.823997	1.024445e-53	-8.615850e-47
Msa0582900	Msa1354890	0.874393	6.993529e-68	-8.615850e-47
Msa0582900	Msa1355020	0.818055	2.392801e-52	-8.615850e-47
Msa0582900	Msa1355060	0.881944	1.574633e-70	-8.615850e-47
Msa0582900	Msa1380540	0.813626	2.327036e-51	-8.615850e-47
Msa0582900	Msa1380580	0.838318	3.088045e-57	-8.615850e-47
Msa0582900	Msa1394050	0.837177	6.061052e-57	-8.615850e-47
Msa0582900	Msa1394090	0.813412	2.592941e-51	-8.615850e-47
Msa0582900	Msa1394100	0.821800	3.330295e-53	-8.615850e-47
Msa0582900	Msa1394140	0.843276	1.548158e-58	-8.615850e-47
Msa0582900	Msa1394240	0.849664	2.796057e-60	-8.615850e-47
Msa0582900	Msa1394280	0.812118	4.980039e-51	-8.615850e-47
Msa0582900	Msa1442300	0.800271	1.558582e-48	-8.615850e-47

PPI

Gene1	Gene2	Type

Query id	Subject id	identity %	alignment length	mismatches	q. start	q. end	s. start	s. end	e-value	bit score
Msa0582900	MtrunA17_Chr4g0015681	96.667	60	2	1	60	1	60	7.64e-35	113
Msa0582900	MtrunA17_CPg0492901	96.667	60	2	1	60	1	60	7.64e-35	113
Msa0582900	MtrunA17_Chr4g0016771	96.667	60	2	1	60	1	60	7.64e-35	113

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0582900	ATCG00070.1	76.667	60	14	0	1	60	1	60	3.76e-26	92.0
Msa0582900	ATCG00080.1	97.222	36	1	0	62	97	1	36	2.92e-19	73.9

Find 6 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TATGCTTAATATCTTTAGCT+TGG	0.440922	4_2:+1276516	None:intergenic
ACTGGCATAAAATCTACAAT+TGG	0.453871	4_2:-1276619	None:intergenic
AATGATCCAGGACGTAATCC+TGG	0.474800	4_2:+1277166	Msa0582900:CDS
GGATTCCTATCTAATGATCC+AGG	0.536202	4_2:+1277154	Msa0582900:CDS
TCACGTCCAGGATTACGTCC+TGG	0.548081	4_2:-1277172	None:intergenic
TACGTCCTGGATCATTAGAT+AGG	0.581605	4_2:-1277159	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	ATTCCAAATATTAAAATTTT+TGG	+	chr4_2:1276806-1276825	Msa0582900:intron	10.0%
!!!	TATCCAAAAATTTTAATATT+TGG	-	chr4_2:1276812-1276831	None:intergenic	10.0%
!!	ATTTCAAAAAAAAAAAACTT+AGG	-	chr4_2:1276963-1276982	None:intergenic	10.0%
!!!	AATTTTAATATTTGGAATCA+AGG	-	chr4_2:1276804-1276823	None:intergenic	15.0%
!!!	CGTTTTTTTTTTAATTATCT+TGG	+	chr4_2:1277058-1277077	Msa0582900:intron	15.0%
!!	GAAAAAACTACTTGAATAAA+GGG	-	chr4_2:1276563-1276582	None:intergenic	20.0%
!!	AGAAAAAACTACTTGAATAA+AGG	-	chr4_2:1276564-1276583	None:intergenic	20.0%
!!!	TTATTCAAGTAGTTTTTTCT+TGG	+	chr4_2:1276564-1276583	Msa0582900:CDS	20.0%
!!	TGAAAATTCTATTATTCGAT+TGG	+	chr4_2:1276850-1276869	Msa0582900:intron	20.0%
!!!	TGTGGATATGAAAAAAATTT+TGG	+	chr4_2:1276901-1276920	Msa0582900:intron	20.0%
!!	TCTTATAAACTTAGTATCAA+AGG	+	chr4_2:1276992-1277011	Msa0582900:intron	20.0%
!!!	TTTTTCTCTTAGCTTTTGTT+TGG	+	chr4_2:1276656-1276675	Msa0582900:CDS	25.0%
!!!	TTTGTTTCTCTTTTCATCTT+CGG	+	chr4_2:1277133-1277152	Msa0582900:CDS	25.0%
!	AATTGGATTCAAAAAAGCGT+AGG	-	chr4_2:1276605-1276624	None:intergenic	30.0%
	ACTGGCATAAAATCTACAAT+TGG	-	chr4_2:1276622-1276641	None:intergenic	30.0%
!!	AAAAAGAGTAAGGGTATTAC+TGG	-	chr4_2:1276640-1276659	None:intergenic	30.0%
	GCTAAGAGAAAAAAGAGTAA+GGG	-	chr4_2:1276649-1276668	None:intergenic	30.0%
	AGCTAAGAGAAAAAAGAGTA+AGG	-	chr4_2:1276650-1276669	None:intergenic	30.0%
!!	AATCAAGATCTAGGTATTGG+TGG	-	chr4_2:1276882-1276901	None:intergenic	35.0%
	CACAATCAAGATCTAGGTAT+TGG	-	chr4_2:1276885-1276904	None:intergenic	35.0%
	CAATACCTAGATCTTGATTG+TGG	+	chr4_2:1276883-1276902	Msa0582900:intron	35.0%
	CATATCCACAATCAAGATCT+AGG	-	chr4_2:1276891-1276910	None:intergenic	35.0%
	GAGAATCTATTCTCTTTCTC+TGG	+	chr4_2:1277035-1277054	Msa0582900:intron	35.0%
!	TTCAAAAAAGCGTAGGCTTC+AGG	-	chr4_2:1276598-1276617	None:intergenic	40.0%
	GGATTCCTATCTAATGATCC+AGG	+	chr4_2:1277154-1277173	Msa0582900:CDS	40.0%
	TACGTCCTGGATCATTAGAT+AGG	-	chr4_2:1277162-1277181	None:intergenic	40.0%
!!	CAAGATCTAGGTATTGGTGG+TGG	-	chr4_2:1276879-1276898	None:intergenic	45.0%
	AATGATCCAGGACGTAATCC+TGG	+	chr4_2:1277166-1277185	Msa0582900:CDS	45.0%
!!!	AATAAATTCTTAATTTTTTT+CGG	-	chr4_2:1276727-1276746	None:intergenic	5.0%
	TCACGTCCAGGATTACGTCC+TGG	-	chr4_2:1277175-1277194	None:intergenic	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr4_2	gene	1276517	1277201	1276517	ID=Msa0582900;Name=Msa0582900
chr4_2	mRNA	1276517	1277201	1276517	ID=Msa0582900-mRNA-1;Parent=Msa0582900;Name=Msa0582900-mRNA-1;_AED=0.46;_eAED=0.46;_QI=0\|0\|0\|1\|0\|0\|2\|0\|97
chr4_2	exon	1276517	1276691	1276517	ID=Msa0582900-mRNA-1:exon:296;Parent=Msa0582900-mRNA-1
chr4_2	exon	1277083	1277201	1277083	ID=Msa0582900-mRNA-1:exon:297;Parent=Msa0582900-mRNA-1
chr4_2	CDS	1276517	1276691	1276517	ID=Msa0582900-mRNA-1:cds;Parent=Msa0582900-mRNA-1
chr4_2	CDS	1277083	1277201	1277083	ID=Msa0582900-mRNA-1:cds;Parent=Msa0582900-mRNA-1

Gene Sequence	>Msa0582900 ATGCTTAATATCTTTAGCTTGGTCTGTATTTGTATTGACTCTGCCCTTTATTCAAGTAGTTTTTTCTTGGCAAAATTACCTGAAGCCTACGCTTTTTTGAATCCAATTGTAGATTTTATGCCAGTAATACCCTTACTCTTTTTTCTCTTAGCTTTTGTTTGGCAAGCTGCTGTAAATTTTGTAATGCTTACTCTAAAACTATTTGTTTACACGATAGTGATATTCTTTGTTTCTCTTTTCATCTTCGGATTCCTATCTAATGATCCAGGACGTAATCCTGGACGTGAAGAATAA
Protein sequence	>Msa0582900 MLNIFSLVCICIDSALYSSSFFLAKLPEAYAFLNPIVDFMPVIPLLFFLLAFVWQAAVNFVMLTLKLFVYTIVIFFVSLFIFGFLSNDPGRNPGREE*