AlfalfaGEDB | Msa0931280

M. sativa cultivar zhongmu-4 / Msa0931280

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
Msa0931280	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
Msa0931280	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

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0035090	Msa0931280	0.802622	5.141576e-49	-8.615850e-47
Msa0040190	Msa0931280	0.806685	7.293997e-50	-8.615850e-47
Msa0092750	Msa0931280	0.818565	1.833976e-52	-8.615850e-47
Msa0095140	Msa0931280	0.883641	3.777668e-71	-8.615850e-47
Msa0095190	Msa0931280	0.814687	1.356696e-51	-8.615850e-47
Msa0095200	Msa0931280	0.844674	6.531998e-59	-8.615850e-47
Msa0095240	Msa0931280	0.849428	3.253540e-60	-8.615850e-47
Msa0095270	Msa0931280	0.882793	7.731045e-71	-8.615850e-47
Msa0099830	Msa0931280	0.808071	3.708500e-50	-8.615850e-47
Msa0664790	Msa0931280	0.806681	7.309648e-50	-8.615850e-47
Msa0668630	Msa0931280	0.827760	1.309573e-54	-8.615850e-47
Msa0727020	Msa0931280	0.854784	9.769760e-62	-8.615850e-47
Msa0766880	Msa0931280	0.824720	6.928654e-54	-8.615850e-47
Msa0134550	Msa0931280	0.808502	3.000742e-50	-8.615850e-47
Msa0156780	Msa0931280	0.807949	3.937101e-50	-8.615850e-47
Msa0221860	Msa0931280	0.857499	1.565790e-62	-8.615850e-47
Msa0370210	Msa0931280	0.800292	1.543051e-48	-8.615850e-47
Msa0449900	Msa0931280	0.806604	7.589065e-50	-8.615850e-47
Msa0449930	Msa0931280	0.803054	4.187084e-49	-8.615850e-47
Msa0240290	Msa0931280	0.801455	8.930660e-49	-8.615850e-47
Msa0268180	Msa0931280	0.916860	1.070405e-85	-8.615850e-47
Msa0268220	Msa0931280	0.860764	1.645236e-63	-8.615850e-47
Msa0268340	Msa0931280	0.864156	1.489160e-64	-8.615850e-47
Msa0268380	Msa0931280	0.853249	2.707402e-61	-8.615850e-47
Msa0268420	Msa0931280	0.925716	1.257410e-90	-8.615850e-47
Msa0268460	Msa0931280	0.851724	7.367130e-61	-8.615850e-47
Msa0268500	Msa0931280	0.877428	6.336063e-69	-8.615850e-47
Msa0268540	Msa0931280	0.881603	2.092333e-70	-8.615850e-47
Msa0268560	Msa0931280	0.816629	5.011503e-52	-8.615850e-47
Msa0268650	Msa0931280	0.923864	1.511856e-89	-8.615850e-47
Msa0268680	Msa0931280	0.828844	7.170484e-55	-8.615850e-47
Msa0268690	Msa0931280	0.832988	6.903892e-56	-8.615850e-47
Msa0268730	Msa0931280	0.838408	2.926533e-57	-8.615850e-47
Msa0268760	Msa0931280	0.828458	8.888578e-55	-8.615850e-47
Msa0268850	Msa0931280	0.917755	3.607692e-86	-8.615850e-47
Msa0268900	Msa0931280	0.849755	2.637734e-60	-8.615850e-47
Msa0268930	Msa0931280	0.822164	2.742851e-53	-8.615850e-47
Msa0269060	Msa0931280	0.913994	3.224389e-84	-8.615850e-47
Msa0269100	Msa0931280	0.860727	1.688755e-63	-8.615850e-47
Msa0344200	Msa0931280	0.847162	1.377196e-59	-8.615850e-47
Msa0344250	Msa0931280	0.870942	9.960266e-67	-8.615850e-47
Msa0582530	Msa0931280	0.872374	3.340761e-67	-8.615850e-47
Msa0582570	Msa0931280	0.881601	2.096679e-70	-8.615850e-47
Msa0582580	Msa0931280	0.869626	2.689064e-66	-8.615850e-47
Msa0582620	Msa0931280	0.856723	2.652752e-62	-8.615850e-47
Msa0582640	Msa0931280	0.805649	1.205799e-49	-8.615850e-47
Msa0582660	Msa0931280	0.800804	1.213381e-48	-8.615850e-47
Msa0582710	Msa0931280	0.897085	1.978638e-76	-8.615850e-47
Msa0582740	Msa0931280	0.862516	4.793680e-64	-8.615850e-47
Msa0582830	Msa0931280	0.891889	2.629138e-74	-8.615850e-47
Msa0582900	Msa0931280	0.862192	6.028964e-64	-8.615850e-47
Msa0582930	Msa0931280	0.819660	1.033629e-52	-8.615850e-47
Msa0586890	Msa0931280	0.823570	1.289766e-53	-8.615850e-47
Msa0591370	Msa0931280	0.825491	4.554753e-54	-8.615850e-47
Msa0867990	Msa0931280	0.813458	2.533318e-51	-8.615850e-47
Msa0924820	Msa0931280	0.852958	3.279524e-61	-8.615850e-47
Msa0924860	Msa0931280	0.811039	8.545139e-51	-8.615850e-47
Msa0924870	Msa0931280	0.806139	9.510049e-50	-8.615850e-47
Msa0924890	Msa0931280	0.831527	1.586861e-55	-8.615850e-47
Msa0924970	Msa0931280	0.803550	3.303732e-49	-8.615850e-47
Msa0925020	Msa0931280	0.873969	9.734162e-68	-8.615850e-47
Msa0931090	Msa0931280	0.898484	5.070925e-77	-8.615850e-47
Msa0931150	Msa0931280	0.910300	2.185344e-82	-8.615850e-47
Msa0931220	Msa0931280	0.828755	7.534622e-55	-8.615850e-47
Msa0931280	Msa0983670	0.857753	1.316631e-62	-8.615850e-47
Msa0931280	Msa1086020	0.875558	2.802494e-68	-8.615850e-47
Msa0931280	Msa1086060	0.853806	1.872500e-61	-8.615850e-47
Msa0931280	Msa1086080	0.814507	1.487133e-51	-8.615850e-47
Msa0931280	Msa1086160	0.892921	1.016174e-74	-8.615850e-47
Msa0931280	Msa1086170	0.862765	4.019175e-64	-8.615850e-47
Msa0931280	Msa1086260	0.840611	7.836078e-58	-8.615850e-47
Msa0931280	Msa1086290	0.905407	4.437282e-80	-8.615850e-47
Msa0931280	Msa1086330	0.864503	1.160032e-64	-8.615850e-47
Msa0931280	Msa1086340	0.854621	1.089548e-61	-8.615850e-47
Msa0931280	Msa1086370	0.885630	6.891712e-72	-8.615850e-47
Msa0931280	Msa1086410	0.814428	1.548838e-51	-8.615850e-47
Msa0931280	Msa1086440	0.834517	2.863463e-56	-8.615850e-47
Msa0931280	Msa1086480	0.887592	1.246248e-72	-8.615850e-47
Msa0931280	Msa1086520	0.857375	1.704188e-62	-8.615850e-47
Msa0931280	Msa1086630	0.875048	4.187895e-68	-8.615850e-47
Msa0931280	Msa1086690	0.861421	1.038042e-63	-8.615850e-47
Msa0931280	Msa1086830	0.876476	1.354676e-68	-8.615850e-47
Msa0931280	Msa1086870	0.861826	7.807887e-64	-8.615850e-47
Msa0931280	Msa1087000	0.815271	1.006973e-51	-8.615850e-47
Msa0931280	Msa1091690	0.835401	1.714494e-56	-8.615850e-47
Msa0931280	Msa1143140	0.856483	3.120447e-62	-8.615850e-47
Msa0931280	Msa1143160	0.804430	2.168668e-49	-8.615850e-47
Msa0931280	Msa1195860	0.800552	1.365943e-48	-8.615850e-47
Msa0931280	Msa1209390	0.805848	1.094912e-49	-8.615850e-47
Msa0931280	Msa1252040	0.807959	3.916982e-50	-8.615850e-47
Msa0931280	Msa1309910	0.800362	1.493394e-48	-8.615850e-47
Msa0931280	Msa1354850	0.878864	1.989044e-69	-8.615850e-47
Msa0931280	Msa1354890	0.852919	3.365612e-61	-8.615850e-47
Msa0931280	Msa1354910	0.812723	3.673227e-51	-8.615850e-47
Msa0931280	Msa1354930	0.802100	6.585414e-49	-8.615850e-47
Msa0931280	Msa1355020	0.880036	7.639825e-70	-8.615850e-47
Msa0931280	Msa1355060	0.856438	3.216779e-62	-8.615850e-47
Msa0931280	Msa1355100	0.803604	3.221080e-49	-8.615850e-47
Msa0931280	Msa1380540	0.878146	3.555484e-69	-8.615850e-47
Msa0931280	Msa1380600	0.832372	9.816454e-56	-8.615850e-47
Msa0931280	Msa1385940	0.803305	3.714328e-49	-8.615850e-47
Msa0931280	Msa1394090	0.869474	3.012944e-66	-8.615850e-47
Msa0931280	Msa1394100	0.862022	6.799822e-64	-8.615850e-47
Msa0931280	Msa1394140	0.807077	6.026713e-50	-8.615850e-47
Msa0931280	Msa1394170	0.815746	7.894000e-52	-8.615850e-47
Msa0931280	Msa1394240	0.842761	2.122342e-58	-8.615850e-47
Msa0931280	Msa1394280	0.876905	9.628040e-69	-8.615850e-47
Msa0931280	Msa1415120	0.802134	6.480207e-49	-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
Msa0931280	MtrunA17_Chr4g0015681	96.667	60	2	1	60	1	60	7.64e-35	113
Msa0931280	MtrunA17_CPg0492901	96.667	60	2	1	60	1	60	7.64e-35	113
Msa0931280	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
Msa0931280	ATCG00070.1	76.667	60	14	0	1	60	1	60	3.76e-26	92.0
Msa0931280	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	6_2:-80451465	Msa0931280:CDS
ACTGGCATAAAATCTACAAT+TGG	0.453871	6_2:+80451362	None:intergenic
AATGATCCAGGACGTAATCC+TGG	0.474800	6_2:-80450820	Msa0931280:CDS
GGATTCCTATCTAATGATCC+AGG	0.536202	6_2:-80450832	Msa0931280:CDS
TCACGTCCAGGATTACGTCC+TGG	0.548081	6_2:+80450814	None:intergenic
TACGTCCTGGATCATTAGAT+AGG	0.581605	6_2:+80450827	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	AATTTCAAAAAAAAAAACTT+AGG	+	chr6_2:80451250-80451269	None:intergenic	10.0%
!!!	AAATTTAATATTTGGAATCA+AGG	+	chr6_2:80451093-80451112	None:intergenic	15.0%
!!!	TGATTCCAAATATTAAATTT+TGG	-	chr6_2:80451093-80451112	Msa0931280:intron	15.0%
!!	TCTATCCAAAATTTAATATT+TGG	+	chr6_2:80451101-80451120	None:intergenic	15.0%
!!	GAAAAAACTACTTGAATAAA+GGG	+	chr6_2:80450853-80450872	None:intergenic	20.0%
!!	AGAAAAAACTACTTGAATAA+AGG	+	chr6_2:80450854-80450873	None:intergenic	20.0%
!!!	TTATTCAAGTAGTTTTTTCT+TGG	-	chr6_2:80450854-80450873	Msa0931280:CDS	20.0%
!!	TGAAAATTCTATTATTCGAT+TGG	-	chr6_2:80451137-80451156	Msa0931280:intron	20.0%
!!!	TGTGGATATGAAAAAAATTT+TGG	-	chr6_2:80451188-80451207	Msa0931280:intron	20.0%
!!	TCTTATAAACTTAGTATCAA+AGG	-	chr6_2:80451278-80451297	Msa0931280:intron	20.0%
!!!	GCGTTTTTTTTTAATTATCT+TGG	-	chr6_2:80451343-80451362	Msa0931280:CDS	20.0%
!!!	TTTTTCTCTTAGCTTTTGTT+TGG	-	chr6_2:80450946-80450965	Msa0931280:intron	25.0%
!!!	TTTGTTTCTCTTTTCATCTT+CGG	-	chr6_2:80451418-80451437	Msa0931280:CDS	25.0%
!	AATTGGATTCAAAAAAGCGT+AGG	+	chr6_2:80450895-80450914	None:intergenic	30.0%
	ACTGGCATAAAATCTACAAT+TGG	+	chr6_2:80450912-80450931	None:intergenic	30.0%
!!	AAAAAGAGTAAGGGTATTAC+TGG	+	chr6_2:80450930-80450949	None:intergenic	30.0%
	GCTAAGAGAAAAAAGAGTAA+GGG	+	chr6_2:80450939-80450958	None:intergenic	30.0%
	AGCTAAGAGAAAAAAGAGTA+AGG	+	chr6_2:80450940-80450959	None:intergenic	30.0%
!!	AATCAAGATCTAGGTATTGG+TGG	+	chr6_2:80451169-80451188	None:intergenic	35.0%
	CACAATCAAGATCTAGGTAT+TGG	+	chr6_2:80451172-80451191	None:intergenic	35.0%
	CAATACCTAGATCTTGATTG+TGG	-	chr6_2:80451170-80451189	Msa0931280:intron	35.0%
	CATATCCACAATCAAGATCT+AGG	+	chr6_2:80451178-80451197	None:intergenic	35.0%
	GAGAATCTATTCTCTTTCTC+TGG	-	chr6_2:80451321-80451340	Msa0931280:CDS	35.0%
!	TTCAAAAAAGCGTAGGCTTC+AGG	+	chr6_2:80450888-80450907	None:intergenic	40.0%
	GGATTCCTATCTAATGATCC+AGG	-	chr6_2:80451439-80451458	Msa0931280:CDS	40.0%
	TACGTCCTGGATCATTAGAT+AGG	+	chr6_2:80451447-80451466	None:intergenic	40.0%
!!	CAAGATCTAGGTATTGGTGG+TGG	+	chr6_2:80451166-80451185	None:intergenic	45.0%
	AATGATCCAGGACGTAATCC+TGG	-	chr6_2:80451451-80451470	Msa0931280:CDS	45.0%
!!!	AATAAATTCTTAATTTTTTT+CGG	+	chr6_2:80451017-80451036	None:intergenic	5.0%
	TCACGTCCAGGATTACGTCC+TGG	+	chr6_2:80451460-80451479	None:intergenic	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr6_2	gene	80450807	80451486	80450807	ID=Msa0931280;Name=Msa0931280
chr6_2	mRNA	80450807	80451486	80450807	ID=Msa0931280-mRNA-1;Parent=Msa0931280;Name=Msa0931280-mRNA-1;_AED=0.30;_eAED=0.30;_QI=0\|0\|0\|1\|0\|0\|2\|0\|97
chr6_2	exon	80451312	80451486	80451312	ID=Msa0931280-mRNA-1:exon:14111;Parent=Msa0931280-mRNA-1
chr6_2	exon	80450807	80450925	80450807	ID=Msa0931280-mRNA-1:exon:14110;Parent=Msa0931280-mRNA-1
chr6_2	CDS	80451312	80451486	80451312	ID=Msa0931280-mRNA-1:cds;Parent=Msa0931280-mRNA-1
chr6_2	CDS	80450807	80450925	80450807	ID=Msa0931280-mRNA-1:cds;Parent=Msa0931280-mRNA-1

Gene Sequence	>Msa0931280 ATGCTTAATATCTTTAGCTTGGTCTGTATTTGTATTGACTCTGCCCTTTATTCAAGTAGTTTTTTCTTGGCAAAATTACCTGAAGCCTACGCTTTTTTGAATCCAATTGTAGATTTTATGCCAGTAATACCCTTACTCTTTTTTCTCTTAGCTTTTGTTTGGCAAGCTGCTGTAAATTTTGTAATGCTTACTCTAAAACTATTTGTTTACACGATAGTGATATTCTTTGTTTCTCTTTTCATCTTCGGATTCCTATCTAATGATCCAGGACGTAATCCTGGACGTGAAGAATAA
Protein sequence	>Msa0931280 MLNIFSLVCICIDSALYSSSFFLAKLPEAYAFLNPIVDFMPVIPLLFFLLAFVWQAAVNFVMLTLKLFVYTIVIFFVSLFIFGFLSNDPGRNPGREE*