AlfalfaGEDB | Msa0924860

M. sativa cultivar zhongmu-4 / Msa0924860

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
Msa0924860	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
Msa0924860	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
Msa0095140	Msa0924860	0.829748	4.326798e-55	-8.615850e-47
Msa0095200	Msa0924860	0.847362	1.213637e-59	-8.615850e-47
Msa0095270	Msa0924860	0.829010	6.537925e-55	-8.615850e-47
Msa0782330	Msa0924860	0.804066	2.581404e-49	-8.615850e-47
Msa0139740	Msa0924860	0.802150	6.430714e-49	-8.615850e-47
Msa0175900	Msa0924860	0.805235	1.472502e-49	-8.615850e-47
Msa0449930	Msa0924860	0.808988	2.362219e-50	-8.615850e-47
Msa0268180	Msa0924860	0.850652	1.478190e-60	-8.615850e-47
Msa0268380	Msa0924860	0.844346	8.002198e-59	-8.615850e-47
Msa0268420	Msa0924860	0.849225	3.706734e-60	-8.615850e-47
Msa0268500	Msa0924860	0.800796	1.218366e-48	-8.615850e-47
Msa0268540	Msa0924860	0.852936	3.328600e-61	-8.615850e-47
Msa0268650	Msa0924860	0.841238	5.362961e-58	-8.615850e-47
Msa0268730	Msa0924860	0.838751	2.387636e-57	-8.615850e-47
Msa0268850	Msa0924860	0.852659	3.993512e-61	-8.615850e-47
Msa0268930	Msa0924860	0.837273	5.729501e-57	-8.615850e-47
Msa0269060	Msa0924860	0.862145	6.235992e-64	-8.615850e-47
Msa0306130	Msa0924860	0.812519	4.071000e-51	-8.615850e-47
Msa0344200	Msa0924860	0.826545	2.557896e-54	-8.615850e-47
Msa0344290	Msa0924860	0.802860	4.590074e-49	-8.615850e-47
Msa0582530	Msa0924860	0.829238	5.757787e-55	-8.615850e-47
Msa0582580	Msa0924860	0.807523	4.848356e-50	-8.615850e-47
Msa0582620	Msa0924860	0.861308	1.123711e-63	-8.615850e-47
Msa0582710	Msa0924860	0.838273	3.170808e-57	-8.615850e-47
Msa0582740	Msa0924860	0.844062	9.541482e-59	-8.615850e-47
Msa0582830	Msa0924860	0.831389	1.715863e-55	-8.615850e-47
Msa0582900	Msa0924860	0.840440	8.683723e-58	-8.615850e-47
Msa0924860	Msa0931090	0.851172	1.055280e-60	-8.615850e-47
Msa0924860	Msa0931150	0.820234	7.637804e-53	-8.615850e-47
Msa0924860	Msa0931200	0.853722	1.980662e-61	-8.615850e-47
Msa0924860	Msa0931280	0.811039	8.545139e-51	-8.615850e-47
Msa0924860	Msa0983710	0.819752	9.845839e-53	-8.615850e-47
Msa0924860	Msa0992570	0.805903	1.066125e-49	-8.615850e-47
Msa0924860	Msa0992590	0.800091	1.695888e-48	-8.615850e-47
Msa0924860	Msa1086020	0.810576	1.076371e-50	-8.615850e-47
Msa0924860	Msa1086060	0.867643	1.176638e-65	-8.615850e-47
Msa0924860	Msa1086160	0.828786	7.406456e-55	-8.615850e-47
Msa0924860	Msa1086170	0.867300	1.514636e-65	-8.615850e-47
Msa0924860	Msa1086290	0.828885	7.010454e-55	-8.615850e-47
Msa0924860	Msa1086340	0.811724	6.068382e-51	-8.615850e-47
Msa0924860	Msa1086370	0.878096	3.702160e-69	-8.615850e-47
Msa0924860	Msa1086440	0.826159	3.160602e-54	-8.615850e-47
Msa0924860	Msa1086480	0.834710	2.560262e-56	-8.615850e-47
Msa0924860	Msa1086870	0.852812	3.610414e-61	-8.615850e-47
Msa0924860	Msa1091690	0.803048	4.197249e-49	-8.615850e-47
Msa0924860	Msa1120540	0.809527	1.811021e-50	-8.615850e-47
Msa0924860	Msa1143140	0.847312	1.252412e-59	-8.615850e-47
Msa0924860	Msa1143150	0.806652	7.411760e-50	-8.615850e-47
Msa0924860	Msa1327820	0.802469	5.527857e-49	-8.615850e-47
Msa0924860	Msa1354850	0.809186	2.142726e-50	-8.615850e-47
Msa0924860	Msa1354890	0.860082	2.647165e-63	-8.615850e-47
Msa0924860	Msa1355060	0.846734	1.803651e-59	-8.615850e-47
Msa0924860	Msa1380540	0.803951	2.727411e-49	-8.615850e-47
Msa0924860	Msa1380580	0.817294	3.552537e-52	-8.615850e-47
Msa0924860	Msa1394050	0.848857	4.689810e-60	-8.615850e-47
Msa0924860	Msa1394090	0.806981	6.315924e-50	-8.615850e-47
Msa0924860	Msa1394140	0.853715	1.989291e-61	-8.615850e-47
Msa0924860	Msa1394240	0.851711	7.426929e-61	-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
Msa0924860	MtrunA17_Chr4g0015681	96.667	60	2	1	60	1	60	7.64e-35	113
Msa0924860	MtrunA17_CPg0492901	96.667	60	2	1	60	1	60	7.64e-35	113
Msa0924860	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
Msa0924860	ATCG00070.1	76.667	60	14	0	1	60	1	60	3.76e-26	92.0
Msa0924860	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:+67458628	None:intergenic
ACTGGCATAAAATCTACAAT+TGG	0.453871	6_2:-67458731	None:intergenic
AATGATCCAGGACGTAATCC+TGG	0.474800	6_2:+67459278	Msa0924860:CDS
GGATTCCTATCTAATGATCC+AGG	0.536202	6_2:+67459266	Msa0924860:CDS
TCACGTCCAGGATTACGTCC+TGG	0.548081	6_2:-67459284	None:intergenic
TACGTCCTGGATCATTAGAT+AGG	0.581605	6_2:-67459271	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	ATTCCAAATATTAAAATTTT+TGG	+	chr6_2:67458918-67458937	Msa0924860:intron	10.0%
!!!	TATCCAAAAATTTTAATATT+TGG	-	chr6_2:67458924-67458943	None:intergenic	10.0%
!!	ATTTCAAAAAAAAAAAACTT+AGG	-	chr6_2:67459075-67459094	None:intergenic	10.0%
!!!	AATTTTAATATTTGGAATCA+AGG	-	chr6_2:67458916-67458935	None:intergenic	15.0%
!!!	CGTTTTTTTTTTAATTATCT+TGG	+	chr6_2:67459170-67459189	Msa0924860:intron	15.0%
!!	GAAAAAACTACTTGAATAAA+GGG	-	chr6_2:67458675-67458694	None:intergenic	20.0%
!!	AGAAAAAACTACTTGAATAA+AGG	-	chr6_2:67458676-67458695	None:intergenic	20.0%
!!!	TTATTCAAGTAGTTTTTTCT+TGG	+	chr6_2:67458676-67458695	Msa0924860:CDS	20.0%
!!	TGAAAATTCTATTATTCGAT+TGG	+	chr6_2:67458962-67458981	Msa0924860:intron	20.0%
!!!	TGTGGATATGAAAAAAATTT+TGG	+	chr6_2:67459013-67459032	Msa0924860:intron	20.0%
!!	TCTTATAAACTTAGTATCAA+AGG	+	chr6_2:67459104-67459123	Msa0924860:intron	20.0%
!!!	TTTTTCTCTTAGCTTTTGTT+TGG	+	chr6_2:67458768-67458787	Msa0924860:CDS	25.0%
!!!	TTTGTTTCTCTTTTCATCTT+CGG	+	chr6_2:67459245-67459264	Msa0924860:CDS	25.0%
!	AATTGGATTCAAAAAAGCGT+AGG	-	chr6_2:67458717-67458736	None:intergenic	30.0%
	ACTGGCATAAAATCTACAAT+TGG	-	chr6_2:67458734-67458753	None:intergenic	30.0%
!!	AAAAAGAGTAAGGGTATTAC+TGG	-	chr6_2:67458752-67458771	None:intergenic	30.0%
	GCTAAGAGAAAAAAGAGTAA+GGG	-	chr6_2:67458761-67458780	None:intergenic	30.0%
	AGCTAAGAGAAAAAAGAGTA+AGG	-	chr6_2:67458762-67458781	None:intergenic	30.0%
!!	AATCAAGATCTAGGTATTGG+TGG	-	chr6_2:67458994-67459013	None:intergenic	35.0%
	CACAATCAAGATCTAGGTAT+TGG	-	chr6_2:67458997-67459016	None:intergenic	35.0%
	CAATACCTAGATCTTGATTG+TGG	+	chr6_2:67458995-67459014	Msa0924860:intron	35.0%
	CATATCCACAATCAAGATCT+AGG	-	chr6_2:67459003-67459022	None:intergenic	35.0%
	GAGAATCTATTCTCTTTCTC+TGG	+	chr6_2:67459147-67459166	Msa0924860:intron	35.0%
!	TTCAAAAAAGCGTAGGCTTC+AGG	-	chr6_2:67458710-67458729	None:intergenic	40.0%
	GGATTCCTATCTAATGATCC+AGG	+	chr6_2:67459266-67459285	Msa0924860:CDS	40.0%
	TACGTCCTGGATCATTAGAT+AGG	-	chr6_2:67459274-67459293	None:intergenic	40.0%
!!	CAAGATCTAGGTATTGGTGG+TGG	-	chr6_2:67458991-67459010	None:intergenic	45.0%
	AATGATCCAGGACGTAATCC+TGG	+	chr6_2:67459278-67459297	Msa0924860:CDS	45.0%
!!!	AATAAATTCTTAATTTTTTT+CGG	-	chr6_2:67458839-67458858	None:intergenic	5.0%
	TCACGTCCAGGATTACGTCC+TGG	-	chr6_2:67459287-67459306	None:intergenic	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr6_2	gene	67458629	67459313	67458629	ID=Msa0924860;Name=Msa0924860
chr6_2	mRNA	67458629	67459313	67458629	ID=Msa0924860-mRNA-1;Parent=Msa0924860;Name=Msa0924860-mRNA-1;_AED=0.46;_eAED=0.46;_QI=0\|0\|0\|1\|0\|0\|2\|0\|97
chr6_2	exon	67458629	67458803	67458629	ID=Msa0924860-mRNA-1:exon:10683;Parent=Msa0924860-mRNA-1
chr6_2	exon	67459195	67459313	67459195	ID=Msa0924860-mRNA-1:exon:10684;Parent=Msa0924860-mRNA-1
chr6_2	CDS	67458629	67458803	67458629	ID=Msa0924860-mRNA-1:cds;Parent=Msa0924860-mRNA-1
chr6_2	CDS	67459195	67459313	67459195	ID=Msa0924860-mRNA-1:cds;Parent=Msa0924860-mRNA-1

Gene Sequence	>Msa0924860 ATGCTTAATATCTTTAGCTTGGTCTGTATTTGTATTGACTCTGCCCTTTATTCAAGTAGTTTTTTCTTGGCAAAATTACCTGAAGCCTACGCTTTTTTGAATCCAATTGTAGATTTTATGCCAGTAATACCCTTACTCTTTTTTCTCTTAGCTTTTGTTTGGCAAGCTGCTGTAAATTTTGTAATGCTTACTCTAAAACTATTTGTTTACACGATAGTGATATTCTTTGTTTCTCTTTTCATCTTCGGATTCCTATCTAATGATCCAGGACGTAATCCTGGACGTGAAGAATAA
Protein sequence	>Msa0924860 MLNIFSLVCICIDSALYSSSFFLAKLPEAYAFLNPIVDFMPVIPLLFFLLAFVWQAAVNFVMLTLKLFVYTIVIFFVSLFIFGFLSNDPGRNPGREE*