AlfalfaGEDB | Msa0360900

M. sativa cultivar zhongmu-4 / Msa0360900

KEGG: K14007
GO: GO:0000003 GO:0006275 GO:0006996 GO:0007029 GO:0007030 GO:0007276 GO:0008150 GO:0008156 GO:0008361 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010256 GO:0010556 GO:0010558 GO:0010564 GO:0010605 GO:0010948 GO:0016043 GO:0019219 GO:0019222 GO:0019953 GO:0022414 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032501 GO:0032504 GO:0032535 GO:0032875 GO:0032876 GO:0044703 GO:0045786 GO:0045934 GO:0048232 GO:0048519 GO:0048523 GO:0048609 GO:0050789 GO:0050794 GO:0051052 GO:0051053 GO:0051171 GO:0051172 GO:0051704 GO:0051726 GO:0060255 GO:0065007 GO:0065008 GO:0071840 GO:0080090 GO:0080119 GO:0090066 GO:0090329 GO:2000104 GO:2000112 GO:2000113
PFAM: PF04811.18

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0360900	AES75326.1	88.750	80	9	0	1	80	1	80	2.97e-44	147

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0360900	sp\|Q9SFU0\|SC24A_ARATH	78.261	69	15	0	1	69	620	688	6.84e-33	122

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0360900	G7KIB7	88.750	80	9	0	1	80	1	80	1.42e-44	147

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0059770	Msa0360900	0.810322	1.220775e-50	-8.615850e-47
Msa0205930	Msa0360900	0.800247	1.575910e-48	-8.615850e-47
Msa0324150	Msa0360900	0.866433	2.861269e-65	-8.615850e-47
Msa0326200	Msa0360900	0.870967	9.773050e-67	-8.615850e-47
Msa0353190	Msa0360900	0.889906	1.591775e-73	-8.615850e-47
Msa0353690	Msa0360900	0.915145	8.327751e-85	-8.615850e-47
Msa0360900	Msa0431500	0.859177	4.952780e-63	-8.615850e-47
Msa0360900	Msa0456200	0.883388	4.681349e-71	-8.615850e-47
Msa0360900	Msa0627410	0.878768	2.149495e-69	-8.615850e-47
Msa0360900	Msa0639460	0.818739	1.675061e-52	-8.615850e-47
Msa0360900	Msa0682360	0.827939	1.185802e-54	-8.615850e-47
Msa0360900	Msa0885290	0.828202	1.025172e-54	-8.615850e-47
Msa0360900	Msa0887990	0.872991	2.077827e-67	-8.615850e-47
Msa0360900	Msa0902020	0.805572	1.251463e-49	-8.615850e-47
Msa0360900	Msa0954810	0.803754	2.997132e-49	-8.615850e-47
Msa0360900	Msa1084240	0.815296	9.942256e-52	-8.615850e-47
Msa0360900	Msa1178720	0.815076	1.112612e-51	-8.615850e-47
Msa0360900	Msa1187940	0.806307	8.765975e-50	-8.615850e-47
Msa0360900	Msa1438250	0.804984	1.661428e-49	-8.615850e-47

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
Msa0360900	MtrunA17_Chr7g0271481	94.203	69	4	0	1	69	602	670	6.65e-41	141
Msa0360900	MtrunA17_Chr1g0210851	37.681	69	43	0	1	69	699	767	5.18e-12	59.7

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0360900	AT3G07100.1	78.261	69	15	0	1	69	620	688	6.95e-34	122

Find 16 sgRNAs with CRISPR-Local

Find 33 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AGAAATTGAGTCATGAATTA+AGG	0.308061	3_1:+50855690	Msa0360900:CDS
CATACACATTTACTGAGATT+TGG	0.310882	3_1:-50855171	None:intergenic
ATTTACTGAGATTTGGTACT+TGG	0.355044	3_1:-50855164	None:intergenic
TCTCCCCATGAGTAGCTGAT+TGG	0.442822	3_1:-50855670	None:intergenic
TCCTGTCTATGTAGGAACTC+TGG	0.459671	3_1:+50855607	Msa0360900:intron
TGAGTAGCTGATTGGAAAGC+TGG	0.469035	3_1:-50855662	None:intergenic
GAGAGACTGCATGGGAAGCA+TGG	0.524555	3_1:+50855726	Msa0360900:CDS
GCTTTCCAATCAGCTACTCA+TGG	0.528786	3_1:+50855665	Msa0360900:CDS
TACACTGACATAGCCTCCTT+AGG	0.536987	3_1:+50855208	Msa0360900:CDS
CTTTCCAATCAGCTACTCAT+GGG	0.542155	3_1:+50855666	Msa0360900:CDS
GGAAAATAAAACACCTAAGG+AGG	0.554451	3_1:-50855221	None:intergenic
ACCTCACAAGAGAGACTGCA+TGG	0.560035	3_1:+50855717	Msa0360900:CDS
ACTCTGGCAAAGTACACTGC+TGG	0.591069	3_1:+50855623	Msa0360900:CDS
CCCATGCAGTCTCTCTTGTG+AGG	0.598716	3_1:-50855718	None:intergenic
TTTCCAATCAGCTACTCATG+GGG	0.686768	3_1:+50855667	Msa0360900:CDS
CCTCACAAGAGAGACTGCAT+GGG	0.693489	3_1:+50855718	Msa0360900:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	TAACAGGTTTAAAAATAGAA+TGG	-	chr3_1:50855272-50855291	None:intergenic	20.0%
!	ACGAAATACATAGAAATTGA+AGG	-	chr3_1:50855245-50855264	None:intergenic	25.0%
!	ATCAATTAATCAAGAGTAAC+AGG	-	chr3_1:50855288-50855307	None:intergenic	25.0%
!	AGAAATTGAGTCATGAATTA+AGG	+	chr3_1:50855690-50855709	Msa0360900:CDS	25.0%
!	ATTTACTGAGATTTGGTACT+TGG	-	chr3_1:50855167-50855186	None:intergenic	30.0%
	CATACACATTTACTGAGATT+TGG	-	chr3_1:50855174-50855193	None:intergenic	30.0%
	GAAGGAAAATAAAACACCTA+AGG	-	chr3_1:50855227-50855246	None:intergenic	30.0%
!	ATTTGATGATTCTTCAGTTG+TGG	+	chr3_1:50855310-50855329	Msa0360900:intron	30.0%
!	ACTTGATGACATGAGTTTAT+GGG	+	chr3_1:50855348-50855367	Msa0360900:intron	30.0%
	TAAACTGATACTCTAACTCA+TGG	+	chr3_1:50855391-50855410	Msa0360900:intron	30.0%
	GGATCTATTTGACTATGAAA+TGG	+	chr3_1:50855412-50855431	Msa0360900:intron	30.0%
	AAATGCTGACAGAATTACAT+CGG	-	chr3_1:50855521-50855540	None:intergenic	30.0%
!!!	GTTTTTTTTCCTGTCTATGT+AGG	+	chr3_1:50855599-50855618	Msa0360900:intron	30.0%
	GGAAAATAAAACACCTAAGG+AGG	-	chr3_1:50855224-50855243	None:intergenic	35.0%
!	GACTTGATGACATGAGTTTA+TGG	+	chr3_1:50855347-50855366	Msa0360900:intron	35.0%
	AATGCTGACAGAATTACATC+GGG	-	chr3_1:50855520-50855539	None:intergenic	35.0%
	CTTTCCAATCAGCTACTCAT+GGG	+	chr3_1:50855666-50855685	Msa0360900:CDS	40.0%
	TTTCCAATCAGCTACTCATG+GGG	+	chr3_1:50855667-50855686	Msa0360900:CDS	40.0%
	TACACTGACATAGCCTCCTT+AGG	+	chr3_1:50855208-50855227	Msa0360900:CDS	45.0%
	ACAGAATTACATCGGGACAC+GGG	-	chr3_1:50855513-50855532	None:intergenic	45.0%
	GACAGAATTACATCGGGACA+CGG	-	chr3_1:50855514-50855533	None:intergenic	45.0%
	CATCAGCACGCAAGACTATA+TGG	-	chr3_1:50855556-50855575	None:intergenic	45.0%
	TCCTGTCTATGTAGGAACTC+TGG	+	chr3_1:50855607-50855626	Msa0360900:intron	45.0%
	TGAGTAGCTGATTGGAAAGC+TGG	-	chr3_1:50855665-50855684	None:intergenic	45.0%
	GCTTTCCAATCAGCTACTCA+TGG	+	chr3_1:50855665-50855684	Msa0360900:CDS	45.0%
	CAGAATTACATCGGGACACG+GGG	-	chr3_1:50855512-50855531	None:intergenic	50.0%
	GCCAGAGTTCCTACATAGAC+AGG	-	chr3_1:50855611-50855630	None:intergenic	50.0%
	ACTCTGGCAAAGTACACTGC+TGG	+	chr3_1:50855623-50855642	Msa0360900:CDS	50.0%
	TCTCCCCATGAGTAGCTGAT+TGG	-	chr3_1:50855673-50855692	None:intergenic	50.0%
	ACCTCACAAGAGAGACTGCA+TGG	+	chr3_1:50855717-50855736	Msa0360900:CDS	50.0%
	CCTCACAAGAGAGACTGCAT+GGG	+	chr3_1:50855718-50855737	Msa0360900:CDS	50.0%
	CCCATGCAGTCTCTCTTGTG+AGG	-	chr3_1:50855721-50855740	None:intergenic	55.0%
	GAGAGACTGCATGGGAAGCA+TGG	+	chr3_1:50855726-50855745	Msa0360900:CDS	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr3_1	gene	50855148	50855781	50855148	ID=Msa0360900;Name=Msa0360900
chr3_1	mRNA	50855148	50855781	50855148	ID=Msa0360900-mRNA-1;Parent=Msa0360900;Name=Msa0360900-mRNA-1;_AED=0.05;_eAED=0.05;_QI=0\|0\|0\|1\|1\|1\|2\|0\|80
chr3_1	exon	50855148	50855229	50855148	ID=Msa0360900-mRNA-1:exon:8989;Parent=Msa0360900-mRNA-1
chr3_1	exon	50855621	50855781	50855621	ID=Msa0360900-mRNA-1:exon:8990;Parent=Msa0360900-mRNA-1
chr3_1	CDS	50855148	50855229	50855148	ID=Msa0360900-mRNA-1:cds;Parent=Msa0360900-mRNA-1
chr3_1	CDS	50855621	50855781	50855621	ID=Msa0360900-mRNA-1:cds;Parent=Msa0360900-mRNA-1

Gene Sequence	>Msa0360900 ATGGCTGCTGAGTTTTCCAAGTACCAAATCTCAGTAAATGTGTATGCATTCAGTGATAAGTACACTGACATAGCCTCCTTAGGAACTCTGGCAAAGTACACTGCTGGTCAAGTGTATTACTTTCCAGCTTTCCAATCAGCTACTCATGGGGAGAAATTGAGTCATGAATTAAGGAGATACCTCACAAGAGAGACTGCATGGGAAGCATGGATCATATGCATTGCAGAGATACTTAGTAATTAG
Protein sequence	>Msa0360900 MAAEFSKYQISVNVYAFSDKYTDIASLGTLAKYTAGQVYYFPAFQSATHGEKLSHELRRYLTRETAWEAWIICIAEILSN*