AlfalfaGEDB | Msa0587540

M. sativa cultivar zhongmu-4 / Msa0587540

KEGG: -
GO: -
PFAM: PF05553.14

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0587540	XP_013454667.1	95.349	86	2	1	1	84	1	86	1.17e-49	161

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0587540	A0A072UHU7	95.349	86	2	1	1	84	1	86	5.58e-50	161

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0106710	Msa0587540	0.803168	3.965203e-49	-8.615850e-47
Msa0111080	Msa0587540	0.802365	5.808290e-49	-8.615850e-47
Msa0139670	Msa0587540	0.815676	8.183559e-52	-8.615850e-47
Msa0206830	Msa0587540	0.808431	3.107661e-50	-8.615850e-47
Msa0403770	Msa0587540	0.809862	1.533851e-50	-8.615850e-47
Msa0472770	Msa0587540	0.809771	1.604544e-50	-8.615850e-47
Msa0240270	Msa0587540	0.819505	1.121334e-52	-8.615850e-47
Msa0321690	Msa0587540	0.806158	9.421840e-50	-8.615850e-47
Msa0482940	Msa0587540	0.818291	2.116679e-52	-8.615850e-47
Msa0518170	Msa0587540	0.805118	1.557585e-49	-8.615850e-47
Msa0530710	Msa0587540	0.820352	7.177784e-53	-8.615850e-47
Msa0587540	Msa0627760	0.800786	1.223937e-48	-8.615850e-47
Msa0587540	Msa0665520	0.848503	5.881204e-60	-8.615850e-47
Msa0587540	Msa0705990	0.818276	2.132393e-52	-8.615850e-47
Msa0587540	Msa0709120	0.816798	4.592140e-52	-8.615850e-47
Msa0587540	Msa0811040	0.800788	1.222713e-48	-8.615850e-47
Msa0587540	Msa0844280	0.802367	5.801680e-49	-8.615850e-47
Msa0587540	Msa0960390	0.804268	2.343659e-49	-8.615850e-47
Msa0587540	Msa0974950	0.805585	1.243356e-49	-8.615850e-47
Msa0587540	Msa0992580	0.805972	1.031234e-49	-8.615850e-47
Msa0587540	Msa1024680	0.800587	1.343871e-48	-8.615850e-47
Msa0587540	Msa1063420	0.817156	3.816975e-52	-8.615850e-47
Msa0587540	Msa1250110	0.802357	5.828573e-49	-8.615850e-47
Msa0587540	Msa1270660	0.806137	9.519511e-50	-8.615850e-47
Msa0587540	Msa1307180	0.800276	1.554673e-48	-8.615850e-47
Msa0587540	Msa1336040	0.802344	5.865911e-49	-8.615850e-47
Msa0587540	Msa1370590	0.816740	4.732691e-52	-8.615850e-47
Msa0587540	Msa1384100	0.818858	1.574079e-52	-8.615850e-47
Msa0587540	Msa1444120	0.818605	1.796390e-52	-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
Msa0587540	MtrunA17_Chr4g0003591	95.349	86	2	1	1	84	1	86	1.07e-53	161
Msa0587540	MtrunA17_Chr2g0332831	56.250	96	28	4	1	83	1	95	1.95e-25	90.5

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score

Find 13 sgRNAs with CRISPR-Local

Find 15 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
CCTTGGTGATTGTGGCTTGA+TGG	0.212503	4_2:+9110022	None:intergenic
GTTTGATCTCTTCCTTTCCT+TGG	0.347061	4_2:+9110005	None:intergenic
CTTCCTTTCCTTGGTGATTG+TGG	0.377051	4_2:+9110014	None:intergenic
ATTATGAGAAAATGCTTGCT+AGG	0.453535	4_2:-9109820	Msa0587540:CDS
TTATGAGAAAATGCTTGCTA+GGG	0.510063	4_2:-9109819	Msa0587540:CDS
CTGCCTAAAATTCTTAATGA+AGG	0.513078	4_2:+9109877	None:intergenic
GCATTGATATCTTCTTCACT+TGG	0.515090	4_2:+9109911	None:intergenic
GGCAGCAGCTTATGCTTCAG+AGG	0.527016	4_2:-9109859	Msa0587540:CDS
TTGCAAATAGCTCTTTCTCA+TGG	0.538159	4_2:+9110045	None:intergenic
AGAAAATGCTTGCTAGGGGA+CGG	0.603069	4_2:-9109814	Msa0587540:CDS
AAGCCACAATCACCAAGGAA+AGG	0.625445	4_2:-9110017	Msa0587540:CDS
TATGAGAAAATGCTTGCTAG+GGG	0.668349	4_2:-9109818	Msa0587540:CDS
CCATCAAGCCACAATCACCA+AGG	0.709521	4_2:-9110022	Msa0587540:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	ATGCCTTCATTAAGAATTTT+AGG	-	chr4_2:9109974-9109993	Msa0587540:CDS	25.0%
!!	CATTTTCTCATAATTCTCAA+TGG	+	chr4_2:9110028-9110047	None:intergenic	25.0%
	CTGCCTAAAATTCTTAATGA+AGG	+	chr4_2:9109980-9109999	None:intergenic	30.0%
	ATTATGAGAAAATGCTTGCT+AGG	-	chr4_2:9110034-9110053	Msa0587540:CDS	30.0%
!	TTATGAGAAAATGCTTGCTA+GGG	-	chr4_2:9110035-9110054	Msa0587540:CDS	30.0%
!	GCATTGATATCTTCTTCACT+TGG	+	chr4_2:9109946-9109965	None:intergenic	35.0%
!	TATGAGAAAATGCTTGCTAG+GGG	-	chr4_2:9110036-9110055	Msa0587540:CDS	35.0%
	GTTTGATCTCTTCCTTTCCT+TGG	+	chr4_2:9109852-9109871	None:intergenic	40.0%
	AAGCCACAATCACCAAGGAA+AGG	-	chr4_2:9109837-9109856	Msa0587540:CDS	45.0%
!	CTTCCTTTCCTTGGTGATTG+TGG	+	chr4_2:9109843-9109862	None:intergenic	45.0%
!	AGAAAATGCTTGCTAGGGGA+CGG	-	chr4_2:9110040-9110059	Msa0587540:CDS	45.0%
!	CCTTGGTGATTGTGGCTTGA+TGG	+	chr4_2:9109835-9109854	None:intergenic	50.0%
	CCATCAAGCCACAATCACCA+AGG	-	chr4_2:9109832-9109851	Msa0587540:CDS	50.0%
	GGCAGCAGCTTATGCTTCAG+AGG	-	chr4_2:9109995-9110014	Msa0587540:CDS	55.0%
	ATCGTCGTCGTCGTCGCATG+AGG	-	chr4_2:9109876-9109895	Msa0587540:CDS	60.0%

Chromosome	Type	Strat	End	Strand	Name
chr4_2	gene	9109811	9110065	9109811	ID=Msa0587540;Name=Msa0587540
chr4_2	mRNA	9109811	9110065	9109811	ID=Msa0587540-mRNA-1;Parent=Msa0587540;Name=Msa0587540-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|84
chr4_2	exon	9109811	9110065	9109811	ID=Msa0587540-mRNA-1:exon:2516;Parent=Msa0587540-mRNA-1
chr4_2	CDS	9109811	9110065	9109811	ID=Msa0587540-mRNA-1:cds;Parent=Msa0587540-mRNA-1

Gene Sequence	>Msa0587540 ATGAGAAAGAGCTATTTGCAACCATCAAGCCACAATCACCAAGGAAAGGAAGAGATCAAACATTCATCGTCGTCGTCGTCGCATGAGGCAGAGAAGAAAGTGACTCATCAAACAAGAAAGCTAGAGAGATTGCCAAGTGAAGAAGATATCAATGCTAGTGCTGATGCCTTCATTAAGAATTTTAGGCAGCAGCTTATGCTTCAGAGGCTTCAATCCATTGAGAATTATGAGAAAATGCTTGCTAGGGGACGGTAG
Protein sequence	>Msa0587540 MRKSYLQPSSHNHQGKEEIKHSSSSSSHEAEKKVTHQTRKLERLPSEEDINASADAFIKNFRQQLMLQRLQSIENYEKMLARGR*