AlfalfaGEDB | Msa1256380

M. sativa cultivar zhongmu-4 / Msa1256380

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1256380	RHN63001.1	94.118	85	5	0	1	85	412	496	6.66e-46	163

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
Msa1256380	A0A396IDU1	94.118	85	5	0	1	85	412	496	3.18e-46	163

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0637070	Msa1256380	0.800426	1.449521e-48	-8.615850e-47
Msa0657970	Msa1256380	0.812994	3.203525e-51	-8.615850e-47
Msa0766630	Msa1256380	0.801488	8.795308e-49	-8.615850e-47
Msa0777930	Msa1256380	0.800340	1.509027e-48	-8.615850e-47
Msa0806090	Msa1256380	0.800024	1.749595e-48	-8.615850e-47
Msa1249490	Msa1256380	0.814364	1.599548e-51	-8.615850e-47
Msa1256380	Msa1308580	0.823141	1.624600e-53	-8.615850e-47
Msa1256380	Msa1308620	0.809977	1.449045e-50	-8.615850e-47
Msa1256380	Msa1308640	0.800869	1.176932e-48	-8.615850e-47
Msa1256380	Msa1423990	0.808595	2.867169e-50	-8.615850e-47
Msa0431690	Msa1256380	0.807719	4.405066e-50	-8.615850e-47
Msa0437990	Msa1256380	0.805504	1.292950e-49	-8.615850e-47
Msa0458700	Msa1256380	0.807433	5.067534e-50	-8.615850e-47
Msa0983090	Msa1256380	0.816093	6.605960e-52	-8.615850e-47
Msa1079180	Msa1256380	0.806828	6.803810e-50	-8.615850e-47
Msa1082500	Msa1256380	0.805931	1.052043e-49	-8.615850e-47
Msa0344830	Msa1256380	0.803762	2.986614e-49	-8.615850e-47
Msa1136090	Msa1256380	0.818092	2.346960e-52	-8.615850e-47
Msa1205130	Msa1256380	0.808499	3.005621e-50	-8.615850e-47
Msa0860410	Msa1256380	0.802014	6.859058e-49	-8.615850e-47
Msa0885270	Msa1256380	0.818652	1.752992e-52	-8.615850e-47
Msa0885280	Msa1256380	0.850896	1.262360e-60	-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
Msa1256380	MtrunA17_Chr4g0053591	94.118	85	5	0	1	85	412	496	6.12e-50	163
Msa1256380	MtrunA17_Chr4g0053561	94.118	85	5	0	1	85	704	788	4.13e-49	164
Msa1256380	MtrunA17_Chr4g0053571	90.588	85	8	0	1	85	761	845	5.80e-47	159
Msa1256380	MtrunA17_Chr4g0053521	61.429	70	19	2	1	62	1323	1392	7.96e-18	76.3

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

Find 14 sgRNAs with CRISPR-Local

Find 12 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
GAAGGTAAACGCTGAACATT+AGG	0.400534	8_2:+56322123	None:intergenic
GGTTGATGTGTTGTGGGACT+TGG	0.413333	8_2:-56322217	Msa1256380:CDS
TACTGCTAGGGTTGATGAAT+CGG	0.415151	8_2:-56322067	Msa1256380:CDS
AACAATGGTTGATGTGTTGT+GGG	0.500085	8_2:-56322223	None:intergenic
TCCGTCTACACTGACTGAAG+TGG	0.543762	8_2:-56322100	Msa1256380:CDS
ATTTCATGCGAAGCAAATCA+AGG	0.551160	8_2:-56322015	Msa1256380:CDS
TGGATGGCACATCTACTGCT+AGG	0.557537	8_2:-56322080	Msa1256380:CDS
TCCACTTCAGTCAGTGTAGA+CGG	0.566831	8_2:+56322099	None:intergenic
TAACAATGGTTGATGTGTTG+TGG	0.587397	8_2:-56322224	None:intergenic
TCAGTCAGTGTAGACGGAGA+AGG	0.608974	8_2:+56322105	None:intergenic
GGATGGCACATCTACTGCTA+GGG	0.621203	8_2:-56322079	Msa1256380:CDS
TCTACACTGACTGAAGTGGA+TGG	0.673275	8_2:-56322096	Msa1256380:CDS
CTGCTAGAACTATCCTCATG+CGG	0.675161	8_2:+56322168	None:intergenic
GCTTCAGAGAGAACCGCATG+AGG	0.675342	8_2:-56322181	Msa1256380:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
	ATTTCATGCGAAGCAAATCA+AGG	-	chr8_2:56322188-56322207	Msa1256380:CDS	35.0%
	GAAGGTAAACGCTGAACATT+AGG	+	chr8_2:56322083-56322102	None:intergenic	40.0%
!!	TACTGCTAGGGTTGATGAAT+CGG	-	chr8_2:56322136-56322155	Msa1256380:CDS	40.0%
	CTGCTAGAACTATCCTCATG+CGG	+	chr8_2:56322038-56322057	None:intergenic	45.0%
	TCCACTTCAGTCAGTGTAGA+CGG	+	chr8_2:56322107-56322126	None:intergenic	45.0%
!	TCTACACTGACTGAAGTGGA+TGG	-	chr8_2:56322107-56322126	Msa1256380:CDS	45.0%
!	GGTTGATGTGTTGTGGGACT+TGG	-	chr8_2:56321986-56322005	Msa1256380:CDS	50.0%
	TCAGTCAGTGTAGACGGAGA+AGG	+	chr8_2:56322101-56322120	None:intergenic	50.0%
!	TCCGTCTACACTGACTGAAG+TGG	-	chr8_2:56322103-56322122	Msa1256380:CDS	50.0%
	TGGATGGCACATCTACTGCT+AGG	-	chr8_2:56322123-56322142	Msa1256380:CDS	50.0%
	GGATGGCACATCTACTGCTA+GGG	-	chr8_2:56322124-56322143	Msa1256380:CDS	50.0%
	GCTTCAGAGAGAACCGCATG+AGG	-	chr8_2:56322022-56322041	Msa1256380:CDS	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr8_2	gene	56321984	56322241	56321984	ID=Msa1256380;Name=Msa1256380
chr8_2	mRNA	56321984	56322241	56321984	ID=Msa1256380-mRNA-1;Parent=Msa1256380;Name=Msa1256380-mRNA-1;_AED=0.50;_eAED=0.50;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|85
chr8_2	exon	56321984	56322241	56321984	ID=Msa1256380-mRNA-1:exon:17396;Parent=Msa1256380-mRNA-1
chr8_2	CDS	56321984	56322241	56321984	ID=Msa1256380-mRNA-1:cds;Parent=Msa1256380-mRNA-1

Gene Sequence	>Msa1256380 ATGGTTGATGTGTTGTGGGACTTGGAATATGCTTTGCAGCTTCAGAGAGAACCGCATGAGGATAGTTCTAGCAGTGCTTTTGCATCACTTCAATTGCCTAATGTTCAGCGTTTACCTTCTCCGTCTACACTGACTGAAGTGGATGGCACATCTACTGCTAGGGTTGATGAATCGGAAAGTGCAGCGCTGATGATGCTAGACAGAATTTCATGCGAAGCAAATCAAGGTACAACAATCAACACGCAAGTGTCTCCGTGA
Protein sequence	>Msa1256380 MVDVLWDLEYALQLQREPHEDSSSSAFASLQLPNVQRLPSPSTLTEVDGTSTARVDESESAALMMLDRISCEANQGTTINTQVSP*