AlfalfaGEDB | Msa0179920

M. sativa cultivar zhongmu-4 / Msa0179920

KEGG: K07560|K11644
GO: GO:0000003 GO:0001708 GO:0002119 GO:0002164 GO:0003006 GO:0003674 GO:0005488 GO:0005515 GO:0007275 GO:0007423 GO:0007548 GO:0008150 GO:0009653 GO:0009791 GO:0009887 GO:0009987 GO:0022414 GO:0030154 GO:0030539 GO:0032501 GO:0032502 GO:0035112 GO:0040011 GO:0040025 GO:0045165 GO:0046661 GO:0048513 GO:0048569 GO:0048608 GO:0048731 GO:0048806 GO:0048808 GO:0048856 GO:0048869 GO:0061458 GO:0090596 GO:0090597 GO:0090598
PFAM: PF02671.24

Nr:

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

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
Msa0179920	G7IE26	60.784	51	20	0	41	91	22	72	4.89e-11	64.3

TFs/TRs:

Gene ID	Type	Classification
Msa0179920	TR	Others

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR

PPI

Gene1	Gene2	Type

Query id	Subject id	identity %	alignment length	mismatches	q. start	q. end	s. start	s. end	e-value	bit score
Msa0179920	MtrunA17_Chr1g0205861	60.784	51	20	41	91	22	72	9.42e-15	64.3
Msa0179920	MtrunA17_Chr1g0206771	59.091	44	18	47	90	28	71	6.84e-13	60.8
Msa0179920	MtrunA17_Chr7g0256011	51.020	49	24	43	91	24	72	3.14e-11	55.5

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 24 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
ATTACCCTGTGCTAGGGTTT+TGG	0.287761	1_4:+67621078	None:intergenic
GTTTCATTTCAAAATTAAAT+CGG	0.383681	1_4:+67620702	None:intergenic
AGTTGTGTTTCAAGATAAGA+TGG	0.477817	1_4:-67620827	Msa0179920:CDS
AGGTTAAATTACCCTGTGCT+AGG	0.487201	1_4:+67621071	None:intergenic
CAACTCTGCAACAAATTCAA+TGG	0.491277	1_4:-67621034	Msa0179920:intron
CACTTCCAAAACCCTAGCAC+AGG	0.522708	1_4:-67621083	Msa0179920:CDS
GGTTAAATTACCCTGTGCTA+GGG	0.527037	1_4:+67621072	None:intergenic
GAGTTGAATTGCGTCGGCAG+AGG	0.543887	1_4:+67621051	None:intergenic
AAAATGGAGGATTTGTTCGA+AGG	0.572191	1_4:-67620730	Msa0179920:CDS
GTTGCAGAGTTGAATTGCGT+CGG	0.606403	1_4:+67621045	None:intergenic
TGGTCAGAAAGTACTAAGCA+TGG	0.644763	1_4:-67620865	Msa0179920:intron
AATTGATCAAGAAAGTGCCA+CGG	0.683353	1_4:-67620755	Msa0179920:CDS
ACTTCCAAAACCCTAGCACA+GGG	0.699965	1_4:-67621082	Msa0179920:CDS
TCAGAAAGTACTAAGCATGG+AGG	0.748367	1_4:-67620862	Msa0179920:intron

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	AGTTATTTTCTGTTTTGAAT+TGG	-	chr1_4:67620956-67620975	Msa0179920:intron	20.0%
!	TTCGTTATATAGCACTAATT+AGG	-	chr1_4:67620806-67620825	Msa0179920:CDS	25.0%
!	TCGTTATATAGCACTAATTA+GGG	-	chr1_4:67620807-67620826	Msa0179920:CDS	25.0%
!!!	GAAAGTTTTGTATGATTTCA+AGG	-	chr1_4:67621148-67621167	Msa0179920:intron	25.0%
!!	TTCTGTTTTGAATTGGAAGA+TGG	-	chr1_4:67620963-67620982	Msa0179920:intron	30.0%
	AGTTGTGTTTCAAGATAAGA+TGG	-	chr1_4:67621106-67621125	Msa0179920:CDS	30.0%
	CAACTCTGCAACAAATTCAA+TGG	-	chr1_4:67620899-67620918	Msa0179920:intron	35.0%
	GCAACAAATTCAATGGTATG+CGG	-	chr1_4:67620906-67620925	Msa0179920:intron	35.0%
!!	AATTGATCAAGAAAGTGCCA+CGG	-	chr1_4:67621178-67621197	Msa0179920:intron	35.0%
!	AAAATGGAGGATTTGTTCGA+AGG	-	chr1_4:67621203-67621222	Msa0179920:intron	35.0%
	GGTTAAATTACCCTGTGCTA+GGG	+	chr1_4:67620864-67620883	None:intergenic	40.0%
	AGGTTAAATTACCCTGTGCT+AGG	+	chr1_4:67620865-67620884	None:intergenic	40.0%
!	AAGGATTACAGTGATGATGC+TGG	-	chr1_4:67621048-67621067	Msa0179920:CDS	40.0%
!!	TGGTCAGAAAGTACTAAGCA+TGG	-	chr1_4:67621068-67621087	Msa0179920:CDS	40.0%
!!	TCAGAAAGTACTAAGCATGG+AGG	-	chr1_4:67621071-67621090	Msa0179920:CDS	40.0%
	ACTTCCAAAACCCTAGCACA+GGG	-	chr1_4:67620851-67620870	Msa0179920:CDS	45.0%
!	ATTACCCTGTGCTAGGGTTT+TGG	+	chr1_4:67620858-67620877	None:intergenic	45.0%
	GTTGCAGAGTTGAATTGCGT+CGG	+	chr1_4:67620891-67620910	None:intergenic	45.0%
	GCTTTCTTTGCGACTGATGA+AGG	-	chr1_4:67621029-67621048	Msa0179920:intron	45.0%
!!	AGAAAGTGCCACGGCAAAAA+TGG	-	chr1_4:67621187-67621206	Msa0179920:intron	45.0%
!!	CAAATCCTCCATTTTTGCCG+TGG	+	chr1_4:67621198-67621217	None:intergenic	45.0%
	CACTTCCAAAACCCTAGCAC+AGG	-	chr1_4:67620850-67620869	Msa0179920:CDS	50.0%
	AAGTGCCACGGCAAAAATGG+AGG	-	chr1_4:67621190-67621209	Msa0179920:intron	50.0%
!	GAGTTGAATTGCGTCGGCAG+AGG	+	chr1_4:67620885-67620904	None:intergenic	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr1_4	gene	67620705	67621250	67620705	ID=Msa0179920;Name=Msa0179920
chr1_4	mRNA	67620705	67621250	67620705	ID=Msa0179920-mRNA-1;Parent=Msa0179920;Name=Msa0179920-mRNA-1;_AED=0.60;_eAED=0.60;_QI=0\|0\|0\|0.33\|0\|0\|3\|0\|91
chr1_4	exon	67621244	67621250	67621244	ID=Msa0179920-mRNA-1:exon:22315;Parent=Msa0179920-mRNA-1
chr1_4	exon	67621035	67621127	67621035	ID=Msa0179920-mRNA-1:exon:22314;Parent=Msa0179920-mRNA-1
chr1_4	exon	67620705	67620880	67620705	ID=Msa0179920-mRNA-1:exon:22313;Parent=Msa0179920-mRNA-1
chr1_4	CDS	67621244	67621250	67621244	ID=Msa0179920-mRNA-1:cds;Parent=Msa0179920-mRNA-1
chr1_4	CDS	67621035	67621127	67621035	ID=Msa0179920-mRNA-1:cds;Parent=Msa0179920-mRNA-1
chr1_4	CDS	67620705	67620880	67620705	ID=Msa0179920-mRNA-1:cds;Parent=Msa0179920-mRNA-1

Gene Sequence	>Msa0179920 ATGTGGAGGCACAACAAACTCAACATCAACACTTCCAAAACCCTAGCACAGGGTAATTTAACCTCTGCCGACGCAATTCAACTCTGCAACAAATTCAATGAAAGTACTAAGCATGGAGGAAGCATCATCGTAGTTGTGTTTCAAGATAAGATGGAAAAGTATGATGAGTTTGTGAAAGTTTTGTATGATTTCAAGGCTCTAAGAATTGATCAAGAAAGTGCCACGGCAAAAATGGAGGATTTGTTCGAAGGACATTCCGATTTAATTTTGAAATGA
Protein sequence	>Msa0179920 MWRHNKLNINTSKTLAQGNLTSADAIQLCNKFNESTKHGGSIIVVVFQDKMEKYDEFVKVLYDFKALRIDQESATAKMEDLFEGHSDLILK*