AlfalfaGEDB | Msa0217910

M. sativa cultivar zhongmu-4 / Msa0217910

KEGG: -
GO: -
PFAM: PF04640.17

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0217910	KEH38903.1	67.290	107	17	1	1	89	33	139	5.24e-41	144

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
Msa0217910	A0A072VBY3	67.290	107	17	1	1	89	33	139	2.50e-41	144

TFs/TRs:

Gene ID	Type	Classification
Msa0217910	TF	PLATZ

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	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0217910	MtrunA17_Chr2g0320521	67.290	107	17	1	1	89	35	141	4.83e-45	144
Msa0217910	MtrunA17_Chr4g0020811	55.556	108	30	1	2	91	36	143	5.06e-30	104
Msa0217910	MtrunA17_Chr2g0308401	54.630	108	31	1	2	91	34	141	2.27e-29	102
Msa0217910	MtrunA17_Chr2g0320561	45.283	106	40	1	2	89	34	139	9.57e-24	90.1
Msa0217910	MtrunA17_Chr2g0320551	44.444	108	42	1	2	91	34	141	1.42e-22	85.5
Msa0217910	MtrunA17_Chr7g0265291	37.615	109	40	4	1	89	35	135	9.68e-13	60.8
Msa0217910	MtrunA17_Chr1g0179781	35.514	107	43	2	1	89	35	133	1.62e-12	60.1
Msa0217910	MtrunA17_Chr5g0411151	33.645	107	44	4	1	89	63	160	4.15e-12	59.3
Msa0217910	MtrunA17_Chr5g0395181	32.710	107	45	4	1	89	49	146	5.33e-11	56.2
Msa0217910	MtrunA17_Chr4g0040071	32.710	107	45	4	1	89	43	140	9.30e-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
Msa0217910	AT1G43000.2	35.514	107	42	3	1	89	44	141	1.58e-13	63.5
Msa0217910	AT1G43000.1	35.514	107	42	3	1	89	37	134	1.80e-13	63.2
Msa0217910	AT1G32700.2	35.514	107	42	4	1	89	1	98	1.77e-11	57.4
Msa0217910	AT1G32700.1	35.514	107	42	4	1	89	40	137	2.62e-11	57.4
Msa0217910	AT4G17900.1	37.037	108	40	5	1	89	62	160	3.04e-11	57.4
Msa0217910	AT4G17900.2	37.037	108	40	5	1	89	48	146	4.08e-11	57.0

Find 14 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TTCCTCGTAGATTGGGAATA+AGG	0.272553	2_1:-64877302	None:intergenic
AGGAACAAGATTGGTGTAAT+TGG	0.312640	2_1:+64877320	Msa0217910:CDS
TTTATGCAAGATCCGCAAAA+TGG	0.319542	2_1:-64876961	None:intergenic
CAATCTTGTTCCTCGTAGAT+TGG	0.330178	2_1:-64877310	None:intergenic
GTCAGAGAGCAAAAGTAATA+AGG	0.339255	2_1:-64877392	None:intergenic
GTTGCATTAGCAACCATCTT+TGG	0.344571	2_1:+64877342	Msa0217910:CDS
CTTGACATATCTTCCAAAGA+TGG	0.406834	2_1:-64877355	None:intergenic
AATCTTGTTCCTCGTAGATT+GGG	0.424615	2_1:-64877309	None:intergenic
CAATCTACGAGGAACAAGAT+TGG	0.534604	2_1:+64877311	Msa0217910:CDS
ATATGTCAAGGAAATCTTGT+GGG	0.554890	2_1:+64877368	Msa0217910:CDS
CAGTTGTATTCATAAACAAG+AGG	0.585618	2_1:+64877279	Msa0217910:CDS
CATCTTTGGAAGATATGTCA+AGG	0.608172	2_1:+64877356	Msa0217910:CDS
GATATGTCAAGGAAATCTTG+TGG	0.609976	2_1:+64877367	Msa0217910:CDS
GGCCTTATTCCCAATCTACG+AGG	0.722899	2_1:+64877300	Msa0217910:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	TTTTTTTTTTTTTTTGACTT+TGG	+	chr2_1:64877123-64877142	Msa0217910:intron	10.0%
!!!	TTTTTTTTTTTTTTGACTTT+GGG	+	chr2_1:64877124-64877143	Msa0217910:intron	10.0%
!!!	GTAAGTGTTGTTTAAAGTAA+CGG	+	chr2_1:64877015-64877034	Msa0217910:intron	25.0%
	CAGTTGTATTCATAAACAAG+AGG	+	chr2_1:64877279-64877298	Msa0217910:CDS	30.0%
	ATATGTCAAGGAAATCTTGT+GGG	+	chr2_1:64877368-64877387	Msa0217910:CDS	30.0%
!	TGCAATGACAATCCATTTTG+CGG	+	chr2_1:64876949-64876968	Msa0217910:CDS	35.0%
	TTTATGCAAGATCCGCAAAA+TGG	-	chr2_1:64876964-64876983	None:intergenic	35.0%
	GATACTTGCAATTACAAACC+AGG	+	chr2_1:64877164-64877183	Msa0217910:intron	35.0%
	AATCTTGTTCCTCGTAGATT+GGG	-	chr2_1:64877312-64877331	None:intergenic	35.0%
	AGGAACAAGATTGGTGTAAT+TGG	+	chr2_1:64877320-64877339	Msa0217910:CDS	35.0%
	CTTGACATATCTTCCAAAGA+TGG	-	chr2_1:64877358-64877377	None:intergenic	35.0%
!	CATCTTTGGAAGATATGTCA+AGG	+	chr2_1:64877356-64877375	Msa0217910:CDS	35.0%
	GATATGTCAAGGAAATCTTG+TGG	+	chr2_1:64877367-64877386	Msa0217910:CDS	35.0%
	GTCAGAGAGCAAAAGTAATA+AGG	-	chr2_1:64877395-64877414	None:intergenic	35.0%
	CATAAGATGATCTACTCACC+TGG	-	chr2_1:64877185-64877204	None:intergenic	40.0%
	TTCCTCGTAGATTGGGAATA+AGG	-	chr2_1:64877305-64877324	None:intergenic	40.0%
	CAATCTTGTTCCTCGTAGAT+TGG	-	chr2_1:64877313-64877332	None:intergenic	40.0%
	CAATCTACGAGGAACAAGAT+TGG	+	chr2_1:64877311-64877330	Msa0217910:CDS	40.0%
	GTTGCATTAGCAACCATCTT+TGG	+	chr2_1:64877342-64877361	Msa0217910:CDS	40.0%
!	CTTTTGCTCTCTGACATGCA+AGG	+	chr2_1:64877400-64877419	Msa0217910:CDS	45.0%
!!	GGCCTTATTCCCAATCTACG+AGG	+	chr2_1:64877300-64877319	Msa0217910:CDS	50.0%

Chromosome	Type	Strat	End	Strand	Name
chr2_1	gene	64876934	64877427	64876934	ID=Msa0217910;Name=Msa0217910
chr2_1	mRNA	64876934	64877427	64876934	ID=Msa0217910-mRNA-1;Parent=Msa0217910;Name=Msa0217910-mRNA-1;_AED=0.27;_eAED=0.27;_QI=0\|0\|0\|1\|0\|0\|2\|0\|91
chr2_1	exon	64876934	64877018	64876934	ID=Msa0217910-mRNA-1:exon:18046;Parent=Msa0217910-mRNA-1
chr2_1	exon	64877240	64877427	64877240	ID=Msa0217910-mRNA-1:exon:18047;Parent=Msa0217910-mRNA-1
chr2_1	CDS	64876934	64877018	64876934	ID=Msa0217910-mRNA-1:cds;Parent=Msa0217910-mRNA-1
chr2_1	CDS	64877240	64877427	64877240	ID=Msa0217910-mRNA-1:cds;Parent=Msa0217910-mRNA-1

Gene Sequence	>Msa0217910 ATGATCTGTCTCGATTGCAATGACAATCCATTTTGCGGATCTTGCATAAAATCTCATCACAAAGATCATCGAGTAATTCATGTAAACATTCTAAGAATTCAAACATATGTGATTAGCAACTTTACAGTTGTATTCATAAACAAGAGGCCTTATTCCCAATCTACGAGGAACAAGATTGGTGTAATTGGTTGCATTAGCAACCATCTTTGGAAGATATGTCAAGGAAATCTTGTGGGTCCTTATTACTTTTGCTCTCTGACATGCAAGGAAAAT
Protein sequence	>Msa0217910 MICLDCNDNPFCGSCIKSHHKDHRVIHVNILRIQTYVISNFTVVFINKRPYSQSTRNKIGVIGCISNHLWKICQGNLVGPYYFCSLTCKEN