AlfalfaGEDB | Msa0297220

M. sativa cultivar zhongmu-4 / Msa0297220

KEGG: -
GO: -
PFAM: PF04640.17

Nr:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0297220	RHN75377.1	91.139	237	15	1	1	237	2	232	1.99e-144	413

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Swissprot:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0297220	sp\|Q1G3Q4\|RITF1_ARATH	37.857	140	76	5	7	146	8	136	1.06e-19	88.2

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Trembl:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0297220	A0A396JJY5	91.139	237	15	1	1	237	2	232	9.51e-145	413

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TFs/TRs:

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Gene ID	Type	Classification
Msa0297220	TF	PLATZ

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Protein Kinases:

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Gene ID	Type	Classification
No data available in table

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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
No data available in table

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PPI

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Gene1	Gene2	Type
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Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0297220	MtrunA17_Chr2g0320521	91.139	237	15	1	1	237	2	232	1.83e-148	413
Msa0297220	MtrunA17_Chr2g0320561	60.816	245	85	3	2	237	1	243	6.73e-90	265
Msa0297220	MtrunA17_Chr4g0020811	66.887	151	50	0	1	151	2	152	2.28e-68	207
Msa0297220	MtrunA17_Chr2g0308401	66.000	150	51	0	2	151	1	150	8.46e-67	203
Msa0297220	MtrunA17_Chr2g0320551	58.278	151	62	1	2	152	1	150	4.89e-58	181
Msa0297220	MtrunA17_Chr1g0179781	39.837	246	92	8	1	236	2	201	3.04e-48	157
Msa0297220	MtrunA17_Chr7g0265291	40.417	240	97	10	2	236	4	202	1.42e-43	145
Msa0297220	MtrunA17_Chr5g0411151	36.364	242	106	7	1	236	31	230	4.34e-41	140
Msa0297220	MtrunA17_Chr5g0395181	35.169	236	108	5	1	236	17	207	2.08e-40	138
Msa0297220	MtrunA17_Chr4g0040071	34.335	233	115	6	4	236	14	208	1.08e-38	133

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Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0297220	AT1G43000.2	37.083	240	119	7	1	236	12	223	7.05e-46	152
Msa0297220	AT1G43000.1	37.083	240	119	7	1	236	5	216	7.72e-46	152
Msa0297220	AT1G21000.1	35.366	246	138	8	1	236	12	246	1.42e-41	142
Msa0297220	AT1G21000.2	35.366	246	138	8	1	236	9	243	1.56e-41	142
Msa0297220	AT1G76590.1	35.565	239	134	7	6	236	19	245	6.38e-40	138
Msa0297220	AT4G17900.1	48.921	139	60	4	4	141	33	161	3.79e-38	133
Msa0297220	AT1G32700.1	47.857	140	63	3	7	146	14	143	7.62e-38	132
Msa0297220	AT4G17900.2	48.921	139	60	4	4	141	19	147	1.33e-37	131
Msa0297220	AT2G27930.1	46.043	139	69	3	7	142	6	141	7.44e-35	123
Msa0297220	AT2G27930.4	46.043	139	69	3	7	142	6	141	7.44e-35	123

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Find 35 sgRNAs with CRISPR-Local

Find 126 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAGCCAAATTCAAGAAGAA+AGG	0.446839	2_3:+50881456	Msa0297220:CDS
AAATCGAAAATTAAATGAAG+CGG	0.566619	2_3:+50881342	Msa0297220:CDS
AACTTCACATGATGTGAAGA+AGG	0.546693	2_3:-50880374	None:intergenic
AAGAAAGGGAATTCCTCGTA+GGG	0.587893	2_3:+50881471	Msa0297220:CDS
AAGAAGACGATAGGTATAAT+TGG	0.364201	2_3:+50880819	Msa0297220:CDS
AAGCCAAATTCAAGAAGAAA+GGG	0.497702	2_3:+50881457	Msa0297220:CDS
AAGGTCCTACAAGATTCCTT+TGG	0.477640	2_3:-50880872	None:intergenic
AATCGAAAATTAAATGAAGC+GGG	0.509554	2_3:+50881343	Msa0297220:CDS
AATCGAAATTTACAAGCATT+TGG	0.312437	2_3:+50880716	Msa0297220:CDS
AGAAATGGAAAGATTGTTGG+AGG	0.534953	2_3:+50881267	Msa0297220:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TTAATGCAAGATCCACAAAA+TGG	-	chr2_3:50880457-50880476	None:intergenic	30.0%
TACAAGCATTTGGATATTCT+AGG	+	chr2_3:50880726-50880745	Msa0297220:CDS	30.0%
TGTAAAGTTGCTAATCACAT+AGG	-	chr2_3:50880760-50880779	None:intergenic	30.0%
CAGTTGTATTCATAAACAAG+AGG	+	chr2_3:50880778-50880797	Msa0297220:CDS	30.0%
AAGAAGACGATAGGTATAAT+TGG	+	chr2_3:50880819-50880838	Msa0297220:CDS	30.0%
ATCTTTGTAAGATATGCCAA+AGG	+	chr2_3:50880856-50880875	Msa0297220:CDS	30.0%
CAAGTTTGAATGCATAAAGA+AGG	+	chr2_3:50881210-50881229	Msa0297220:intron	30.0%
TTTGAATGCATAAAGAAGGA+TGG	+	chr2_3:50881214-50881233	Msa0297220:CDS	30.0%
TTGAATGCATAAAGAAGGAT+GGG	+	chr2_3:50881215-50881234	Msa0297220:CDS	30.0%
AGAAGAAATGGAAAGATTGT+TGG	+	chr2_3:50881264-50881283	Msa0297220:CDS	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr2_3	gene	50880328	50881507	50880328	ID=Msa0297220;Name=Msa0297220
chr2_3	mRNA	50880328	50881507	50880328	ID=Msa0297220-mRNA-1;Parent=Msa0297220;Name=Msa0297220-mRNA-1;_AED=0.07;_eAED=0.07;_QI=0\|0\|0\|1\|1\|1\|3\|0\|237
chr2_3	exon	50880328	50880507	50880328	ID=Msa0297220-mRNA-1:exon:15983;Parent=Msa0297220-mRNA-1
chr2_3	exon	50880681	50880920	50880681	ID=Msa0297220-mRNA-1:exon:15984;Parent=Msa0297220-mRNA-1
chr2_3	exon	50881214	50881507	50881214	ID=Msa0297220-mRNA-1:exon:15985;Parent=Msa0297220-mRNA-1
chr2_3	CDS	50880328	50880507	50880328	ID=Msa0297220-mRNA-1:cds;Parent=Msa0297220-mRNA-1
chr2_3	CDS	50880681	50880920	50880681	ID=Msa0297220-mRNA-1:cds;Parent=Msa0297220-mRNA-1
chr2_3	CDS	50881214	50881507	50881214	ID=Msa0297220-mRNA-1:cds;Parent=Msa0297220-mRNA-1

Gene Sequence

>Msa0297220

GATATGATGTTCGTGCCCTGGCTCAAAAATTTGCTTGAAATCACGGCCTTCTTCACATCATGTGAAGTTCATCTGAATGAGTCAAAAAATGAACGCAACATGTTCTGTCTCGAATGCAATGACAATCCATTTTGTGGATCTTGCATTAAATCTCATCACAAAGATCATCGAGTAATCCAAGTGAGGAGATCATCTTATACAAACGTCATTAAGACAATCGAAATTTACAAGCATTTGGATATTCTAGGAATCCAAACCTATGTGATTAGCAACTTTACAGTTGTATTCATAAACAAGAGGCCTTATTCCCAACCTACGAAGAAGACGATAGGTATAATTGGTTGCAGTAGCGACTATCTTTGTAAGATATGCCAAAGGAATCTTGTAGGACCTTATTACTTTTGCTCTCTGGCATGCAAGTTTGAATGCATAAAGAAGGATGGGGGCTTTTTCCTAAGTGCAAAGGAGACAGAAGAAATGGAAAGATTGTTGGAGGAATCAATCAAGGCACCAAAACAAAAAGCCAAAAAATCGCGTGAACAAAATCTAAATCGAAAATTAAATGAAGCGGGAATCAACAATGAAGAAAACGAAGAGAATGAAGAAAAAAGGGAGGAAGAAGAAAATGAACAAGAAAAAAGAGAAAACATGCTTCCTATCAAAAAGCCAAATTCAAGAAGAAAGGGAATTCCTCGTAGGGCACCCTTTTTTTAA

Protein sequence

>Msa0297220

DMMFVPWLKNLLEITAFFTSCEVHLNESKNERNMFCLECNDNPFCGSCIKSHHKDHRVIQVRRSSYTNVIKTIEIYKHLDILGIQTYVISNFTVVFINKRPYSQPTKKTIGIIGCSSDYLCKICQRNLVGPYYFCSLACKFECIKKDGGFFLSAKETEEMERLLEESIKAPKQKAKKSREQNLNRKLNEAGINNEENEENEEKREEEENEQEKRENMLPIKKPNSRRKGIPRRAPFF*