AlfalfaGEDB | Msa0013560

M. sativa cultivar zhongmu-4 / Msa0013560

KEGG: -
GO: -
PFAM: PF02362.24

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
Msa0013560	XP_024636868.1	76.453	327	74	1	1	327	1	324	0.0	524

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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
Msa0013560	sp\|Q8L3W1\|VRN1_ARATH	24.773	331	204	11	15	307	6	329	1.40e-19	91.3

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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
No data available in table

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TFs/TRs:

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Gene ID	Type	Classification
Msa0013560	TF	B3

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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
No data available in table

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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
Msa0013560	MtrunA17_Chr4g0067431	76.453	327	74	1	1	327	1	324	0.0	524
Msa0013560	MtrunA17_Chr1g0163221	62.500	328	97	6	1	327	1	303	6.26e-125	362
Msa0013560	MtrunA17_Chr1g0163061	74.340	265	25	1	1	222	1	265	4.17e-114	332
Msa0013560	MtrunA17_Chr6g0467351	63.248	234	77	1	1	234	1	225	2.11e-102	300
Msa0013560	MtrunA17_Chr6g0467361	63.218	87	32	0	236	322	8	94	5.31e-36	125
Msa0013560	MtrunA17_Chr1g0163071	29.114	316	189	10	31	328	2	300	7.18e-35	129
Msa0013560	MtrunA17_Chr8g0390841	30.861	337	190	13	13	331	37	348	1.33e-32	127
Msa0013560	MtrunA17_Chr3g0103181	30.065	306	174	11	13	314	10	279	6.39e-30	115
Msa0013560	MtrunA17_Chr1g0208771	26.198	313	204	11	30	331	12	308	2.09e-29	117
Msa0013560	MtrunA17_Chr1g0163251	28.707	317	189	12	15	327	9	292	5.06e-28	112

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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
Msa0013560	AT3G18990.1	24.773	331	204	11	15	307	6	329	1.42e-20	91.3
Msa0013560	AT3G18990.2	24.773	331	204	11	15	307	6	329	1.97e-20	91.3
Msa0013560	AT3G18960.1	34.314	102	66	1	15	116	30	130	5.83e-16	75.9
Msa0013560	AT3G18960.2	34.314	102	66	1	15	116	30	130	6.63e-16	75.5
Msa0013560	AT1G49475.1	37.931	116	70	2	15	130	34	147	1.34e-15	74.7
Msa0013560	AT4G01580.1	31.373	102	69	1	15	116	30	130	1.45e-14	71.6
Msa0013560	AT3G18960.3	35.632	87	55	1	30	116	8	93	3.54e-12	64.3

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Find 42 sgRNAs with CRISPR-Local

Find 170 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAACAAATACCTTCAAAAT+AGG	0.198463	1_1:-21005827	None:intergenic
AAACAAATACCTTCAAAATA+GGG	0.411333	1_1:-21005826	None:intergenic
AAACATCTGCATAGGATGGA+AGG	0.551037	1_1:+21005586	Msa0013560:CDS
AAATCTCCATTACCGTCTTC+TGG	0.299311	1_1:+21004509	Msa0013560:CDS
AAATCTTCAAGAAGGAAAAC+TGG	0.419117	1_1:+21003933	Msa0013560:CDS
AACTATCGAAGAATATGAAG+AGG	0.576513	1_1:+21004421	Msa0013560:CDS
AAGGATCCTTCATTGCAACG+AGG	0.769771	1_1:+21004476	Msa0013560:CDS
AATAATCAATATACATTAAG+TGG	0.456541	1_1:+21005673	Msa0013560:CDS
AATAGCAACTTGGAATGAAA+TGG	0.399456	1_1:-21005776	None:intergenic
AATATACATTAAGTGGTGGT+TGG	0.506646	1_1:+21005680	Msa0013560:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
CTTCTCAAGAACTTAATCAT+CGG	+	chr1_1:21003872-21003891	Msa0013560:CDS	30.0%
GAACTTAATCATCGGATTAT+TGG	+	chr1_1:21003880-21003899	Msa0013560:CDS	30.0%
CTTCAAACAAATCTTCAAGA+AGG	+	chr1_1:21003925-21003944	Msa0013560:CDS	30.0%
AAATCTTCAAGAAGGAAAAC+TGG	+	chr1_1:21003933-21003952	Msa0013560:CDS	30.0%
ATCTTTAACGTGATTGTATG+TGG	+	chr1_1:21004362-21004381	Msa0013560:CDS	30.0%
CTTCGATAGTTTCTCTTAAA+GGG	-	chr1_1:21004412-21004431	None:intergenic	30.0%
TCTTCGATAGTTTCTCTTAA+AGG	-	chr1_1:21004413-21004432	None:intergenic	30.0%
AACTATCGAAGAATATGAAG+AGG	+	chr1_1:21004421-21004440	Msa0013560:CDS	30.0%
GAATTACTCAATTTCTTAGC+AGG	+	chr1_1:21004748-21004767	Msa0013560:intron	30.0%
GACATTGCATAATTTATGCA+GGG	+	chr1_1:21005302-21005321	Msa0013560:intron	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_1	gene	21003868	21007028	21003868	ID=Msa0013560;Name=Msa0013560
chr1_1	mRNA	21003868	21007028	21003868	ID=Msa0013560-mRNA-1;Parent=Msa0013560;Name=Msa0013560-mRNA-1;_AED=0.08;_eAED=0.08;_QI=0\|0\|0\|0.8\|1\|1\|5\|0\|336
chr1_1	exon	21003868	21003954	21003868	ID=Msa0013560-mRNA-1:exon:7461;Parent=Msa0013560-mRNA-1
chr1_1	exon	21004155	21004641	21004155	ID=Msa0013560-mRNA-1:exon:7462;Parent=Msa0013560-mRNA-1
chr1_1	exon	21004770	21004897	21004770	ID=Msa0013560-mRNA-1:exon:7463;Parent=Msa0013560-mRNA-1
chr1_1	exon	21005562	21005838	21005562	ID=Msa0013560-mRNA-1:exon:7464;Parent=Msa0013560-mRNA-1
chr1_1	exon	21006997	21007028	21006997	ID=Msa0013560-mRNA-1:exon:7465;Parent=Msa0013560-mRNA-1
chr1_1	CDS	21003868	21003954	21003868	ID=Msa0013560-mRNA-1:cds;Parent=Msa0013560-mRNA-1
chr1_1	CDS	21004155	21004641	21004155	ID=Msa0013560-mRNA-1:cds;Parent=Msa0013560-mRNA-1
chr1_1	CDS	21004770	21004897	21004770	ID=Msa0013560-mRNA-1:cds;Parent=Msa0013560-mRNA-1
chr1_1	CDS	21005562	21005838	21005562	ID=Msa0013560-mRNA-1:cds;Parent=Msa0013560-mRNA-1
chr1_1	CDS	21006997	21007028	21006997	ID=Msa0013560-mRNA-1:cds;Parent=Msa0013560-mRNA-1

Gene Sequence

>Msa0013560

ATGTCTTCTCAAGAACTTAATCATCGGATTATTGGTGTCCACTTTTTCAAGATTATTCTTCAAACAAATCTTCAAGAAGGAAAACTGAAAGTGCCCATAAGTTTCGTGAAAAGGCATTGGCAAGGAGTAACAAACCCAGTTACTCTAAGGCTTCCAAACACGACTGAAAAGAAAGTTTTTTGGGAGAAGACTAGTCACCATGTTGTTTGGTTTTGCGATGGTTGGAAAGAATTTGCAAATTATTTATCTTTGCGTGATTCACAGCTTTTGATGTTTCAATATCAAGAAAATTCAATCTTTAACGTGATTGTATGTGGTAAATGCGGATTAGAAATAAAATACCCTTTAAGAGAAACTATCGAAGAATATGAAGAGGTTGAAAAGAGCGACAGTTCTTTGAAAATTGTTAAGGATCCTTCATTGCAACGAGGTAAAAGGTCAAAATCTCCATTACCGTCTTCTGGAGTTTCTAAGAAGATGAAAAACAATCTAGAAGAACAAAAAGAATCTAAGCATGAGAAGAGAAAAGTTCAAGCACATGCAAGATTTCGTAATTTTAAGGATGTGGACAATGGAACTAGTTGTGATGATCTTAAGCAGCGAAGCCAAGTTTTGTATGATAAAGTGAAGAACAAGTTTCACTCTGATAAGAATTTCTTTGTGTCTGTAATCCAAATGACATACATTAAAAGAGATCTCATGGGTATACCATTTGAATTTGCCAAGAAACATCTGCATAGGATGGAAGGAAGAAAGGTTACTCTTTTTGTTGATCAAGACAAGACATGGAATGTTGATTTTAATTTCACTTCAAATAATCAATATACATTAAGTGGTGGTTGGAGTAAATTTCGAGCTCACAATAATTTGAAATTTGGTGATATATGTGTTTTTATGCTGAACAAATGCAAAGAAACCATTTCATTCCAAGTTGCTATTTTCTCTCTGGAAAAGGACATGAACACTCCCTATTTTGAAGGGGATACTCTCAATGTTGGCTCGAATTTGTGA

Protein sequence

>Msa0013560

MSSQELNHRIIGVHFFKIILQTNLQEGKLKVPISFVKRHWQGVTNPVTLRLPNTTEKKVFWEKTSHHVVWFCDGWKEFANYLSLRDSQLLMFQYQENSIFNVIVCGKCGLEIKYPLRETIEEYEEVEKSDSSLKIVKDPSLQRGKRSKSPLPSSGVSKKMKNNLEEQKESKHEKRKVQAHARFRNFKDVDNGTSCDDLKQRSQVLYDKVKNKFHSDKNFFVSVIQMTYIKRDLMGIPFEFAKKHLHRMEGRKVTLFVDQDKTWNVDFNFTSNNQYTLSGGWSKFRAHNNLKFGDICVFMLNKCKETISFQVAIFSLEKDMNTPYFEGDTLNVGSNL*