AlfalfaGEDB | Msa1178960

M. sativa cultivar zhongmu-4 / Msa1178960

KEGG: -
GO: -
PFAM: PF12165.11

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
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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
Msa1178960	sp\|Q5XEM9\|ALFL5_ARATH	71.373	255	68	2	6	256	7	260	1.55e-121	349

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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
Msa1178960	A0FK62	99.609	256	1	0	1	256	1	256	0.0	532

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TFs/TRs:

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Gene ID	Type	Classification
Msa1178960	TF	Alfin-like

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Protein Kinases:

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Gene ID	Type	Classification
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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
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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
Msa1178960	MtrunA17_Chr8g0343441	99.609	256	1	0	1	256	1	256	0.0	532
Msa1178960	MtrunA17_Chr2g0329821	80.081	246	48	1	10	255	6	250	7.56e-123	350
Msa1178960	MtrunA17_Chr2g0300241	72.441	254	60	3	5	256	8	253	1.35e-121	347
Msa1178960	MtrunA17_Chr1g0150821	74.903	259	53	3	7	256	8	263	3.07e-121	346
Msa1178960	MtrunA17_Chr4g0076771	73.361	244	64	1	9	252	10	252	1.21e-117	337
Msa1178960	MtrunA17_Chr4g0006381	62.651	249	81	6	8	256	6	242	8.03e-93	273
Msa1178960	MtrunA17_Chr7g0242511	60.643	249	86	7	8	256	6	242	2.15e-90	267

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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
Msa1178960	AT5G20510.1	71.373	255	68	2	6	256	7	260	1.58e-122	349
Msa1178960	AT3G42790.1	73.896	249	58	4	7	255	8	249	2.05e-121	346
Msa1178960	AT2G02470.1	68.340	259	76	4	1	256	1	256	1.18e-108	314
Msa1178960	AT2G02470.2	68.359	256	72	4	1	256	1	247	2.84e-108	313
Msa1178960	AT1G14510.1	68.421	247	74	3	9	255	9	251	8.64e-108	312
Msa1178960	AT5G26210.1	71.483	263	58	3	1	255	1	254	1.23e-103	301
Msa1178960	AT5G05610.2	63.673	245	76	5	8	252	7	238	2.74e-97	285
Msa1178960	AT5G05610.1	63.673	245	76	5	8	252	7	238	2.74e-97	285
Msa1178960	AT5G20510.2	69.585	217	61	2	44	256	4	219	4.20e-96	281
Msa1178960	AT3G11200.1	63.200	250	82	5	3	252	4	243	1.61e-93	275

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Find 96 sgRNAs with CRISPR-Local

Find 252 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAACTTCCTCAACGGTGCG+TGG	0.559807	8_1:-11849491	None:intergenic
AAGACCAGGAGAAGCTACAA+TGG	0.610651	8_1:+11849448	Msa1178960:exon
AAGGAGAACCTGTGCTTGTA+TGG	0.431624	8_1:+11851613	Msa1178960:CDS
ACAACAGCACAATTCTATAA+TGG	0.377988	8_1:-11853296	None:intergenic
ACAGGCTCGGGAAGCTCTGG+CGG	0.540889	8_1:-11851682	None:intergenic
ACCTAAAGATGATGAGGTGG+AGG	0.542306	8_1:+11852941	Msa1178960:CDS
ACTTGGATTTGCTGCCACTG+TGG	0.654768	8_1:-11852054	None:intergenic
AGAAGAATGAAAGTGGAAGT+GGG	0.589079	8_1:-11849419	None:intergenic
AGAGAAAGACTGGCTATCTT+TGG	0.329748	8_1:+11851738	Msa1178960:CDS
AGATGATGAGGTGGAGGAAC+TGG	0.383921	8_1:+11852947	Msa1178960:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TTGAAAGAGAATTTGTGAAG+TGG	-	chr8_1:11849392-11849411	None:intergenic	30.0%
TTGAATGAAATCATGTGTCT+CGG	-	chr8_1:11850128-11850147	None:intergenic	30.0%
ACATGAAAATTAACCACATC+AGG	-	chr8_1:11850344-11850363	None:intergenic	30.0%
AATAAGCTGTTTATCCAAAC+AGG	+	chr8_1:11850725-11850744	Msa1178960:intron	30.0%
CTGTCAAAAAAAAACTACCA+AGG	-	chr8_1:11850752-11850771	None:intergenic	30.0%
AAAAGTGAATGTAACTTACC+CGG	-	chr8_1:11851070-11851089	None:intergenic	30.0%
AAGAAAAATCCTGTAGAGAA+CGG	+	chr8_1:11851493-11851512	Msa1178960:intron	30.0%
TTACTTGATTCTTTCAGAGA+AGG	+	chr8_1:11851594-11851613	Msa1178960:intron	30.0%
TTAACCATAAATCTTACCAG+CGG	+	chr8_1:11851852-11851871	Msa1178960:intron	30.0%
GCTAGTTAGTTAATTATCTG+GGG	+	chr8_1:11852219-11852238	Msa1178960:intron	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr8_1	gene	11849265	11853489	11849265	ID=Msa1178960;Name=Msa1178960
chr8_1	mRNA	11849265	11853489	11849265	ID=Msa1178960-mRNA-1;Parent=Msa1178960;Name=Msa1178960-mRNA-1;_AED=0.02;_eAED=0.02;_QI=202\|1\|1\|1\|1\|1\|5\|317\|256
chr8_1	exon	11849265	11849563	11849265	ID=Msa1178960-mRNA-1:exon:4199;Parent=Msa1178960-mRNA-1
chr8_1	exon	11851038	11851070	11851038	ID=Msa1178960-mRNA-1:exon:4200;Parent=Msa1178960-mRNA-1
chr8_1	exon	11851611	11851839	11851611	ID=Msa1178960-mRNA-1:exon:4201;Parent=Msa1178960-mRNA-1
chr8_1	exon	11851955	11852090	11851955	ID=Msa1178960-mRNA-1:exon:4202;Parent=Msa1178960-mRNA-1
chr8_1	exon	11852897	11853489	11852897	ID=Msa1178960-mRNA-1:exon:4203;Parent=Msa1178960-mRNA-1
chr8_1	five_prime_UTR	11849265	11849466	11849265	ID=Msa1178960-mRNA-1:five_prime_utr;Parent=Msa1178960-mRNA-1
chr8_1	CDS	11849467	11849563	11849467	ID=Msa1178960-mRNA-1:cds;Parent=Msa1178960-mRNA-1
chr8_1	CDS	11851038	11851070	11851038	ID=Msa1178960-mRNA-1:cds;Parent=Msa1178960-mRNA-1
chr8_1	CDS	11851611	11851839	11851611	ID=Msa1178960-mRNA-1:cds;Parent=Msa1178960-mRNA-1
chr8_1	CDS	11851955	11852090	11851955	ID=Msa1178960-mRNA-1:cds;Parent=Msa1178960-mRNA-1
chr8_1	CDS	11852897	11853172	11852897	ID=Msa1178960-mRNA-1:cds;Parent=Msa1178960-mRNA-1
chr8_1	three_prime_UTR	11853173	11853489	11853173	ID=Msa1178960-mRNA-1:three_prime_utr;Parent=Msa1178960-mRNA-1

Gene Sequence

>Msa1178960

ATGGACGCGCGCACACAGTATAATCCACGCACCGTTGAGGAAGTTTTCAGAGATTTTAAGGGTCGTCGTGCTGGTCTCATCAAAGCTCTCACCACTGATGTTGAAGAGTTCTATACCCAATGTGATCCGGAGAAGGAGAACCTGTGCTTGTATGGCTTCCCTAGTGAGCAGTGGGAAGTCAATTTACCTGCTGAGGAAGTTCCGCCAGAGCTTCCCGAGCCTGTGCTTGGCATTAACTTTGCCAGGGATGGCATGCAAGAGAAAGACTGGCTATCTTTGGTTGCTGTTCACAGTGATTCATGGTTAATCGCCATTGCGTACTACTTTGGTGCCAGATTTGGCTTCGACAAATCTGACAGGAAGCGCCTGTTCAACATGATCAATGATCTGCCATCAATATTTGAAGTTGTTACTGGTGCAGCAAAGAAACAAGTCAAGGAGAAGTCTTCAGTTTCAAACCACAGTGGCAGCAAATCCAAGTCCAGCTCGAAAGCGCGGGCTCCAGAACCTCAGGTTAAGCAGACAAAGCCATTGGAGTTACCTAAAGATGATGAGGTGGAGGAACTGGACGAGGAAGATGAAGATGAACATGGAGAGACCTTATGTGGTGCATGCGGTGAGCATTATGGCACTGATGAATTCTGGATTTGCTGTGACATCTGTGAGAAGTGGTTCCATGGGAAATGTGTGAAGATCACCCCTGCTAGGGCTGAGCATATCAAGCAGTACAAGTGTCCATCATGCAGTAACAATAAGAGAGCTCGCCCTTGA

Protein sequence

>Msa1178960

MDARTQYNPRTVEEVFRDFKGRRAGLIKALTTDVEEFYTQCDPEKENLCLYGFPSEQWEVNLPAEEVPPELPEPVLGINFARDGMQEKDWLSLVAVHSDSWLIAIAYYFGARFGFDKSDRKRLFNMINDLPSIFEVVTGAAKKQVKEKSSVSNHSGSKSKSSSKARAPEPQVKQTKPLELPKDDEVEELDEEDEDEHGETLCGACGEHYGTDEFWICCDICEKWFHGKCVKITPARAEHIKQYKCPSCSNNKRARP*