AlfalfaGEDB | Msa0553840

M. sativa cultivar zhongmu-4 / Msa0553840

KEGG: -
GO: GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044464 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1903506 GO:2000112 GO:2001141
PFAM: PF03514.17

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
Msa0553840	XP_003607414.2	97.482	556	13	1	14	569	1	555	0.0	1109

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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
Msa0553840	sp\|A0A024B7I0\|SCL7_POPEU	55.795	604	203	17	14	569	1	588	0.0	571

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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
Msa0553840	G7JSQ4	97.482	556	13	1	14	569	1	555	0.0	1109

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TFs/TRs:

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Gene ID	Type	Classification
Msa0553840	TF	GRAS

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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
Msa0553840	Msa0687930	0.843084	1.741171e-58	-8.615850e-47

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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
Msa0553840	MtrunA17_Chr4g0039661	97.482	556	13	1	14	569	1	555	0.0	1109
Msa0553840	MtrunA17_Chr2g0319091	38.462	351	191	12	233	568	238	578	2.77e-54	193
Msa0553840	MtrunA17_Chr3g0101141	36.158	354	209	11	227	569	195	542	1.32e-53	191
Msa0553840	MtrunA17_Chr5g0445331	34.545	385	231	10	200	569	154	532	5.69e-53	189
Msa0553840	MtrunA17_Chr3g0110971	35.401	387	214	13	204	569	216	587	5.14e-52	187
Msa0553840	MtrunA17_Chr7g0245601	33.600	375	211	11	210	569	441	792	7.10e-52	190
Msa0553840	MtrunA17_Chr7g0224271	31.529	425	235	11	170	569	280	673	8.26e-51	185
Msa0553840	MtrunA17_Chr5g0447691	33.947	380	236	9	200	569	170	544	1.74e-50	182
Msa0553840	MtrunA17_Chr4g0038761	33.967	368	198	12	221	569	101	442	2.03e-50	180
Msa0553840	MtrunA17_Chr3g0125811	32.095	377	231	10	208	569	204	570	2.15e-50	182

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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
Msa0553840	AT5G66770.1	54.441	608	201	15	14	569	1	584	0.0	533
Msa0553840	AT3G50650.1	49.829	584	223	14	14	569	1	542	6.87e-162	473
Msa0553840	AT5G41920.1	33.007	409	231	13	180	569	16	400	1.56e-54	190
Msa0553840	AT5G48150.1	34.646	381	233	9	200	569	115	490	3.53e-54	191
Msa0553840	AT5G48150.4	34.646	381	233	9	200	569	115	490	3.53e-54	191
Msa0553840	AT5G48150.2	34.646	381	233	9	200	569	115	490	3.53e-54	191
Msa0553840	AT5G48150.3	34.646	381	233	9	200	569	115	490	3.53e-54	191
Msa0553840	AT1G50600.3	35.000	380	232	9	200	569	152	526	2.18e-53	190
Msa0553840	AT1G50600.1	34.474	380	234	8	200	569	223	597	1.20e-52	189
Msa0553840	AT1G50600.2	35.000	380	232	9	200	569	227	601	1.27e-52	189

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Find 151 sgRNAs with CRISPR-Local

Find 284 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAAGGAAACTCTTTGATTA+GGG	0.285344	4_1:+51122786	None:intergenic
AAACGACGATGTCGTTTCGG+TGG	0.687537	4_1:+51122934	None:intergenic
AAACGGGTTGAGATGGAAAT+CGG	0.511523	4_1:+51123069	None:intergenic
AAACTCAGATAAACGATTAC+CGG	0.454956	4_1:+51122418	None:intergenic
AAAGAAAGGAAAAGGGTGTG+TGG	0.623975	4_1:+51121530	None:intergenic
AAATGTGCGAACTTTGAATA+TGG	0.257358	4_1:+51122644	None:intergenic
AAATTCTTGTTCTACTACAT+GGG	0.505141	4_1:-51122708	Msa0553840:CDS
AAGCGGAAGGTGGTGGAGTG+AGG	0.511325	4_1:+51123151	None:intergenic
AAGGTTATGGACTTGTAAAA+TGG	0.302281	4_1:-51121431	Msa0553840:three_prime_UTR
AATCCTAAGATTGTTACTTT+AGG	0.287104	4_1:-51122209	Msa0553840:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
ACCTTCAAAATTCTAACATG+TGG	+	chr4_1:51121323-51121342	None:intergenic	30.0%
CTATAAACAACATCTCTCTT+TGG	+	chr4_1:51121407-51121426	None:intergenic	30.0%
TTACATTTGTATCTGCCTTT+GGG	+	chr4_1:51121443-51121462	None:intergenic	30.0%
ATTACATTTGTATCTGCCTT+TGG	+	chr4_1:51121444-51121463	None:intergenic	30.0%
ATATGTATTCGCAGTAACAA+TGG	-	chr4_1:51121509-51121528	Msa0553840:three_prime_UTR	30.0%
TGATCTCCAATTTGAGAATA+AGG	-	chr4_1:51121628-51121647	Msa0553840:three_prime_UTR	30.0%
TTGTCTATACTCAAAGAAAG+CGG	-	chr4_1:51121654-51121673	Msa0553840:three_prime_UTR	30.0%
CGAGACAAAGTTTCTTATAA+TGG	+	chr4_1:51121955-51121974	None:intergenic	30.0%
AGAAAGTTTGCATCAAAAAG+TGG	+	chr4_1:51122018-51122037	None:intergenic	30.0%
TTATAGTCGTTCAATGTTCT+AGG	-	chr4_1:51122242-51122261	Msa0553840:CDS	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr4_1	gene	51121311	51124735	51121311	ID=Msa0553840;Name=Msa0553840
chr4_1	mRNA	51121311	51124735	51121311	ID=Msa0553840-mRNA-1;Parent=Msa0553840;Name=Msa0553840-mRNA-1;_AED=0.05;_eAED=0.05;_QI=0\|0\|0.5\|0.5\|1\|1\|2\|504\|569
chr4_1	exon	51121311	51123494	51121311	ID=Msa0553840-mRNA-1:exon:14578;Parent=Msa0553840-mRNA-1
chr4_1	exon	51124706	51124735	51124706	ID=Msa0553840-mRNA-1:exon:14577;Parent=Msa0553840-mRNA-1
chr4_1	CDS	51124706	51124735	51124706	ID=Msa0553840-mRNA-1:cds;Parent=Msa0553840-mRNA-1
chr4_1	CDS	51121815	51123494	51121815	ID=Msa0553840-mRNA-1:cds;Parent=Msa0553840-mRNA-1
chr4_1	three_prime_UTR	51121311	51121814	51121311	ID=Msa0553840-mRNA-1:three_prime_utr;Parent=Msa0553840-mRNA-1

Gene Sequence

>Msa0553840

ATGCGCAGGCCACATGTTAGAATTTTGAAGGTGGTGGGAATGGCTTACATGTGCGCTGACAGTGGAAACCTAATGGCAATAGCTCAACAAGTCATCAACCAAAAACAACAACAAGAACAACATGAACAACAACAACACCAACAACATCATCATCACCAAAACATCCTAGGTATCACAAACCCTCTCTCTGTCTCACTACATCCATGGCACAACAACAACAACATTCCAGTATCTTCTTCTTCATCACTACCACCTTTGTCTTTTCCACCTACCGATTTCACCGACCCATTTCAAGTCGGGTCGGGTCCTGAAAACACCGATCCCGCTTTCAACTTCCCTTCACCACTCGACCCTCACTCCACCACCTTCCGCTTCTCCGATTTCGACTCCGACGACTGGATGGATACCTTAATGTCCGCCGCCGACAGCCACTCCGATTTCCATCTCAACCCGTTTTCATCATGCCCGACCCGACTCTCACCACAACCGGATCTTCTCTTACCCGCCACCGTACCACTCCAAATCCCAATTCAACCACCCACTCCACAACGCAAAAACGACACTAACACCACCGAAACGACATCGTCGTTTTCATCTTCCACAAACCCACTTCTTAAAACCCTAACAGAAATCGCTTCTTTAATCGAAACCCAAAAACCAAATCAAGCAATTGAAACCCTAACCCATCTCAGTAAATCGATTTCACAAAACGGAAACCCTAATCAAAGAGTTTCCTTTTACTTTTCACAAGCCCTAACCAACAAAATCACCGCACAATCTTCAATAGCTTCTTCAAATTCTTGTTCTACTACATGGGAAGAGTTAACACTCTCTTACAAAGCTCTAAATGACGCATGCCCATATTCAAAGTTCGCACATTTAACAGCAAATCAAGCAATTCTTGAAGCAACAGAAGGATCCAACGATATTCATATAGTTGATTTTGGAATTGTTCAAGGGATTCAATGGGCTGCATTGTTACAAGCATTTGCAACTCGTTCTTCTGGTAAACCTAATAGTGTAAGAATTTCTGGTATACCTGCTATGGCTTTAGGAACTTCGCCAGTTTCATCGATTTCAGCTACCGGTAATCGTTTATCTGAGTTTGCGAAACTTCTAGAGTTAAATTTTGAGTTTACACCGATTCTCACACCTATTGAGCTTCTTGATGAATCAAGCTTTTGTATTCAACCAAATGAGGCTTTAGCTGTTAATTTCATGCTTCAGTTGTATAATCTTTTGGATGAGAATATGAATTCCGTTGAAAAAGCGCTTCGTTTGGCGAAATCATTGAATCCTAAGATTGTTACTTTAGGTGAATATGAAGCTAGTTTGACGACTCGGGTTGGATTTGTTGAAAGATTTGAAACTGCTTTTAATTATTTTGCTGCTTTTTTTGAGAGTTTGGAACCGAACATGGCGTTGGATTCGCCGGAGAGGTTTCAGGTGGAGAGTCTTTTGCTTGGTAGGAGAATTGATGGTGTGATTGGTGTGAGGGAGAGGATGGAGGATAAAGAACAGTGGAAGGTTTTGATGGAAAGCTGTGGTTTTGAATCAGTGGGTTTGAGTCATTATGCAATTAGTCAAGCTAAGATATTGTTGTGGAATTATAGTTATAGTTCTTTGTATTCTCTTGTGGAATCTCAACCTGCTTTTTTGTCTCTGGCTTGGAAAGATGTTCCTCTATTGACTGTTTCTTCTTGGCGTTGA

Protein sequence

>Msa0553840

MRRPHVRILKVVGMAYMCADSGNLMAIAQQVINQKQQQEQHEQQQHQQHHHHQNILGITNPLSVSLHPWHNNNNIPVSSSSSLPPLSFPPTDFTDPFQVGSGPENTDPAFNFPSPLDPHSTTFRFSDFDSDDWMDTLMSAADSHSDFHLNPFSSCPTRLSPQPDLLLPATVPLQIPIQPPTPQRKNDTNTTETTSSFSSSTNPLLKTLTEIASLIETQKPNQAIETLTHLSKSISQNGNPNQRVSFYFSQALTNKITAQSSIASSNSCSTTWEELTLSYKALNDACPYSKFAHLTANQAILEATEGSNDIHIVDFGIVQGIQWAALLQAFATRSSGKPNSVRISGIPAMALGTSPVSSISATGNRLSEFAKLLELNFEFTPILTPIELLDESSFCIQPNEALAVNFMLQLYNLLDENMNSVEKALRLAKSLNPKIVTLGEYEASLTTRVGFVERFETAFNYFAAFFESLEPNMALDSPERFQVESLLLGRRIDGVIGVRERMEDKEQWKVLMESCGFESVGLSHYAISQAKILLWNYSYSSLYSLVESQPAFLSLAWKDVPLLTVSSWR*