AlfalfaGEDB | Msa0554830

M. sativa cultivar zhongmu-4 / Msa0554830

KEGG: -
GO: -
PFAM: -

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
Msa0554830	XP_024638423.1	90.574	488	10	3	1	452	13	500	0.0	902

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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
Msa0554830	sp\|Q9FFH3\|IDD8_ARATH	54.466	459	159	12	20	452	32	466	1.08e-149	437

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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
Msa0554830	A0A396IAJ3	90.574	488	10	3	1	452	13	500	0.0	902

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TFs/TRs:

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Gene ID	Type	Classification
Msa0554830	TF	C2H2

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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
Msa0554830	Msa0648920	0.809748	1.623570e-50	-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
Msa0554830	MtrunA17_Chr4g0040571	90.574	488	10	3	1	452	13	500	0.0	902
Msa0554830	MtrunA17_Chr1g0181381	54.400	375	110	9	19	360	32	378	1.77e-122	365
Msa0554830	MtrunA17_Chr7g0263941	48.636	440	139	12	1	437	17	372	1.50e-117	350
Msa0554830	MtrunA17_Chr4g0029521	45.376	465	169	13	20	438	33	458	6.33e-114	343
Msa0554830	MtrunA17_Chr1g0191991	57.270	337	101	8	22	358	60	353	2.66e-113	343
Msa0554830	MtrunA17_Chr8g0373541	73.709	213	46	2	1	203	4	216	4.84e-112	340
Msa0554830	MtrunA17_Chr2g0330171	77.957	186	41	0	3	188	24	209	2.64e-111	336
Msa0554830	MtrunA17_Chr8g0342421	80.108	186	33	1	7	188	40	225	3.22e-111	337
Msa0554830	MtrunA17_Chr1g0162971	54.023	348	119	11	25	354	41	365	2.74e-109	330
Msa0554830	MtrunA17_Chr1g0185121	82.022	178	31	1	14	190	29	206	1.65e-107	325

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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
Msa0554830	AT5G44160.1	54.466	459	159	12	20	452	32	466	1.10e-150	437
Msa0554830	AT1G03840.1	53.388	487	161	13	18	452	34	506	3.29e-150	437
Msa0554830	AT1G03840.2	52.977	487	161	14	18	452	34	504	2.79e-146	427
Msa0554830	AT5G44160.2	53.604	444	156	12	35	452	8	427	7.44e-140	408
Msa0554830	AT5G66730.1	87.730	163	20	0	25	187	32	194	9.66e-110	333
Msa0554830	AT2G02080.1	46.875	448	185	14	22	438	51	476	1.35e-108	331
Msa0554830	AT2G02080.4	46.875	448	185	14	22	438	51	476	1.35e-108	331
Msa0554830	AT2G02080.5	46.875	448	185	14	22	438	51	476	1.35e-108	331
Msa0554830	AT2G02080.3	46.875	448	185	14	22	438	51	476	1.35e-108	331
Msa0554830	AT1G55110.3	86.826	167	21	1	23	188	61	227	2.03e-107	326

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Find 86 sgRNAs with CRISPR-Local

Find 304 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAATTGAAGGAAAATGGGT+TGG	0.476598	4_1:+52537839	None:intergenic
AAACAACAGCTCATTATTAA+GGG	0.419725	4_1:-52537924	Msa0554830:CDS
AAACTAGAGGACTATCCCTT+TGG	0.451953	4_1:-52537766	Msa0554830:CDS
AAAGCTATAACTTCTGCTTC+AGG	0.388526	4_1:+52539173	None:intergenic
AACAACAGCTCATTATTAAG+GGG	0.621367	4_1:-52537923	Msa0554830:CDS
AAGATGTTTGATGTGGTATT+TGG	0.298081	4_1:+52537423	None:intergenic
AAGGAATGAAGTATCACTTG+AGG	0.616790	4_1:+52537346	None:intergenic
AAGTCACCAAGTGCCCTTGA+AGG	0.485801	4_1:+52538960	None:intergenic
AATCTACAGCTACATAGACG+TGG	0.700320	4_1:-52539077	Msa0554830:CDS
ACAATGATAACCACCACCAA+TGG	0.547801	4_1:-52537710	Msa0554830:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AAAGAGAAAATTAACATGCC+TGG	+	chr4_1:52537175-52537194	None:intergenic	30.0%
TGATCAGAATAACATAGAGA+TGG	+	chr4_1:52537721-52537740	None:intergenic	30.0%
GATCAAGTTTAAAAGTGGTT+AGG	-	chr4_1:52537858-52537877	Msa0554830:CDS	30.0%
ACAAGCCTATATATAGTAGT+TGG	+	chr4_1:52538143-52538162	None:intergenic	30.0%
AGCTAGACAAAAGTCAAAAT+GGG	+	chr4_1:52538206-52538225	None:intergenic	30.0%
TAATGAGTTTCAGTTAAGGA+CGG	+	chr4_1:52538338-52538357	None:intergenic	30.0%
TGGTTAATGAGTTTCAGTTA+AGG	+	chr4_1:52538342-52538361	None:intergenic	30.0%
AACAACAGCTCATTATTAAG+GGG	-	chr4_1:52538548-52538567	Msa0554830:intron	30.0%
TCATTATTAAGGGGTAACAT+TGG	-	chr4_1:52538557-52538576	Msa0554830:intron	30.0%
TGGTAATTACACCAACATAA+TGG	-	chr4_1:52538577-52538596	Msa0554830:intron	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr4_1	gene	52537073	52539420	52537073	ID=Msa0554830;Name=Msa0554830
chr4_1	mRNA	52537073	52539420	52537073	ID=Msa0554830-mRNA-1;Parent=Msa0554830;Name=Msa0554830-mRNA-1;_AED=0.09;_eAED=0.09;_QI=0\|0.33\|0\|1\|1\|1\|4\|0\|452
chr4_1	exon	52539318	52539420	52539318	ID=Msa0554830-mRNA-1:exon:15167;Parent=Msa0554830-mRNA-1
chr4_1	exon	52538801	52539197	52538801	ID=Msa0554830-mRNA-1:exon:15166;Parent=Msa0554830-mRNA-1
chr4_1	exon	52537598	52538027	52537598	ID=Msa0554830-mRNA-1:exon:15165;Parent=Msa0554830-mRNA-1
chr4_1	exon	52537073	52537501	52537073	ID=Msa0554830-mRNA-1:exon:15164;Parent=Msa0554830-mRNA-1
chr4_1	CDS	52539318	52539420	52539318	ID=Msa0554830-mRNA-1:cds;Parent=Msa0554830-mRNA-1
chr4_1	CDS	52538801	52539197	52538801	ID=Msa0554830-mRNA-1:cds;Parent=Msa0554830-mRNA-1
chr4_1	CDS	52537598	52538027	52537598	ID=Msa0554830-mRNA-1:cds;Parent=Msa0554830-mRNA-1
chr4_1	CDS	52537073	52537501	52537073	ID=Msa0554830-mRNA-1:cds;Parent=Msa0554830-mRNA-1

Gene Sequence

>Msa0554830

ATGGATGAAGTAGAAATCACAAATGTTAATTTCCCTCAAACAACTAGTGCTTCTAATAATCCTCCTGCTTTGAAGAGAAAAAGAAACCTTCCAGGAAATCCAGATCCTGAAGCAGAAGTTATAGCTTTATCACCAAAGACACTCATGGCTACAAACAGATTCTTGTGTGAAACATGTGGGAAAGGTTTTCAAAGAGATCAAAATCTACAGCTACATAGACGTGGACATAATCTTCCATGGAAGCTTAAGCAGAGATCAAACAAAGAAATAAAGAAGAGAGTTTATGTGTGTCCAGAGAAAACTTGTGTCCACCATGATCCTTCAAGGGCACTTGGTGACTTAACTGGGATAAAAAAGCACTTTTGTAGAAAGCATGGTGAAAAGAAGTGGAAGTGTGAGAAGTGCTCAAAACGTTATGCTGTTCAGTCAGATTGGAAAGCTCACTCAAAAACATGTGGTACTAGAGAATACAAATGTGACTGTGGAACTATCTTTTCAAGGAGAGACAGCTTCATAACTCACAGAGCCTTTTGTGATGCCTTAGCAGAAGAAACAGCAAGGGTAAGTGCAGCATCAGAAATAAACAACAGCTCATTATTAAGGGGTAACATTGGTAATTACACCAACATAATGGGAACAACATCTCTAGTCCCTAATAACAATATGCCAACCCATTTTCCTTCAATTTTCAAACCAATTTCAACTCCTGATCATCATCATCATCATGAATCAACCAATCAAACTAGAGGACTATCCCTTTGGATGAATCAAAATTCTCACTCTCAACCTCATGAAACAATGATAACCACCACCAATGGAAATTCTAGTTTGCATGAGATTCATCAACAACTTGACTCATCATCAAGAGAAATTATGTATGGTGGAAATGAGAACCCTCCACCATATTCTAATAACTATCAGCTAAATTGGGATGTTTCTCATGATGCTACAAGCCAACAAATTTCTTCCTTGTATAGCTCACAACACCAAATACCACATCAAACATCTTCAGCAAACATGTCAGCTACAGCTTTGTTACAAAAAGCTGCTCAAATTGGATCAACCTCAAGTGATACTTCATTCCTTGGAAGTTTAGGTTTGAAATGCAGTAATAATAATAGTACTAATGATGTGAACAAGTTTGGTTGTACTGGTATGTATGGTACTTCAAGTTCATTACTCATTAGTCTTGGCAATGAGGAAGATCATAATAATGCATGTGATTTTTCACAAATGCACCCTTCTAAACGTAGACATGTGCAAAGTGAAGAGAATGGAGGAGGAGGGCAAACTAGGGATTTTCTTGGTGTTGGTGTGCAAACCATTTGTCACCCTTCATCAATCAACGGTTGGATTTGA

Protein sequence

>Msa0554830

MDEVEITNVNFPQTTSASNNPPALKRKRNLPGNPDPEAEVIALSPKTLMATNRFLCETCGKGFQRDQNLQLHRRGHNLPWKLKQRSNKEIKKRVYVCPEKTCVHHDPSRALGDLTGIKKHFCRKHGEKKWKCEKCSKRYAVQSDWKAHSKTCGTREYKCDCGTIFSRRDSFITHRAFCDALAEETARVSAASEINNSSLLRGNIGNYTNIMGTTSLVPNNNMPTHFPSIFKPISTPDHHHHHESTNQTRGLSLWMNQNSHSQPHETMITTTNGNSSLHEIHQQLDSSSREIMYGGNENPPPYSNNYQLNWDVSHDATSQQISSLYSSQHQIPHQTSSANMSATALLQKAAQIGSTSSDTSFLGSLGLKCSNNNSTNDVNKFGCTGMYGTSSSLLISLGNEEDHNNACDFSQMHPSKRRHVQSEENGGGGQTRDFLGVGVQTICHPSSINGWI*