AlfalfaGEDB | Msa0023600

M. sativa cultivar zhongmu-4 / Msa0023600

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
Msa0023600	XP_039690067.1	76.923	416	73	7	1	406	1	403	0.0	623

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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
Msa0023600	sp\|Q8L3W1\|VRN1_ARATH	25.526	333	198	9	7	289	4	336	6.99e-19	90.5

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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
Msa0023600	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
Msa0023600	MtrunA17_Chr1g0163181	69.213	445	87	8	1	404	1	436	0.0	599
Msa0023600	MtrunA17_Chr1g0163201	76.322	397	71	7	20	406	18	401	0.0	586
Msa0023600	MtrunA17_Chr1g0163251	55.060	336	116	5	1	330	1	307	1.14e-118	351
Msa0023600	MtrunA17_Chr1g0163151	71.179	229	54	4	175	398	1	222	1.06e-109	322
Msa0023600	MtrunA17_Chr1g0163111	64.315	241	59	5	175	399	1	230	1.95e-99	296
Msa0023600	MtrunA17_Chr1g0163261	46.667	315	132	8	1	301	1	293	1.67e-83	258
Msa0023600	MtrunA17_Chr1g0163231	48.039	306	121	12	1	292	1	282	1.48e-79	247
Msa0023600	MtrunA17_Chr1g0171611	48.366	306	108	10	1	292	1	270	3.23e-79	246
Msa0023600	MtrunA17_Chr1g0163191	74.691	162	38	2	1	160	1	161	1.08e-69	217
Msa0023600	MtrunA17_Chr1g0163241	63.372	172	44	4	1	169	7	162	1.46e-63	201

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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
Msa0023600	AT3G18990.2	25.526	333	198	9	7	289	4	336	5.55e-20	91.3
Msa0023600	AT3G18990.1	25.526	333	198	9	7	289	4	336	7.11e-20	90.5

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Find 71 sgRNAs with CRISPR-Local

Find 142 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAACCTAGGAATTTCTTTG+AGG	0.431350	1_1:-45013113	None:intergenic
AAAGAATGCAAAGTGGAGAT+TGG	0.426567	1_1:+45014039	Msa0023600:CDS
AAATATTGTGGAGTTGAAAA+TGG	0.256652	1_1:+45013933	Msa0023600:CDS
AAGATTATCCTATGAAAATC+TGG	0.419859	1_1:-45011672	None:intergenic
AAGTATTATGAGAGTATTTG+TGG	0.445350	1_1:+45013982	Msa0023600:CDS
AAGTGATGAAGTGAGTGATA+AGG	0.524193	1_1:+45012162	Msa0023600:CDS
AATATTGTGGAGTTGAAAAT+GGG	0.451536	1_1:+45013934	Msa0023600:CDS
AATCTTGTATGAGTGGTGGT+TGG	0.588690	1_1:+45012969	Msa0023600:CDS
ACCAAAGGAGTTTATGAAAA+GGG	0.442898	1_1:+45013900	Msa0023600:CDS
ACTTACCAAGTAATAACCAT+TGG	0.568490	1_1:-45012758	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TATGTGGAGAAATATTGGAA+AGG	+	chr1_1:45011845-45011864	Msa0023600:CDS	30.0%
CAAGTTCAAAGAACTAGAAA+TGG	+	chr1_1:45012211-45012230	Msa0023600:CDS	30.0%
ACTTACCAAGTAATAACCAT+TGG	-	chr1_1:45012761-45012780	None:intergenic	30.0%
GTATCCACTGTTTCAAATAA+TGG	-	chr1_1:45012838-45012857	None:intergenic	30.0%
AAAAAATCTTGTATGAGTGG+TGG	+	chr1_1:45012965-45012984	Msa0023600:CDS	30.0%
AAAACCTAGGAATTTCTTTG+AGG	-	chr1_1:45013116-45013135	None:intergenic	30.0%
TATCCATGACAAGGTTATAA+AGG	+	chr1_1:45013222-45013241	Msa0023600:intron	30.0%
ATCCATGACAAGGTTATAAA+GGG	+	chr1_1:45013223-45013242	Msa0023600:intron	30.0%
TGTGTTTATGCATGTACAAA+AGG	+	chr1_1:45013719-45013738	Msa0023600:intron	30.0%
GCATAAAACATTCAAGGTTA+TGG	+	chr1_1:45013757-45013776	Msa0023600:CDS	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_1	gene	45011654	45014173	45011654	ID=Msa0023600;Name=Msa0023600
chr1_1	mRNA	45011654	45014173	45011654	ID=Msa0023600-mRNA-1;Parent=Msa0023600;Name=Msa0023600-mRNA-1;_AED=0.08;_eAED=0.08;_QI=0\|0\|0\|1\|0.71\|0.5\|8\|0\|413
chr1_1	exon	45011654	45011710	45011654	ID=Msa0023600-mRNA-1:exon:12916;Parent=Msa0023600-mRNA-1
chr1_1	exon	45011830	45012036	45011830	ID=Msa0023600-mRNA-1:exon:12917;Parent=Msa0023600-mRNA-1
chr1_1	exon	45012043	45012283	45012043	ID=Msa0023600-mRNA-1:exon:12918;Parent=Msa0023600-mRNA-1
chr1_1	exon	45012641	45012774	45012641	ID=Msa0023600-mRNA-1:exon:12919;Parent=Msa0023600-mRNA-1
chr1_1	exon	45012851	45012948	45012851	ID=Msa0023600-mRNA-1:exon:12920;Parent=Msa0023600-mRNA-1
chr1_1	exon	45012961	45013130	45012961	ID=Msa0023600-mRNA-1:exon:12921;Parent=Msa0023600-mRNA-1
chr1_1	exon	45013741	45013796	45013741	ID=Msa0023600-mRNA-1:exon:12922;Parent=Msa0023600-mRNA-1
chr1_1	exon	45013895	45014173	45013895	ID=Msa0023600-mRNA-1:exon:12923;Parent=Msa0023600-mRNA-1
chr1_1	CDS	45011654	45011710	45011654	ID=Msa0023600-mRNA-1:cds;Parent=Msa0023600-mRNA-1
chr1_1	CDS	45011830	45012036	45011830	ID=Msa0023600-mRNA-1:cds;Parent=Msa0023600-mRNA-1
chr1_1	CDS	45012043	45012283	45012043	ID=Msa0023600-mRNA-1:cds;Parent=Msa0023600-mRNA-1
chr1_1	CDS	45012641	45012774	45012641	ID=Msa0023600-mRNA-1:cds;Parent=Msa0023600-mRNA-1
chr1_1	CDS	45012851	45012948	45012851	ID=Msa0023600-mRNA-1:cds;Parent=Msa0023600-mRNA-1
chr1_1	CDS	45012961	45013130	45012961	ID=Msa0023600-mRNA-1:cds;Parent=Msa0023600-mRNA-1
chr1_1	CDS	45013741	45013796	45013741	ID=Msa0023600-mRNA-1:cds;Parent=Msa0023600-mRNA-1
chr1_1	CDS	45013895	45014173	45013895	ID=Msa0023600-mRNA-1:cds;Parent=Msa0023600-mRNA-1

Gene Sequence

>Msa0023600

ATGTCATTTCAACATATTCCAGATTTTCATAGGATAATCTTGCAAGATAAGAAACTTAGGGTTCCTAAGATTTATGTGGAGAAATATTGGAAAGGAATATCAAACCCTATATTCCTTAAATTCCCAAACGGTGTTCAACAAGAAATATTTTGGGTGGAGAGTAATGGTGATATTTGGTTTCAAAAAAATTGGGAAAGTTTTGCCAAGTTTCTGAAATATGGATATCTCTTAACTTTCAAATTCTTAGGTGGATCATATTTTAAAATATTTGGTGCCAATACTTTAGAAATAAATTATTCCAATATCAAATCCGTTGATGATTGTGCTGAAGCCACAAAAAGAGGTCAAGAAAGTGATGATCAAGCCACAAAAGAAGTTCATGAAAGTGATGAAGTGAGTGATAAGGGTTCAGATGAGGTTAAAATTCCAAAGCAAGTTCAAAGAACTAGAAATGGCAAAAGAAAAGTGAGTATGGATTTTGCCACTACCCAACAAAAATTCTCAGGTAGTAACAAAGTAGCCATGGTGAAGAAGGCTAGAAAATACCCAACATCTGAAGCTTTAATCGAGAGAGCCAATAATGAAAATCCTTATTTTGAAATTATAATGTCACATACTTACGCCAATGGTTATTACTTGTGGATACCAAGTATATTTTCAAGAGAACACTTGAACAATTTTAAAGGGACTGCAACAATAAGGGTTGGTAAAGAAAGGACTCTGGAAGTGAGTTTGAGCAAGAAAAAATCTTGTATGAGTGGTGGTTGGAAATTATTCAACAGAAAATATAATTTGCAAGTTGATGATGTTTGCAAATTTGAGATGATTCAAAGGAAACCAATTTCATTCAATGTTACTATTACTCGCGCTCGTGCCAGAAACGAACCAACCTCAAAGAAATTCCTAGGTCGTGATGTGATGGAGCATAAAACATTCAAGGTTATGGTGAAGAATAGAGTCCCGGGTGTACCAAAGGAGTTTATGAAAAGGGGATGTCATGAAAATATTGTGGAGTTGAAAATGGGGAGAAAGTCATGGTTCGTAAAAGTCAAGTATTATGAGAGTATTTGTGGCTGCAGATTCAGTAAAGGTTGGGGAAAATTTATGAAAGAATGCAAAGTGGAGATTGGAGATACTTGTCTCTTTAAGTTAATTGATGAGAGAAAATTTGTTTTTGATGTTTCAATTGAAGGAAAAAAACCATTATCTGTTTGTTCTAATAAGGTACTAATAATTAACTAG

Protein sequence

>Msa0023600

MSFQHIPDFHRIILQDKKLRVPKIYVEKYWKGISNPIFLKFPNGVQQEIFWVESNGDIWFQKNWESFAKFLKYGYLLTFKFLGGSYFKIFGANTLEINYSNIKSVDDCAEATKRGQESDDQATKEVHESDEVSDKGSDEVKIPKQVQRTRNGKRKVSMDFATTQQKFSGSNKVAMVKKARKYPTSEALIERANNENPYFEIIMSHTYANGYYLWIPSIFSREHLNNFKGTATIRVGKERTLEVSLSKKKSCMSGGWKLFNRKYNLQVDDVCKFEMIQRKPISFNVTITRARARNEPTSKKFLGRDVMEHKTFKVMVKNRVPGVPKEFMKRGCHENIVELKMGRKSWFVKVKYYESICGCRFSKGWGKFMKECKVEIGDTCLFKLIDERKFVFDVSIEGKKPLSVCSNKVLIIN*