AlfalfaGEDB | Msa1217880

M. sativa cultivar zhongmu-4 / Msa1217880

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
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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
Msa1217880	sp\|Q9XIB4\|Y1475_ARATH	37.931	116	70	2	15	130	34	147	4.32e-16	78.6

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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
Msa1217880	A0A396IHE6	92.901	324	23	0	1	324	1	324	0.0	627

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TFs/TRs:

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Gene ID	Type	Classification
Msa1217880	TF	B3

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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
Msa1217880	MtrunA17_Chr4g0067431	92.901	324	23	0	1	324	1	324	0.0	627
Msa1217880	MtrunA17_Chr1g0163221	63.720	328	90	7	1	324	1	303	8.42e-128	369
Msa1217880	MtrunA17_Chr6g0467351	64.103	234	72	2	1	231	1	225	6.54e-104	304
Msa1217880	MtrunA17_Chr1g0163061	63.019	265	52	3	1	219	1	265	3.03e-95	283
Msa1217880	MtrunA17_Chr6g0467361	67.816	87	28	0	233	319	8	94	9.54e-39	132
Msa1217880	MtrunA17_Chr1g0163071	29.808	312	187	11	31	324	2	299	7.72e-35	129
Msa1217880	MtrunA17_Chr3g0131891	32.039	309	185	11	9	311	13	302	1.67e-32	123
Msa1217880	MtrunA17_Chr1g0163131	31.746	315	183	13	10	310	13	309	2.80e-32	122
Msa1217880	MtrunA17_Chr7g0233561	29.452	292	190	7	13	297	16	298	4.12e-32	122
Msa1217880	MtrunA17_Chr8g0390841	28.165	316	206	9	13	320	37	339	1.32e-30	121

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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
Msa1217880	AT1G49475.1	37.931	116	70	2	15	130	34	147	4.39e-17	78.6
Msa1217880	AT3G18990.1	25.225	333	197	11	15	304	6	329	3.75e-15	75.9
Msa1217880	AT3G18990.2	25.225	333	197	11	15	304	6	329	6.09e-15	75.5
Msa1217880	AT3G18960.1	33.333	102	67	1	15	116	30	130	6.46e-15	73.2
Msa1217880	AT3G18960.2	33.333	102	67	1	15	116	30	130	7.35e-15	72.4
Msa1217880	AT4G01580.1	30.392	102	70	1	15	116	30	130	1.33e-13	68.9
Msa1217880	AT3G18960.3	34.409	93	60	1	24	116	2	93	4.00e-12	64.3

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Find 43 sgRNAs with CRISPR-Local

Find 202 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAACATCTGCACAGGATGGA+AGG	0.560035	8_1:+80412262	Msa1217880:CDS
AAACTAGTGATTATAATGTT+TGG	0.368567	8_1:+80411120	Msa1217880:CDS
AACTAACGAAGAATATGAAG+AGG	0.623129	8_1:+80411286	Msa1217880:CDS
AACTTCAAGGATTTGGACAA+TGG	0.526857	8_1:+80411476	Msa1217880:CDS
AAGAGAAAAGTCCAAGAACA+TGG	0.537786	8_1:+80411443	Msa1217880:CDS
AAGTGGTTGTGATGATCTTA+AGG	0.427796	8_1:+80411620	Msa1217880:CDS
AATAAGTCACCTTCAAAATA+AGG	0.303259	8_1:-80412502	None:intergenic
AATAATCAATATACACTAAG+TGG	0.551699	8_1:+80412349	Msa1217880:CDS
AATATACACTAAGTGGTGGT+TGG	0.538952	8_1:+80412356	Msa1217880:CDS
AATCAATATACACTAAGTGG+TGG	0.647702	8_1:+80412352	Msa1217880:CDS

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AACTAACGAAGAATATGAAG+AGG	+	chr8_1:80411286-80411305	Msa1217880:CDS	30.0%
GTTTCATAACTTCAAGGATT+TGG	+	chr8_1:80411469-80411488	Msa1217880:CDS	30.0%
ATTCTCAAATTCTCAGTAAG+TGG	+	chr8_1:80411603-80411622	Msa1217880:intron	30.0%
TCTGTCTTGATCAACAAAAA+GGG	-	chr8_1:80412299-80412318	None:intergenic	30.0%
ATCTGTCTTGATCAACAAAA+AGG	-	chr8_1:80412300-80412319	None:intergenic	30.0%
AATCAATATACACTAAGTGG+TGG	+	chr8_1:80412352-80412371	Msa1217880:CDS	30.0%
TTTATGCTGAACAAATGCAA+AGG	+	chr8_1:80412427-80412446	Msa1217880:CDS	30.0%
TACTAAGTGGTAAATACAAG+AGG	-	chr8_1:80412687-80412706	None:intergenic	30.0%
AAAAATGTTGCAGTACTAAG+TGG	-	chr8_1:80412700-80412719	None:intergenic	30.0%
TGAATTAATTATGTTGGTGC+AGG	+	chr8_1:80412811-80412830	Msa1217880:intron	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr8_1	gene	80410643	80413058	80410643	ID=Msa1217880;Name=Msa1217880
chr8_1	mRNA	80410643	80413058	80410643	ID=Msa1217880-mRNA-1;Parent=Msa1217880;Name=Msa1217880-mRNA-1;_AED=0.09;_eAED=0.09;_QI=0\|0\|0\|0.8\|1\|1\|5\|0\|331
chr8_1	exon	80410643	80410729	80410643	ID=Msa1217880-mRNA-1:exon:28160;Parent=Msa1217880-mRNA-1
chr8_1	exon	80411020	80411497	80411020	ID=Msa1217880-mRNA-1:exon:28161;Parent=Msa1217880-mRNA-1
chr8_1	exon	80411619	80411746	80411619	ID=Msa1217880-mRNA-1:exon:28162;Parent=Msa1217880-mRNA-1
chr8_1	exon	80412238	80412514	80412238	ID=Msa1217880-mRNA-1:exon:28163;Parent=Msa1217880-mRNA-1
chr8_1	exon	80413033	80413058	80413033	ID=Msa1217880-mRNA-1:exon:28164;Parent=Msa1217880-mRNA-1
chr8_1	CDS	80410643	80410729	80410643	ID=Msa1217880-mRNA-1:cds;Parent=Msa1217880-mRNA-1
chr8_1	CDS	80411020	80411497	80411020	ID=Msa1217880-mRNA-1:cds;Parent=Msa1217880-mRNA-1
chr8_1	CDS	80411619	80411746	80411619	ID=Msa1217880-mRNA-1:cds;Parent=Msa1217880-mRNA-1
chr8_1	CDS	80412238	80412514	80412238	ID=Msa1217880-mRNA-1:cds;Parent=Msa1217880-mRNA-1
chr8_1	CDS	80413033	80413058	80413033	ID=Msa1217880-mRNA-1:cds;Parent=Msa1217880-mRNA-1

Gene Sequence

>Msa1217880

ATGTCTTCTAAAGAACTTGATCATCGGAGTAATGGTGTCCACTTTTTCAAGATTATTCTTCAAAGGAACCTTAATGAAGGAAAACTGAAAGTGCCCCTAAGTTTTGTGAGAAGGCATTGGCAAGGTATAACAAATCCAGTTACTCTAAGACTTCCAAATATGACCGAAAAGAAGGTTTTTTGGGAGAAAACTAGTGATTATAATGTTTGGTTTTGCAATGGTTGGAAAGAATTTGCAAAATATTTGTCTTTGGGTGATTCACAGCTTATGTTGTTTCAATATCAAGAAAATTCTCTCTTCAATGTGATTGTATGCGGTAAATGCGGATTAGAAATAAAATATCCTTTAAAAAAAACTAACGAAGAATATGAAGAGGTTGAAGAGAGCGATACTTCTTTACAAATTATTGAAGATCCTTCATCATCGAAGGGTAAAAGGCTAAAATCTTCACCACCTTATTTTAAGAAGATGAAAATCAATTCAAAAGAACAAAAAGAATCTAAGCATGAGAAGAGAAAAGTCCAAGAACATGGAAGGTTTCATAACTTCAAGGATTTGGACAATGTAAGTGGTTGTGATGATCTTAAGGAGAGAAGCAAAGTTTTGTACGACAAAGTGAAGAATTTTTTCCACTCTGATAAGGATTTCTTCGTGTGTATGATCCAAAAGACATACATTAAGAAAGATATCTTGGGCATACCAATTGAATTTGCTAAGAAACATCTGCACAGGATGGAAGGAAGAAATGTTACCCTTTTTGTTGATCAAGACAGATCATGGAATGTTGATTTGAATCTCACTTTAAATAATCAATATACACTAAGTGGTGGTTGGAGTAAATTTCGTGCTCACAATAATTTGAAGTTTGGTGATATCTGTGTTTTTATGCTGAACAAATGCAAAGGAACAGTTTCATTCCAAGTTAAGATTTTCTCTCTGGAAAAAGACATGAACACTCCTTATTTTGAAGGTTTTAATATGCAATTAGAGAAATAA

Protein sequence

>Msa1217880

MSSKELDHRSNGVHFFKIILQRNLNEGKLKVPLSFVRRHWQGITNPVTLRLPNMTEKKVFWEKTSDYNVWFCNGWKEFAKYLSLGDSQLMLFQYQENSLFNVIVCGKCGLEIKYPLKKTNEEYEEVEESDTSLQIIEDPSSSKGKRLKSSPPYFKKMKINSKEQKESKHEKRKVQEHGRFHNFKDLDNVSGCDDLKERSKVLYDKVKNFFHSDKDFFVCMIQKTYIKKDILGIPIEFAKKHLHRMEGRNVTLFVDQDRSWNVDLNLTLNNQYTLSGGWSKFRAHNNLKFGDICVFMLNKCKGTVSFQVKIFSLEKDMNTPYFEGFNMQLEK*