AlfalfaGEDB | Msa1012290

M. sativa cultivar zhongmu-4 / Msa1012290

KEGG: K02942
GO: GO:0001932 GO:0001934 GO:0002181 GO:0003674 GO:0003735 GO:0005198 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0005840 GO:0005844 GO:0005886 GO:0006412 GO:0006518 GO:0006807 GO:0008047 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009893 GO:0009987 GO:0010467 GO:0010562 GO:0010604 GO:0015934 GO:0016020 GO:0019207 GO:0019209 GO:0019220 GO:0019222 GO:0019538 GO:0019887 GO:0022625 GO:0022626 GO:0030234 GO:0030295 GO:0031323 GO:0031325 GO:0031399 GO:0031401 GO:0032147 GO:0032268 GO:0032270 GO:0032991 GO:0033674 GO:0034641 GO:0034645 GO:0042325 GO:0042327 GO:0042788 GO:0043043 GO:0043085 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043549 GO:0043603 GO:0043604 GO:0044093 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044391 GO:0044422 GO:0044424 GO:0044444 GO:0044445 GO:0044446 GO:0044464 GO:0044877 GO:0045859 GO:0045860 GO:0045937 GO:0048518 GO:0048522 GO:0050789 GO:0050790 GO:0050794 GO:0051171 GO:0051173 GO:0051174 GO:0051246 GO:0051247 GO:0051338 GO:0051347 GO:0060255 GO:0065007 GO:0065009 GO:0071704 GO:0071944 GO:0080090 GO:0098772 GO:1901564 GO:1901566 GO:1901576 GO:1990904
PFAM: PF00428.22

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1012290	XP_003602368.1	96.825	63	2	0	1	63	1	63	2.57e-37	130

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1012290	sp\|P52855\|RLA1_MAIZE	67.188	64	21	0	1	64	1	64	1.51e-26	95.5

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1012290	G7J8Y6	96.825	63	2	0	1	63	1	63	1.23e-37	130

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0737340	Msa1012290	0.824265	8.861973e-54	-8.615850e-47
Msa0392140	Msa1012290	0.829065	6.341515e-55	-8.615850e-47
Msa0393590	Msa1012290	0.831371	1.733852e-55	-8.615850e-47
Msa0439160	Msa1012290	0.814996	1.159126e-51	-8.615850e-47
Msa0439170	Msa1012290	0.874083	8.910051e-68	-8.615850e-47
Msa1012280	Msa1012290	0.847216	1.330532e-59	-8.615850e-47
Msa1012290	Msa1091980	0.835911	1.273512e-56	-8.615850e-47
Msa1012290	Msa1358100	0.801506	8.720083e-49	-8.615850e-47

PPI

Gene1	Gene2	Type

Query id	Subject id	identity %	alignment length	mismatches	q. start	q. end	s. start	s. end	e-value	bit score
Msa1012290	MtrunA17_Chr3g0127831	96.825	63	2	1	63	1	63	2.36e-41	130
Msa1012290	MtrunA17_Chr2g0311301	96.825	63	2	1	63	1	63	2.64e-41	130
Msa1012290	MtrunA17_Chr4g0013621	93.443	61	4	1	61	1	61	3.88e-37	119
Msa1012290	MtrunA17_Chr8g0345951	70.968	62	18	1	62	1	62	1.02e-27	95.9
Msa1012290	MtrunA17_Chr7g0276131	66.102	59	20	1	59	1	59	1.01e-21	80.9

Query id	Subject id	identity %	alignment length	mismatches	q. start	q. end	s. start	s. end	e-value	bit score
Msa1012290	AT5G24510.1	73.016	63	17	1	63	1	63	1.51e-28	98.2
Msa1012290	AT5G47700.1	65.517	58	20	4	61	5	62	3.91e-24	87.0
Msa1012290	AT5G47700.2	65.517	58	20	4	61	5	62	3.91e-24	87.0
Msa1012290	AT1G01100.3	63.793	58	21	4	61	5	62	7.68e-24	85.9
Msa1012290	AT1G01100.4	63.793	58	21	4	61	5	62	1.23e-23	85.9
Msa1012290	AT1G01100.1	63.793	58	21	4	61	5	62	1.23e-23	85.9
Msa1012290	AT1G01100.2	63.793	58	21	4	61	5	62	1.23e-23	85.9
Msa1012290	AT4G00810.1	62.069	58	22	4	61	5	62	7.00e-23	84.0
Msa1012290	AT4G00810.2	62.069	58	22	4	61	5	62	7.00e-23	84.0

Find 18 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
GATAATAGACTTACGGTGAT+TGG	0.316212	7_1:+17384477	None:intergenic
TTTGAGCAAGCTTAGCGAAT+AGG	0.381330	7_1:+17384343	None:intergenic
AAAATGAGTTCCGGCGAGTT+GGG	0.395726	7_1:-17384540	Msa1012290:CDS
CAAAATGAGTTCCGGCGAGT+TGG	0.444981	7_1:-17384541	None:intergenic
ATAATAGACTTACGGTGATT+GGG	0.445449	7_1:+17384478	None:intergenic
GAAGATCGGCACTTTGTTGA+AGG	0.446681	7_1:-17384400	Msa1012290:CDS
AAGTAAAACTCAACAATTGC+CGG	0.451280	7_1:+17384290	None:intergenic
GCAAGCTTAGCGAATAGGCT+TGG	0.513800	7_1:+17384348	None:intergenic
ACAATTCACAAAATGAGTTC+CGG	0.522809	7_1:-17384549	None:intergenic
ACGTCACCGTTGAATCCTAC+TGG	0.524586	7_1:-17384371	Msa1012290:CDS
TCCATCGTCGTGGAGGATCA+AGG	0.532980	7_1:+17384503	None:intergenic
ACCTTGATCCTCCACGACGA+TGG	0.571946	7_1:-17384504	Msa1012290:CDS
ATAAATGCAACCCAACTCGC+CGG	0.591882	7_1:+17384530	None:intergenic
AGCGAATAGGCTTGGCCAGT+AGG	0.600509	7_1:+17384356	None:intergenic
GCTTGGCCAGTAGGATTCAA+CGG	0.611797	7_1:+17384365	None:intergenic
TTGGGATTCCATCGTCGTGG+AGG	0.650788	7_1:+17384496	None:intergenic
TGATTGGGATTCCATCGTCG+TGG	0.662981	7_1:+17384493	None:intergenic
ATCGTCGTGGAGGATCAAGG+TGG	0.762210	7_1:+17384506	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	GAAAAAAGATAATAGACTTA+CGG	+	chr7_1:17384369-17384388	None:intergenic	20.0%
!	CTAAAAAAAAGAGAGCAATT+TGG	+	chr7_1:17384411-17384430	None:intergenic	25.0%
!!!	CAAATTGCTCTCTTTTTTTT+AGG	-	chr7_1:17384409-17384428	Msa1012290:intron	25.0%
	ATAATAGACTTACGGTGATT+GGG	+	chr7_1:17384361-17384380	None:intergenic	30.0%
!!!	ATTGCTCTCTTTTTTTTAGG+CGG	-	chr7_1:17384412-17384431	Msa1012290:intron	30.0%
!	GATGATCTCATTTTGAATTC+CGG	-	chr7_1:17384527-17384546	Msa1012290:CDS	30.0%
	GATAATAGACTTACGGTGAT+TGG	+	chr7_1:17384362-17384381	None:intergenic	35.0%
!!!	TTTTTTTAGGCGGAGAAGAT+CGG	-	chr7_1:17384422-17384441	Msa1012290:intron	35.0%
	TTTGAGCAAGCTTAGCGAAT+AGG	+	chr7_1:17384496-17384515	None:intergenic	40.0%
	ATAAATGCAACCCAACTCGC+CGG	+	chr7_1:17384309-17384328	None:intergenic	45.0%
	GAAGATCGGCACTTTGTTGA+AGG	-	chr7_1:17384436-17384455	Msa1012290:intron	45.0%
	TGATTGGGATTCCATCGTCG+TGG	+	chr7_1:17384346-17384365	None:intergenic	50.0%
	ACGTCACCGTTGAATCCTAC+TGG	-	chr7_1:17384465-17384484	Msa1012290:intron	50.0%
	GCTTGGCCAGTAGGATTCAA+CGG	+	chr7_1:17384474-17384493	None:intergenic	50.0%
	GCAAGCTTAGCGAATAGGCT+TGG	+	chr7_1:17384491-17384510	None:intergenic	50.0%
	ATCGTCGTGGAGGATCAAGG+TGG	+	chr7_1:17384333-17384352	None:intergenic	55.0%
	ACCTTGATCCTCCACGACGA+TGG	-	chr7_1:17384332-17384351	Msa1012290:CDS	55.0%
	TCCATCGTCGTGGAGGATCA+AGG	+	chr7_1:17384336-17384355	None:intergenic	55.0%
	TTGGGATTCCATCGTCGTGG+AGG	+	chr7_1:17384343-17384362	None:intergenic	55.0%
	AGCGAATAGGCTTGGCCAGT+AGG	+	chr7_1:17384483-17384502	None:intergenic	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr7_1	gene	17384299	17384559	17384299	ID=Msa1012290;Name=Msa1012290
chr7_1	mRNA	17384299	17384559	17384299	ID=Msa1012290-mRNA-1;Parent=Msa1012290;Name=Msa1012290-mRNA-1;_AED=0.41;_eAED=0.41;_QI=0\|0\|0\|1\|1\|1\|2\|0\|65
chr7_1	exon	17384491	17384559	17384491	ID=Msa1012290-mRNA-1:exon:4365;Parent=Msa1012290-mRNA-1
chr7_1	exon	17384299	17384427	17384299	ID=Msa1012290-mRNA-1:exon:4364;Parent=Msa1012290-mRNA-1
chr7_1	CDS	17384491	17384559	17384491	ID=Msa1012290-mRNA-1:cds;Parent=Msa1012290-mRNA-1
chr7_1	CDS	17384299	17384427	17384299	ID=Msa1012290-mRNA-1:cds;Parent=Msa1012290-mRNA-1

Gene Sequence	>Msa1012290 ATGAGTTCCGGCGAGTTGGGTTGCATTTATGCCACCTTGATCCTCCACGACGATGGAATCCCAATCACCGCGGAGAAGATCGGCACTTTGTTGAAGGCTGCTAACGTCACCGTTGAATCCTACTGGCCAAGCCTATTCGCTAAGCTTGCTCAAAGCAAGAACATTGATGATCTCATTTTGAATTCCGGCAATTGTTGA
Protein sequence	>Msa1012290 MSSGELGCIYATLILHDDGIPITAEKIGTLLKAANVTVESYWPSLFAKLAQSKNIDDLILNSGNC*