AlfalfaGEDB | Msa1466040

M. sativa cultivar zhongmu-4 / Msa1466040

KEGG: K02898
GO: GO:0002181 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0003735 GO:0005198 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0005773 GO:0005774 GO:0005829 GO:0005840 GO:0005844 GO:0005886 GO:0006412 GO:0006518 GO:0006807 GO:0006950 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009266 GO:0009409 GO:0009507 GO:0009536 GO:0009628 GO:0009987 GO:0010467 GO:0015934 GO:0016020 GO:0019538 GO:0022613 GO:0022625 GO:0022626 GO:0031090 GO:0031974 GO:0031981 GO:0032991 GO:0034641 GO:0034645 GO:0042254 GO:0042273 GO:0042788 GO:0043043 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043603 GO:0043604 GO:0044085 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044391 GO:0044422 GO:0044424 GO:0044428 GO:0044437 GO:0044444 GO:0044445 GO:0044446 GO:0044464 GO:0050896 GO:0070013 GO:0071704 GO:0071840 GO:0071944 GO:0097159 GO:0098588 GO:0098805 GO:1901363 GO:1901564 GO:1901566 GO:1901576 GO:1990904
PFAM: PF16906.8

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1466040	XP_003611586.2	99.315	146	1	0	1	146	1	146	6.46e-99	290

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1466040	sp\|P51414\|RL261_ARATH	84.932	146	22	0	1	146	1	146	7.07e-90	260

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1466040	G7K2J3	99.315	146	1	0	1	146	1	146	3.09e-99	290

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa1323170	Msa1466040	0.804031	2.625129e-49	-8.615850e-47
Msa0297830	Msa1466040	0.803103	4.090017e-49	-8.615850e-47
Msa0335840	Msa1466040	0.812993	3.204662e-51	-8.615850e-47

PPI

Gene1	Gene2	Type

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1466040	MtrunA17_Chr5g0401191	99.315	146	1	0	1	146	1	146	5.95e-103	290
Msa1466040	MtrunA17_Chr2g0281331	94.521	146	8	0	1	146	1	146	4.94e-90	258
Msa1466040	MtrunA17_Chr5g0447011	91.096	146	13	0	1	146	1	146	1.89e-87	251
Msa1466040	MtrunA17_Chr8g0370201	59.302	86	8	1	30	115	1	59	1.67e-24	89.7

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1466040	AT3G49910.1	84.932	146	22	0	1	146	1	146	7.19e-91	260
Msa1466040	AT5G67510.1	85.616	146	21	0	1	146	1	146	7.60e-91	260

Find 47 sgRNAs with CRISPR-Local

Find 48 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
CTTCCCTTCACGTCCCTTGA+AGG	0.334674	tig0045848:+2292	Msa1466040:intergenic
TGCAAGTTTATCGTAGGAAA+TGG	0.354784	tig0045848:-2265	Msa1466040:CDS
TACCAAGATTCGTTTGGATA+AGG	0.385625	tig0045848:-2159	Msa1466040:CDS
ATCCTTATCCAAACGAATCT+TGG	0.396970	tig0045848:+2157	Msa1466040:intergenic
AAAACACGACGGACGCTTGA+TGG	0.398070	tig0045848:+2410	Msa1466040:intergenic
ATTACACGTGAGAAGGTTAA+TGG	0.405029	tig0045848:-2224	Msa1466040:CDS
TGTGATTACCAAGATTCGTT+TGG	0.408401	tig0045848:-2165	Msa1466040:CDS
TTGGTAATCACAACCTTTGA+AGG	0.416639	tig0045848:+2176	Msa1466040:intergenic
GGGTCGTGCCGCTGCTGATA+AGG	0.421050	tig0045848:-2105	Msa1466040:CDS
TCGTAAGGATGATGAAGTTC+AGG	0.424559	tig0045848:-2327	Msa1466040:CDS
CGACGGCTGCTTGAAACCCT+AGG	0.429571	tig0045848:+2461	Msa1466040:intergenic
TGCCGCTGCTGATAAGGAAA+AGG	0.460452	tig0045848:-2099	Msa1466040:CDS
GAACGGAGGTCACCGGAGAT+AGG	0.462291	tig0045848:+2377	Msa1466040:intergenic
AAACACGACGGACGCTTGAT+GGG	0.465655	tig0045848:+2411	Msa1466040:intergenic
GCGTTCTCTTCCCGTTCGTA+AGG	0.475960	tig0045848:-2342	Msa1466040:CDS
AATGTCTTCAGGAGCAAACT+TGG	0.478032	tig0045848:+2073	Msa1466040:intergenic
GAAAAGCTTGCTTGATCGTA+AGG	0.501897	tig0045848:-2132	Msa1466040:CDS
GCAAGTTTATCGTAGGAAAT+GGG	0.504322	tig0045848:-2264	Msa1466040:CDS
ACTTCATCATCCTTACGAAC+GGG	0.506464	tig0045848:+2332	None:intergenic
ACACAATGAAGTTCAACCCT+AGG	0.518183	tig0045848:-2478	None:intergenic
TTGATGAGCGCACCTATCTC+CGG	0.519206	tig0045848:-2389	Msa1466040:CDS
GGTAGTGAGAGGAACCTTCA+AGG	0.522192	tig0045848:-2306	Msa1466040:CDS
GTACTTTGAACGGAGGTCAC+CGG	0.530458	tig0045848:+2370	Msa1466040:intergenic
CAGCCGTCGCAAGAGCCGCA+AGG	0.548428	tig0045848:-2447	Msa1466040:CDS
CACAATGAAGTTCAACCCTA+GGG	0.551275	tig0045848:-2477	None:intergenic
GCCGCTGCTGATAAGGAAAA+GGG	0.554219	tig0045848:-2098	Msa1466040:CDS
AATGGGTGATTCATATTGAG+AGG	0.559538	tig0045848:-2247	Msa1466040:CDS
AACTTCATCATCCTTACGAA+CGG	0.563073	tig0045848:+2331	Msa1466040:intergenic
GGAACCTTCAAGGGACGTGA+AGG	0.563323	tig0045848:-2296	Msa1466040:CDS
GACGGCTGCTTGAAACCCTA+GGG	0.565492	tig0045848:+2462	Msa1466040:intergenic
TGTTGGTGTTGATCCTTCAA+AGG	0.568879	tig0045848:-2189	Msa1466040:CDS
GAGCCTTGCGGCTCTTGCGA+CGG	0.572981	tig0045848:+2444	Msa1466040:intergenic
CTTGCTTGATCGTAAGGCGA+AGG	0.575754	tig0045848:-2126	Msa1466040:CDS
AACGCACGTTGTACTTTGAA+CGG	0.578356	tig0045848:+2360	Msa1466040:intergenic
AGATTCGTTTGGATAAGGAT+AGG	0.578817	tig0045848:-2154	Msa1466040:CDS
AACACGACGGACGCTTGATG+GGG	0.578903	tig0045848:+2412	Msa1466040:intergenic
TGAGAGGATTACACGTGAGA+AGG	0.580146	tig0045848:-2231	Msa1466040:CDS
GATGAAGTTCAGGTAGTGAG+AGG	0.591688	tig0045848:-2317	Msa1466040:CDS
CTTCAAGGGACGTGAAGGGA+AGG	0.593141	tig0045848:-2291	Msa1466040:CDS
AGGTTGTGCAAGTTTATCGT+AGG	0.600876	tig0045848:-2271	Msa1466040:CDS
AATGGTCAAACTGTGAATGT+TGG	0.612366	tig0045848:-2206	Msa1466040:CDS
TTGCTTGATCGTAAGGCGAA+GGG	0.621055	tig0045848:-2125	Msa1466040:CDS
GTAGTGAGAGGAACCTTCAA+GGG	0.634832	tig0045848:-2305	Msa1466040:CDS
GAACCTTCAAGGGACGTGAA+GGG	0.643186	tig0045848:-2295	Msa1466040:CDS
GCACGTTGTACTTTGAACGG+AGG	0.673729	tig0045848:+2363	Msa1466030:intergenic
GGGCGGTGAAATGAGCCTTG+CGG	0.681827	tig0045848:+2432	Msa1466030:intergenic
GTGCGCTCATCAAAACACGA+CGG	0.773237	tig0045848:+2399	Msa1466030:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
	AACTTCATCATCCTTACGAA+CGG	+	tig0045848:2200-2219	Msa1466040:intergenic	35.0%
	TGCAAGTTTATCGTAGGAAA+TGG	-	tig0045848:2263-2282	Msa1466040:CDS	35.0%
	GCAAGTTTATCGTAGGAAAT+GGG	-	tig0045848:2264-2283	Msa1466040:CDS	35.0%
	AATGGGTGATTCATATTGAG+AGG	-	tig0045848:2281-2300	Msa1466040:CDS	35.0%
	ATTACACGTGAGAAGGTTAA+TGG	-	tig0045848:2304-2323	Msa1466040:CDS	35.0%
	AATGGTCAAACTGTGAATGT+TGG	-	tig0045848:2322-2341	Msa1466040:CDS	35.0%
!	TTGGTAATCACAACCTTTGA+AGG	+	tig0045848:2355-2374	Msa1466040:intergenic	35.0%
	TGTGATTACCAAGATTCGTT+TGG	-	tig0045848:2363-2382	Msa1466040:CDS	35.0%
	TACCAAGATTCGTTTGGATA+AGG	-	tig0045848:2369-2388	Msa1466040:CDS	35.0%
	ATCCTTATCCAAACGAATCT+TGG	+	tig0045848:2374-2393	Msa1466040:intergenic	35.0%
	AGATTCGTTTGGATAAGGAT+AGG	-	tig0045848:2374-2393	Msa1466040:CDS	35.0%
!	ACGTTTTGCATAATGTCTTC+AGG	+	tig0045848:2469-2488	Msa1466040:intergenic	35.0%
	AACGCACGTTGTACTTTGAA+CGG	+	tig0045848:2171-2190	Msa1466040:intergenic	40.0%
	ACTTCATCATCCTTACGAAC+GGG	+	tig0045848:2199-2218	Msa1466040:intergenic	40.0%
	TCGTAAGGATGATGAAGTTC+AGG	-	tig0045848:2201-2220	Msa1466040:CDS	40.0%
	AGGTTGTGCAAGTTTATCGT+AGG	-	tig0045848:2257-2276	Msa1466040:CDS	40.0%
!!	TGTTGGTGTTGATCCTTCAA+AGG	-	tig0045848:2339-2358	Msa1466040:CDS	40.0%
!	GAAAAGCTTGCTTGATCGTA+AGG	-	tig0045848:2396-2415	Msa1466040:CDS	40.0%
	AATGTCTTCAGGAGCAAACT+TGG	+	tig0045848:2458-2477	Msa1466040:intergenic	40.0%
	GATGAAGTTCAGGTAGTGAG+AGG	-	tig0045848:2211-2230	Msa1466040:CDS	45.0%
	GTAGTGAGAGGAACCTTCAA+GGG	-	tig0045848:2223-2242	Msa1466040:CDS	45.0%
	TGAGAGGATTACACGTGAGA+AGG	-	tig0045848:2297-2316	Msa1466040:CDS	45.0%
	TTGCTTGATCGTAAGGCGAA+GGG	-	tig0045848:2403-2422	Msa1466040:CDS	45.0%
!	ACCCTTTTCCTTATCAGCAG+CGG	+	tig0045848:2434-2453	Msa1466040:intergenic	45.0%
	AAACACGACGGACGCTTGAT+GGG	+	tig0045848:2120-2139	Msa1466040:intergenic	50.0%
	AAAACACGACGGACGCTTGA+TGG	+	tig0045848:2121-2140	Msa1466040:intergenic	50.0%
	GTGCGCTCATCAAAACACGA+CGG	+	tig0045848:2132-2151	Msa1466040:intergenic	50.0%
	TTGATGAGCGCACCTATCTC+CGG	-	tig0045848:2139-2158	Msa1466040:CDS	50.0%
	GTACTTTGAACGGAGGTCAC+CGG	+	tig0045848:2161-2180	Msa1466040:intergenic	50.0%
	GCACGTTGTACTTTGAACGG+AGG	+	tig0045848:2168-2187	Msa1466040:intergenic	50.0%
	GGTAGTGAGAGGAACCTTCA+AGG	-	tig0045848:2222-2241	Msa1466040:CDS	50.0%
	GAACCTTCAAGGGACGTGAA+GGG	-	tig0045848:2233-2252	Msa1466040:CDS	50.0%
	CTTGCTTGATCGTAAGGCGA+AGG	-	tig0045848:2402-2421	Msa1466040:CDS	50.0%
	TGCCGCTGCTGATAAGGAAA+AGG	-	tig0045848:2429-2448	Msa1466040:CDS	50.0%
	GCCGCTGCTGATAAGGAAAA+GGG	-	tig0045848:2430-2449	Msa1466040:CDS	50.0%
	GACGGCTGCTTGAAACCCTA+GGG	+	tig0045848:2069-2088	Msa1090620:intergenic	55.0%
	AACACGACGGACGCTTGATG+GGG	+	tig0045848:2119-2138	Msa1466040:intergenic	55.0%
	GCGTTCTCTTCCCGTTCGTA+AGG	-	tig0045848:2186-2205	Msa1466040:CDS	55.0%
	GGAACCTTCAAGGGACGTGA+AGG	-	tig0045848:2232-2251	Msa1466040:CDS	55.0%
	CTTCCCTTCACGTCCCTTGA+AGG	+	tig0045848:2239-2258	Msa1466040:intergenic	55.0%
	CTTCAAGGGACGTGAAGGGA+AGG	-	tig0045848:2237-2256	Msa1466040:CDS	55.0%
	CGACGGCTGCTTGAAACCCT+AGG	+	tig0045848:2070-2089	Msa1090620:intergenic	60.0%
	GGGCGGTGAAATGAGCCTTG+CGG	+	tig0045848:2099-2118	Msa1466040:intergenic	60.0%
	GAACGGAGGTCACCGGAGAT+AGG	+	tig0045848:2154-2173	Msa1466040:intergenic	60.0%
	GAGCCTTGCGGCTCTTGCGA+CGG	+	tig0045848:2087-2106	Msa1466040:intergenic	65.0%
	ACGACGGACGCTTGATGGGG+CGG	+	tig0045848:2116-2135	Msa1466040:intergenic	65.0%
!	GGGTCGTGCCGCTGCTGATA+AGG	-	tig0045848:2423-2442	Msa1466040:CDS	65.0%
	CAGCCGTCGCAAGAGCCGCA+AGG	-	tig0045848:2081-2100	Msa1466040:CDS	70.0%

Chromosome	Type	Strat	End	Strand	Name
tig0045848	gene	2055	2495	2055	ID=Msa1466040;Name=Msa1466040
tig0045848	mRNA	2055	2495	2055	ID=Msa1466040-mRNA-1;Parent=Msa1466040;Name=Msa1466040-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|146
tig0045848	exon	2055	2495	2055	ID=Msa1466040-mRNA-1:exon:24963;Parent=Msa1466040-mRNA-1
tig0045848	CDS	2055	2495	2055	ID=Msa1466040-mRNA-1:cds;Parent=Msa1466040-mRNA-1

Gene Sequence

>Msa1466040

ATGAAGTTCAACCCTAGGGTTTCAAGCAGCCGTCGCAAGAGCCGCAAGGCTCATTTCACCGCCCCATCAAGCGTCCGTCGTGTTTTGATGAGCGCACCTATCTCCGGTGACCTCCGTTCAAAGTACAACGTGCGTTCTCTTCCCGTTCGTAAGGATGATGAAGTTCAGGTAGTGAGAGGAACCTTCAAGGGACGTGAAGGGAAGGTTGTGCAAGTTTATCGTAGGAAATGGGTGATTCATATTGAGAGGATTACACGTGAGAAGGTTAATGGTCAAACTGTGAATGTTGGTGTTGATCCTTCAAAGGTTGTGATTACCAAGATTCGTTTGGATAAGGATAGGAAAAGCTTGCTTGATCGTAAGGCGAAGGGTCGTGCCGCTGCTGATAAGGAAAAGGGTACCAAGTTTGCTCCTGAAGACATTATGCAAAACGTTGATTAG

Protein sequence

>Msa1466040

MKFNPRVSSSRRKSRKAHFTAPSSVRRVLMSAPISGDLRSKYNVRSLPVRKDDEVQVVRGTFKGREGKVVQVYRRKWVIHIERITREKVNGQTVNVGVDPSKVVITKIRLDKDRKSLLDRKAKGRAAADKEKGTKFAPEDIMQNVD*