AlfalfaGEDB | Msa0136290

M. sativa cultivar zhongmu-4 / Msa0136290

KEGG: K01520
GO: GO:0000287 GO:0003674 GO:0003824 GO:0004170 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006139 GO:0006220 GO:0006221 GO:0006226 GO:0006244 GO:0006259 GO:0006281 GO:0006725 GO:0006753 GO:0006793 GO:0006796 GO:0006807 GO:0006950 GO:0006974 GO:0008150 GO:0008152 GO:0009056 GO:0009058 GO:0009117 GO:0009123 GO:0009124 GO:0009129 GO:0009130 GO:0009141 GO:0009143 GO:0009147 GO:0009149 GO:0009157 GO:0009162 GO:0009165 GO:0009166 GO:0009176 GO:0009177 GO:0009200 GO:0009204 GO:0009211 GO:0009213 GO:0009219 GO:0009221 GO:0009223 GO:0009262 GO:0009263 GO:0009264 GO:0009265 GO:0009394 GO:0009987 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0018130 GO:0019438 GO:0019439 GO:0019637 GO:0019692 GO:0033554 GO:0034404 GO:0034641 GO:0034654 GO:0034655 GO:0042802 GO:0043167 GO:0043169 GO:0043170 GO:0044237 GO:0044238 GO:0044248 GO:0044249 GO:0044260 GO:0044270 GO:0044271 GO:0044281 GO:0044283 GO:0044424 GO:0044444 GO:0044464 GO:0046078 GO:0046080 GO:0046081 GO:0046385 GO:0046386 GO:0046434 GO:0046483 GO:0046700 GO:0046872 GO:0047429 GO:0050896 GO:0051716 GO:0055086 GO:0071704 GO:0072527 GO:0072528 GO:0072529 GO:0090304 GO:0090407 GO:1901135 GO:1901136 GO:1901137 GO:1901292 GO:1901293 GO:1901360 GO:1901361 GO:1901362 GO:1901564 GO:1901565 GO:1901566 GO:1901575 GO:1901576
PFAM: PF00692.22

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0136290	RHN67997.1	95.495	111	5	0	3	113	77	187	8.65e-69	214

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0136290	sp\|Q9STG6\|DUT_ARATH	85.586	111	16	0	3	113	56	166	8.62e-64	194

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0136290	A0A396IYG6	95.495	111	5	0	3	113	77	187	4.13e-69	214

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0024550	Msa0136290	0.801004	1.104451e-48	-8.615850e-47
Msa0120400	Msa0136290	0.808138	3.588676e-50	-8.615850e-47
Msa0136290	Msa0136370	0.815375	9.550105e-52	-8.615850e-47
Msa0136290	Msa0337700	0.808057	3.733731e-50	-8.615850e-47
Msa0136290	Msa0875290	0.807845	4.141840e-50	-8.615850e-47
Msa0136290	Msa0967380	0.829318	5.505049e-55	-8.615850e-47
Msa0136290	Msa1236410	0.815532	8.811805e-52	-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
Msa0136290	MtrunA17_Chr3g0108931	95.495	111	5	0	3	113	77	187	7.96e-73	214

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0136290	AT3G46940.1	85.586	111	16	0	3	113	56	166	8.76e-65	194
Msa0136290	AT3G46940.2	85.586	111	16	0	3	113	97	207	1.02e-64	195

Find 42 sgRNAs with CRISPR-Local

Find 71 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TCTGGAAGTTTCCGAGGTTT+TGG	0.239012	1_3:-68124895	Msa0136290:CDS
GTTAGAGGTGAAGGTGGTTT+TGG	0.293840	1_3:-68124858	Msa0136290:CDS
ATTAAGGAATTTGGGTGATT+TGG	0.293926	1_3:-68124667	Msa0136290:three_prime_UTR
GATTTGGATTCTACTGTTAG+AGG	0.343621	1_3:-68124873	Msa0136290:CDS
TTTGCTGTATTAAGGAATTT+GGG	0.349595	1_3:-68124675	Msa0136290:three_prime_UTR
TGGAAGGTGTTTGCATGGTT+TGG	0.363483	1_3:-68124640	None:intergenic
ACACGAGCATAGGTTCCTTC+AGG	0.369361	1_3:+68125187	None:intergenic
CGCCGCCGATTCAAAGGTTC+CGG	0.372421	1_3:-68125254	Msa0136290:CDS
AATTTGGGTGATTTGGTTAG+TGG	0.377664	1_3:-68124660	Msa0136290:three_prime_UTR
CTGATTACAAAGGACCTGTT+GGG	0.410040	1_3:-68125004	Msa0136290:CDS
CTCAATAATATTCTCAGAAT+AGG	0.417003	1_3:+68124735	None:intergenic
CATTCGATTGACGTTGGTGT+TGG	0.433193	1_3:-68125038	Msa0136290:CDS
CTTAATACAGCAAAATAGTA+AGG	0.468503	1_3:+68124684	None:intergenic
CGCCGAGATCGGGGTTGACA+TGG	0.473074	1_3:-68125064	Msa0136290:CDS
TATTGAGAAGATTATTACTC+TGG	0.475325	1_3:-68124913	Msa0136290:CDS
TTCCATGTCAACCCCGATCT+CGG	0.481839	1_3:+68125062	None:intergenic
ATGAGAGCTTTGCCGCGAGC+CGG	0.494102	1_3:+68125235	None:intergenic
TTAAACAGTATAACCCCAAC+AGG	0.497604	1_3:+68124990	None:intergenic
GATTCTACTGTTAGAGGTGA+AGG	0.505946	1_3:-68124867	Msa0136290:CDS
CTCCAGCGCCGCCGATTCAA+AGG	0.509909	1_3:-68125260	Msa0136290:intron
CTCTCCATTGCCGTCCCTGA+AGG	0.516470	1_3:-68125202	Msa0136290:CDS
GCGAGCCGGAACCTTTGAAT+CGG	0.523716	1_3:+68125249	None:intergenic
CACGAGCATAGGTTCCTTCA+GGG	0.535140	1_3:+68125188	None:intergenic
TTTAACAGTGTGTGTAGTTG+GGG	0.539552	1_3:-68124795	Msa0136290:three_prime_UTR
TTAATTACCAACACGAGCAT+AGG	0.548576	1_3:+68125177	None:intergenic
GTTAGTGGAAGGTGTTTGCA+TGG	0.552538	1_3:-68124645	Msa0136290:three_prime_UTR
TATTACTCTGGAAGTTTCCG+AGG	0.555738	1_3:-68124901	Msa0136290:CDS
GGTTCCTTCAGGGACGGCAA+TGG	0.559917	1_3:+68125198	None:intergenic
ACGGCAATGGAGAGATCTGT+GGG	0.564190	1_3:+68125211	None:intergenic
AGCCGGAACCTTTGAATCGG+CGG	0.570711	1_3:+68125252	None:intergenic
TCTACTGTTAGAGGTGAAGG+TGG	0.578300	1_3:-68124864	Msa0136290:CDS
GCTGATTACAAAGGACCTGT+TGG	0.580430	1_3:-68125005	Msa0136290:CDS
GATTCAAAGGTTCCGGCTCG+CGG	0.589951	1_3:-68125247	Msa0136290:CDS
GACGGCAATGGAGAGATCTG+TGG	0.593379	1_3:+68125210	None:intergenic
TGGGTGATTTGGTTAGTGGA+AGG	0.594970	1_3:-68124656	Msa0136290:three_prime_UTR
AGCATAGGTTCCTTCAGGGA+CGG	0.600516	1_3:+68125192	None:intergenic
GAAGGAACCTATGCTCGTGT+TGG	0.606547	1_3:-68125184	Msa0136290:intron
TGATTACAAAGGACCTGTTG+GGG	0.628386	1_3:-68125003	Msa0136290:CDS
AGAATCCAAATCCAAAACCT+CGG	0.631874	1_3:+68124884	None:intergenic
TGGAAGCATTCGATTGACGT+TGG	0.634202	1_3:-68125044	Msa0136290:CDS
ATGATTGATGCTGATTACAA+AGG	0.659325	1_3:-68125014	Msa0136290:CDS
CGGCAATGGAGAGATCTGTG+GGG	0.789889	1_3:+68125212	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	TTTTAGGGTTTTTGAAATTT+AGG	-	chr1_3:68124836-68124855	Msa0136290:exon	20.0%
!!!	TTTAGGGTTTTTGAAATTTA+GGG	-	chr1_3:68124837-68124856	Msa0136290:exon	20.0%
!!!	TTTACTATTTTGCTTTGTTA+AGG	-	chr1_3:68125193-68125212	Msa0136290:CDS	20.0%
!	AAAAACCTGAAATTGGAAAA+GGG	+	chr1_3:68124813-68124832	None:intergenic	25.0%
!	AAAAGTCAAAAACCTGAAAT+TGG	+	chr1_3:68124820-68124839	None:intergenic	25.0%
!!!	ATTTCAGGTTTTTGACTTTT+AGG	-	chr1_3:68124820-68124839	Msa0136290:three_prime_UTR	25.0%
!!!	TTTCAGGTTTTTGACTTTTA+GGG	-	chr1_3:68124821-68124840	Msa0136290:three_prime_UTR	25.0%
!	TATTGAGAAGATTATTACTC+TGG	-	chr1_3:68125040-68125059	Msa0136290:CDS	25.0%
!	CTCAATAATATTCTCAGAAT+AGG	+	chr1_3:68125221-68125240	None:intergenic	25.0%
!	CTTAATACAGCAAAATAGTA+AGG	+	chr1_3:68125272-68125291	None:intergenic	25.0%
!!!	CTTACTATTTTGCTGTATTA+AGG	-	chr1_3:68125270-68125289	Msa0136290:intron	25.0%
!!!	TTTTGCTGTATTAAGGAATT+TGG	-	chr1_3:68125277-68125296	Msa0136290:intron	25.0%
!!	TTTGCTGTATTAAGGAATTT+GGG	-	chr1_3:68125278-68125297	Msa0136290:intron	25.0%
	AAAACCTGAAATTGGAAAAG+GGG	+	chr1_3:68124812-68124831	None:intergenic	30.0%
	CAAAAACCTGAAATTGGAAA+AGG	+	chr1_3:68124814-68124833	None:intergenic	30.0%
!	ATGATTGATGCTGATTACAA+AGG	-	chr1_3:68124939-68124958	Msa0136290:CDS	30.0%
!!!	GTTGATTTTGAAGTGAAAGT+TGG	-	chr1_3:68124996-68125015	Msa0136290:CDS	30.0%
!!	ATTTTAACAGTGTGTGTAGT+TGG	-	chr1_3:68125156-68125175	Msa0136290:intron	30.0%
!	TTTTAACAGTGTGTGTAGTT+GGG	-	chr1_3:68125157-68125176	Msa0136290:intron	30.0%
	ATTAAGGAATTTGGGTGATT+TGG	-	chr1_3:68125286-68125305	Msa0136290:intron	30.0%
	TTAATTACCAACACGAGCAT+AGG	+	chr1_3:68124779-68124798	None:intergenic	35.0%
!	TTTTCCCCTTTTCCAATTTC+AGG	-	chr1_3:68124805-68124824	Msa0136290:three_prime_UTR	35.0%
	TTAAACAGTATAACCCCAAC+AGG	+	chr1_3:68124966-68124985	None:intergenic	35.0%
	AGAATCCAAATCCAAAACCT+CGG	+	chr1_3:68125072-68125091	None:intergenic	35.0%
	GATTTGGATTCTACTGTTAG+AGG	-	chr1_3:68125080-68125099	Msa0136290:intron	35.0%
	TTTAACAGTGTGTGTAGTTG+GGG	-	chr1_3:68125158-68125177	Msa0136290:intron	35.0%
!!	AATTTGGGTGATTTGGTTAG+TGG	-	chr1_3:68125293-68125312	Msa0136290:intron	35.0%
	CTGATTACAAAGGACCTGTT+GGG	-	chr1_3:68124949-68124968	Msa0136290:CDS	40.0%
	TGATTACAAAGGACCTGTTG+GGG	-	chr1_3:68124950-68124969	Msa0136290:CDS	40.0%
!	TATTACTCTGGAAGTTTCCG+AGG	-	chr1_3:68125052-68125071	Msa0136290:CDS	40.0%
!!!	AGTTTCCGAGGTTTTGGATT+TGG	-	chr1_3:68125064-68125083	Msa0136290:CDS	40.0%
	GATTCTACTGTTAGAGGTGA+AGG	-	chr1_3:68125086-68125105	Msa0136290:intron	40.0%
!!!	AAGGTGGTTTTGGATCTACT+GGG	-	chr1_3:68125105-68125124	Msa0136290:intron	40.0%
!!	TGGAAGCATTCGATTGACGT+TGG	-	chr1_3:68124909-68124928	Msa0136290:CDS	45.0%
	CATTCGATTGACGTTGGTGT+TGG	-	chr1_3:68124915-68124934	Msa0136290:CDS	45.0%
	GCTGATTACAAAGGACCTGT+TGG	-	chr1_3:68124948-68124967	Msa0136290:CDS	45.0%
!	TCTGGAAGTTTCCGAGGTTT+TGG	-	chr1_3:68125058-68125077	Msa0136290:CDS	45.0%
	TCTACTGTTAGAGGTGAAGG+TGG	-	chr1_3:68125089-68125108	Msa0136290:intron	45.0%
!	GTTAGAGGTGAAGGTGGTTT+TGG	-	chr1_3:68125095-68125114	Msa0136290:intron	45.0%
!!!	GAAGGTGGTTTTGGATCTAC+TGG	-	chr1_3:68125104-68125123	Msa0136290:intron	45.0%
!!!	AGGTGGTTTTGGATCTACTG+GGG	-	chr1_3:68125106-68125125	Msa0136290:intron	45.0%
!!	TGGGTGATTTGGTTAGTGGA+AGG	-	chr1_3:68125297-68125316	Msa0136290:intron	45.0%
!!	GTTAGTGGAAGGTGTTTGCA+TGG	-	chr1_3:68125308-68125327	Msa0136290:intron	45.0%
	GGAGTGGTTATACCTTCTCG+CGG	-	chr1_3:68124643-68124662	Msa0136290:three_prime_UTR	50.0%
	ACGGCAATGGAGAGATCTGT+GGG	+	chr1_3:68124745-68124764	None:intergenic	50.0%
	AGCATAGGTTCCTTCAGGGA+CGG	+	chr1_3:68124764-68124783	None:intergenic	50.0%
	CACGAGCATAGGTTCCTTCA+GGG	+	chr1_3:68124768-68124787	None:intergenic	50.0%
	ACACGAGCATAGGTTCCTTC+AGG	+	chr1_3:68124769-68124788	None:intergenic	50.0%
	GAAGGAACCTATGCTCGTGT+TGG	-	chr1_3:68124769-68124788	Msa0136290:three_prime_UTR	50.0%
!!	GATTTTTGCAGCGCCGAGAT+CGG	-	chr1_3:68124878-68124897	Msa0136290:CDS	50.0%
!!	ATTTTTGCAGCGCCGAGATC+GGG	-	chr1_3:68124879-68124898	Msa0136290:CDS	50.0%
	TTCCATGTCAACCCCGATCT+CGG	+	chr1_3:68124894-68124913	None:intergenic	50.0%
	ATCGTATCCGACGGAGAGAG+GGG	+	chr1_3:68124671-68124690	None:intergenic	55.0%
	GATCGTATCCGACGGAGAGA+GGG	+	chr1_3:68124672-68124691	None:intergenic	55.0%
	AGATCGTATCCGACGGAGAG+AGG	+	chr1_3:68124673-68124692	None:intergenic	55.0%
	GCTGGAGAGATCGTATCCGA+CGG	+	chr1_3:68124680-68124699	None:intergenic	55.0%
	AGCCGGAACCTTTGAATCGG+CGG	+	chr1_3:68124704-68124723	None:intergenic	55.0%
	GCGAGCCGGAACCTTTGAAT+CGG	+	chr1_3:68124707-68124726	None:intergenic	55.0%
!	GATTCAAAGGTTCCGGCTCG+CGG	-	chr1_3:68124706-68124725	Msa0136290:three_prime_UTR	55.0%
	CGGCAATGGAGAGATCTGTG+GGG	+	chr1_3:68124744-68124763	None:intergenic	55.0%
	GACGGCAATGGAGAGATCTG+TGG	+	chr1_3:68124746-68124765	None:intergenic	55.0%
!!	TTTTTGCAGCGCCGAGATCG+GGG	-	chr1_3:68124880-68124899	Msa0136290:CDS	55.0%
	AACCTTTGAATCGGCGGCGC+TGG	+	chr1_3:68124698-68124717	None:intergenic	60.0%
!!	CGCCGCCGATTCAAAGGTTC+CGG	-	chr1_3:68124699-68124718	Msa0136290:three_prime_UTR	60.0%
	ATGAGAGCTTTGCCGCGAGC+CGG	+	chr1_3:68124721-68124740	None:intergenic	60.0%
	CTCTCCATTGCCGTCCCTGA+AGG	-	chr1_3:68124751-68124770	Msa0136290:three_prime_UTR	60.0%
	GGTTCCTTCAGGGACGGCAA+TGG	+	chr1_3:68124758-68124777	None:intergenic	60.0%
!!	CTCCAGCGCCGCCGATTCAA+AGG	-	chr1_3:68124693-68124712	Msa0136290:three_prime_UTR	65.0%
	CGCCGAGATCGGGGTTGACA+TGG	-	chr1_3:68124889-68124908	Msa0136290:CDS	65.0%
	GAGAGAGGGGAGCCGCGAGA+AGG	+	chr1_3:68124658-68124677	None:intergenic	70.0%
	CGCGGCTCCCCTCTCTCCGT+CGG	-	chr1_3:68124661-68124680	Msa0136290:three_prime_UTR	75.0%

Chromosome	Type	Strat	End	Strand	Name
chr1_3	gene	68124641	68125334	68124641	ID=Msa0136290;Name=Msa0136290
chr1_3	mRNA	68124641	68125334	68124641	ID=Msa0136290-mRNA-1;Parent=Msa0136290;Name=Msa0136290-mRNA-1;_AED=0.11;_eAED=0.11;_QI=0\|0.5\|0.33\|1\|0.5\|0.66\|3\|201\|113
chr1_3	exon	68124641	68125086	68124641	ID=Msa0136290-mRNA-1:exon:23532;Parent=Msa0136290-mRNA-1
chr1_3	exon	68125185	68125276	68125185	ID=Msa0136290-mRNA-1:exon:23531;Parent=Msa0136290-mRNA-1
chr1_3	exon	68125330	68125334	68125330	ID=Msa0136290-mRNA-1:exon:23530;Parent=Msa0136290-mRNA-1
chr1_3	CDS	68125330	68125334	68125330	ID=Msa0136290-mRNA-1:cds;Parent=Msa0136290-mRNA-1
chr1_3	CDS	68125185	68125276	68125185	ID=Msa0136290-mRNA-1:cds;Parent=Msa0136290-mRNA-1
chr1_3	CDS	68124842	68125086	68124842	ID=Msa0136290-mRNA-1:cds;Parent=Msa0136290-mRNA-1
chr1_3	three_prime_UTR	68124641	68124841	68124641	ID=Msa0136290-mRNA-1:three_prime_utr;Parent=Msa0136290-mRNA-1

Gene Sequence	>Msa0136290 ATGGACGCCGCCGATTCAAAGGTTCCGGCTCGCGGCAAAGCTCTCATCCCCACAGATCTCTCCATTGCCGTCCCTGAAGGAACCTATGCTCGTGTTGCGCCGAGATCGGGGTTGACATGGAAGCATTCGATTGACGTTGGTGTTGGAATGATTGATGCTGATTACAAAGGACCTGTTGGGGTTATACTGTTTAATCATTCTGATGTTGATTTTGAAGTGAAAGTTGGTGATAGAGTTGCTCAGTTGATTATTGAGAAGATTATTACTCTGGAAGTTTCCGAGGTTTTGGATTTGGATTCTACTGTTAGAGGTGAAGGTGGTTTTGGATCTACTGGGGTTTGA
Protein sequence	>Msa0136290 MDAADSKVPARGKALIPTDLSIAVPEGTYARVAPRSGLTWKHSIDVGVGMIDADYKGPVGVILFNHSDVDFEVKVGDRVAQLIIEKIITLEVSEVLDLDSTVRGEGGFGSTGV*