AlfalfaGEDB | Msa0030900

M. sativa cultivar zhongmu-4 / Msa0030900

KEGG: -
GO: GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0043076 GO:0043078 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044464 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1903506 GO:2000112 GO:2001141
PFAM: PF00319.21

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0030900	sp\|O80805\|PHE1_ARATH	35.484	124	79	1	3	125	2	125	8.68e-20	85.5

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score

TFs/TRs:

Gene ID	Type	Classification
Msa0030900	TF	MADS-M-type

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0030900	Msa0170860	0.966860	1.727937e-126	-8.615850e-47
Msa0030900	Msa0791580	0.979615	2.327082e-148	-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
Msa0030900	MtrunA17_Chr5g0420351	61.538	117	45	0	1	117	1	117	1.98e-47	150
Msa0030900	MtrunA17_Chr4g0012761	49.686	159	56	1	1	135	1	159	2.02e-40	132
Msa0030900	MtrunA17_Chr1g0197461	49.612	129	63	1	3	129	2	130	4.14e-40	131
Msa0030900	MtrunA17_Chr7g0218151	48.428	159	58	1	1	135	1	159	4.57e-40	131
Msa0030900	MtrunA17_Chr1g0193311	57.025	121	52	0	1	121	1	121	1.02e-39	130
Msa0030900	MtrunA17_Chr1g0188661	47.170	159	60	1	1	135	1	159	3.47e-39	129
Msa0030900	MtrunA17_Chr1g0188681	42.038	157	67	1	1	133	1	157	1.81e-37	125
Msa0030900	MtrunA17_Chr1g0188651	46.497	157	62	2	1	135	1	157	5.14e-37	124
Msa0030900	MtrunA17_Chr1g0197321	47.107	121	64	0	1	121	1	121	1.18e-36	122
Msa0030900	MtrunA17_Chr1g0197261	48.760	121	62	0	1	121	1	121	3.57e-35	119
Msa0030900	MtrunA17_Chr4g0013041	35.593	118	73	2	1	117	1	116	2.13e-23	90.5
Msa0030900	MtrunA17_Chr3g0110131	42.149	121	69	1	1	120	1	121	6.62e-21	84.7
Msa0030900	MtrunA17_Chr4g0014321	33.051	118	78	1	1	117	1	118	4.50e-20	82.4
Msa0030900	MtrunA17_Chr3g0107381	35.593	118	75	1	1	117	1	118	1.28e-19	80.9
Msa0030900	MtrunA17_Chr4g0014031	35.036	137	86	2	1	134	1	137	2.07e-19	80.5
Msa0030900	MtrunA17_Chr8g0351751	34.266	143	83	3	1	135	1	140	3.94e-19	80.1
Msa0030900	MtrunA17_Chr3g0107331	35.878	131	81	2	3	132	2	130	8.38e-19	77.4
Msa0030900	MtrunA17_Chr3g0107351	34.483	116	75	1	3	117	2	117	2.44e-17	73.6
Msa0030900	MtrunA17_Chr4g0014121	37.681	138	83	2	1	135	29	166	3.73e-17	73.6
Msa0030900	MtrunA17_Chr4g0014131	37.956	137	82	2	1	134	1	137	4.34e-17	74.3
Msa0030900	MtrunA17_Chr2g0296831	32.203	118	79	1	1	117	1	118	5.74e-17	71.6
Msa0030900	MtrunA17_Chr3g0107361	34.483	116	75	1	3	117	2	117	2.02e-16	71.2
Msa0030900	MtrunA17_Chr5g0432691	32.407	108	72	1	1	107	1	108	5.43e-16	70.1
Msa0030900	MtrunA17_Chr3g0107341	32.174	115	77	1	3	116	2	116	1.06e-15	69.3
Msa0030900	MtrunA17_Chr3g0107461	29.204	113	79	1	1	112	1	113	3.06e-13	62.8
Msa0030900	MtrunA17_Chr4g0008701	30.075	133	85	4	1	126	1	132	1.98e-12	63.2
Msa0030900	MtrunA17_Chr2g0283941	44.068	59	33	0	1	59	1	59	5.67e-12	60.8
Msa0030900	MtrunA17_Chr7g0267601	27.778	108	77	1	3	109	6	113	6.16e-12	61.6

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0030900	AT5G26630.1	38.060	134	74	2	1	133	1	126	1.48e-21	86.3
Msa0030900	AT1G65330.1	35.484	124	79	1	3	125	2	125	8.83e-21	85.5
Msa0030900	AT1G65300.1	35.000	120	77	1	3	121	2	121	1.19e-20	85.1
Msa0030900	AT5G27960.1	38.596	114	69	1	5	117	3	116	3.97e-20	84.3
Msa0030900	AT5G26650.1	37.719	114	70	1	5	117	3	116	2.34e-19	82.8
Msa0030900	AT3G05860.2	32.353	136	87	2	1	135	1	132	9.41e-18	76.3
Msa0030900	AT3G05860.3	32.353	136	87	2	1	135	1	132	2.35e-17	75.9
Msa0030900	AT5G48670.1	37.288	118	73	1	1	117	1	118	2.61e-17	76.6
Msa0030900	AT3G05860.1	32.353	136	87	2	1	135	1	132	2.97e-17	75.9
Msa0030900	AT1G31630.1	32.759	116	76	2	3	117	2	116	2.75e-16	73.9
Msa0030900	AT1G31640.1	32.174	115	76	2	3	116	2	115	8.98e-15	70.1
Msa0030900	AT5G27810.1	31.818	88	59	1	31	117	3	90	1.86e-12	60.1
Msa0030900	AT2G28700.1	30.303	132	85	2	1	128	1	129	2.04e-12	63.2
Msa0030900	AT5G26580.1	33.898	118	63	3	1	117	1	104	4.88e-12	62.0
Msa0030900	AT1G22590.2	30.172	116	80	1	1	115	1	116	7.94e-12	59.7

Find 26 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
CAGCTATCATAGACGAATTT+TGG	0.195643	1_1:+57405844	None:intergenic
AGCTTTCCTTGCTAAATATT+TGG	0.216107	1_1:+57406022	None:intergenic
TGCTAAATATTTGGAGATAA+AGG	0.240702	1_1:+57406031	None:intergenic
ATCTGGCCACACCTCTGTTT+TGG	0.280469	1_1:+57405899	None:intergenic
GTAGCTCTTAAGACCTTGTT+TGG	0.358470	1_1:+57405866	None:intergenic
TATGATTCTTGAACTTAAGA+AGG	0.409403	1_1:-57405712	Msa0030900:CDS
TGTTTGGCACCCTCTAGATC+TGG	0.457133	1_1:+57405882	None:intergenic
AAGCCAAGGAAAACCTGAAA+AGG	0.472288	1_1:-57405773	Msa0030900:CDS
TAAGTTCAAGAATCATAAGA+AGG	0.499644	1_1:+57405718	None:intergenic
TGCCTTCATGCGGAGAAAGA+AGG	0.504023	1_1:-57406000	Msa0030900:CDS
GCAGAAGATTACTGAAGCCA+AGG	0.517795	1_1:-57405787	Msa0030900:CDS
GCAAGGCCATGGCTAGGAGT+AGG	0.521343	1_1:-57406064	None:intergenic
AGAGAACTCACTATTCTTTG+TGG	0.526508	1_1:-57405960	Msa0030900:CDS
CAAGGCCATGGCTAGGAGTA+GGG	0.537523	1_1:-57406063	None:intergenic
TTATCTCCAAATATTTAGCA+AGG	0.539762	1_1:-57406028	Msa0030900:CDS
AGCCTTCTTTCTCCGCATGA+AGG	0.564830	1_1:+57405998	None:intergenic
GATCTAGAGGGTGCCAAACA+AGG	0.565612	1_1:-57405879	Msa0030900:CDS
AGAGGTGTGGCCAGATCTAG+AGG	0.570284	1_1:-57405892	Msa0030900:CDS
TGCATTGCAAGGCCATGGCT+AGG	0.571000	1_1:-57406070	None:intergenic
AGACAATCATGAGAAGAAGC+TGG	0.571579	1_1:-57405742	Msa0030900:CDS
AAAGAAGGCTCTCTTTGAGA+AGG	0.588827	1_1:-57405985	Msa0030900:CDS
CAAGGAAAGCTGCCTTCATG+CGG	0.617357	1_1:-57406010	Msa0030900:CDS
TTTCACCCTACTCCTAGCCA+TGG	0.617946	1_1:+57406058	None:intergenic
TTAATTCCAAAACAGAGGTG+TGG	0.619134	1_1:-57405905	Msa0030900:CDS
TAAGAAGGTAATTGATGACA+AGG	0.625288	1_1:-57405697	Msa0030900:CDS
GAGGTGTGGCCAGATCTAGA+GGG	0.694385	1_1:-57405891	Msa0030900:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!	TGCTAAATATTTGGAGATAA+AGG	+	chr1_1:57405699-57405718	None:intergenic	25.0%
!	TTATCTCCAAATATTTAGCA+AGG	-	chr1_1:57405699-57405718	Msa0030900:CDS	25.0%
!!!	TGTTTTGGAATTAAAAGGAT+TGG	+	chr1_1:57405816-57405835	None:intergenic	25.0%
!	TAAGTTCAAGAATCATAAGA+AGG	+	chr1_1:57406012-57406031	None:intergenic	25.0%
!	TATGATTCTTGAACTTAAGA+AGG	-	chr1_1:57406015-57406034	Msa0030900:CDS	25.0%
	AGCTTTCCTTGCTAAATATT+TGG	+	chr1_1:57405708-57405727	None:intergenic	30.0%
!!	TCCTTTTAATTCCAAAACAG+AGG	-	chr1_1:57405817-57405836	Msa0030900:CDS	30.0%
!!!	ACCTCTGTTTTGGAATTAAA+AGG	+	chr1_1:57405821-57405840	None:intergenic	30.0%
!	TAAGAAGGTAATTGATGACA+AGG	-	chr1_1:57406030-57406049	Msa0030900:CDS	30.0%
	AGAGAACTCACTATTCTTTG+TGG	-	chr1_1:57405767-57405786	Msa0030900:CDS	35.0%
	TTAATTCCAAAACAGAGGTG+TGG	-	chr1_1:57405822-57405841	Msa0030900:CDS	35.0%
!	CAGCTATCATAGACGAATTT+TGG	+	chr1_1:57405886-57405905	None:intergenic	35.0%
!	AAAGAAGGCTCTCTTTGAGA+AGG	-	chr1_1:57405742-57405761	Msa0030900:CDS	40.0%
	GTAGCTCTTAAGACCTTGTT+TGG	+	chr1_1:57405864-57405883	None:intergenic	40.0%
	AAGCCAAGGAAAACCTGAAA+AGG	-	chr1_1:57405954-57405973	Msa0030900:CDS	40.0%
!!!	TGTCTTGTTTCAGCCTTTTC+AGG	+	chr1_1:57405970-57405989	None:intergenic	40.0%
	AGACAATCATGAGAAGAAGC+TGG	-	chr1_1:57405985-57406004	Msa0030900:CDS	40.0%
	GCAGAAGATTACTGAAGCCA+AGG	-	chr1_1:57405940-57405959	Msa0030900:CDS	45.0%
!!!	CAGCCTTTTCAGGTTTTCCT+TGG	+	chr1_1:57405960-57405979	None:intergenic	45.0%
	CAAGGAAAGCTGCCTTCATG+CGG	-	chr1_1:57405717-57405736	Msa0030900:CDS	50.0%
	TGCCTTCATGCGGAGAAAGA+AGG	-	chr1_1:57405727-57405746	Msa0030900:CDS	50.0%
	AGCCTTCTTTCTCCGCATGA+AGG	+	chr1_1:57405732-57405751	None:intergenic	50.0%
!	ATCTGGCCACACCTCTGTTT+TGG	+	chr1_1:57405831-57405850	None:intergenic	50.0%
	TGTTTGGCACCCTCTAGATC+TGG	+	chr1_1:57405848-57405867	None:intergenic	50.0%
!!	GATCTAGAGGGTGCCAAACA+AGG	-	chr1_1:57405848-57405867	Msa0030900:CDS	50.0%
!	AGAGGTGTGGCCAGATCTAG+AGG	-	chr1_1:57405835-57405854	Msa0030900:CDS	55.0%
	GAGGTGTGGCCAGATCTAGA+GGG	-	chr1_1:57405836-57405855	Msa0030900:CDS	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr1_1	gene	57405671	57406078	57405671	ID=Msa0030900;Name=Msa0030900
chr1_1	mRNA	57405671	57406078	57405671	ID=Msa0030900-mRNA-1;Parent=Msa0030900;Name=Msa0030900-mRNA-1;_AED=0.34;_eAED=0.34;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|135
chr1_1	exon	57405671	57406078	57405671	ID=Msa0030900-mRNA-1:exon:17383;Parent=Msa0030900-mRNA-1
chr1_1	CDS	57405671	57406078	57405671	ID=Msa0030900-mRNA-1:cds;Parent=Msa0030900-mRNA-1

Gene Sequence

>Msa0030900

ATGGCTAGGAGTAGGGTGAAACTTGCCTTTATCTCCAAATATTTAGCAAGGAAAGCTGCCTTCATGCGGAGAAAGAAGGCTCTCTTTGAGAAGGTGAGAGAACTCACTATTCTTTGTGGTATTTCAGCTTTTGTTGTGATTTCCAATCCTTTTAATTCCAAAACAGAGGTGTGGCCAGATCTAGAGGGTGCCAAACAAGGTCTTAAGAGCTACCAAAATTCGTCTATGATAGCTGAGACAAATGATATGAACGAAGAAAGTCTTCTTTTGCAGAAGATTACTGAAGCCAAGGAAAACCTGAAAAGGCTGAAACAAGACAATCATGAGAAGAAGCTGGACCTTCTTATGATTCTTGAACTTAAGAAGGTAATTGATGACAAGGTTGCTGCACTCAATTTATCAAATTGA

Protein sequence

>Msa0030900

MARSRVKLAFISKYLARKAAFMRRKKALFEKVRELTILCGISAFVVISNPFNSKTEVWPDLEGAKQGLKSYQNSSMIAETNDMNEESLLLQKITEAKENLKRLKQDNHEKKLDLLMILELKKVIDDKVAALNLSN*