AlfalfaGEDB | Msa0537820

M. sativa cultivar zhongmu-4 / Msa0537820

KEGG: K09260
GO: GO:0000003 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0007275 GO:0008150 GO:0009790 GO:0009791 GO:0009793 GO:0009889 GO:0010154 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0042995 GO:0043076 GO:0043078 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044464 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0080090 GO:0090406 GO:0097159 GO:0120025 GO:0140110 GO:1901363 GO:1903506 GO:2000112 GO:2001141
PFAM: -

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0537820	XP_039688539.1	75.974	154	14	2	1	133	1	152	2.33e-72	225

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0537820	sp\|Q9FJK3\|AGL80_ARATH	42.581	155	67	3	1	134	1	154	7.70e-31	115

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0537820	A0A396I1B6	75.974	154	14	2	1	133	1	152	1.11e-72	225

TFs/TRs:

Gene ID	Type	Classification
Msa0537820	TF	MADS-M-type

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR

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
Msa0537820	MtrunA17_Chr4g0013041	75.974	154	14	2	1	133	1	152	2.14e-76	225
Msa0537820	MtrunA17_Chr4g0014321	66.883	154	30	1	1	133	1	154	1.21e-65	199
Msa0537820	MtrunA17_Chr8g0351751	58.861	158	42	2	1	135	1	158	6.71e-53	167
Msa0537820	MtrunA17_Chr4g0014031	53.846	156	51	2	1	135	1	156	8.47e-50	158
Msa0537820	MtrunA17_Chr3g0107381	48.387	155	58	2	1	134	1	154	3.27e-44	144
Msa0537820	MtrunA17_Chr4g0014131	50.000	156	57	2	1	135	1	156	1.25e-43	143
Msa0537820	MtrunA17_Chr3g0110131	54.194	155	49	2	1	134	1	154	1.34e-43	143
Msa0537820	MtrunA17_Chr4g0014121	53.205	156	52	1	1	135	29	184	1.36e-40	134
Msa0537820	MtrunA17_Chr2g0296831	57.851	121	30	1	1	100	1	121	5.82e-35	117
Msa0537820	MtrunA17_Chr3g0107331	40.523	153	65	3	3	132	2	151	1.90e-31	109
Msa0537820	MtrunA17_Chr3g0107361	37.500	152	73	2	3	133	2	152	1.70e-29	104
Msa0537820	MtrunA17_Chr3g0107351	37.500	152	73	2	3	133	2	152	1.32e-28	102
Msa0537820	MtrunA17_Chr5g0420351	36.538	156	76	3	1	135	1	154	1.04e-26	97.4
Msa0537820	MtrunA17_Chr3g0107341	36.184	152	75	2	3	133	2	152	1.16e-26	97.8
Msa0537820	MtrunA17_Chr3g0107461	31.410	156	86	1	1	135	1	156	4.96e-24	90.9
Msa0537820	MtrunA17_Chr7g0218151	35.897	156	77	4	1	135	1	154	1.02e-22	87.4
Msa0537820	MtrunA17_Chr5g0432691	33.766	154	80	3	1	133	1	153	2.29e-21	84.0
Msa0537820	MtrunA17_Chr1g0197261	32.258	155	82	3	1	134	1	153	3.62e-21	83.6
Msa0537820	MtrunA17_Chr4g0012761	33.766	154	79	4	1	133	1	152	7.40e-20	80.1
Msa0537820	MtrunA17_Chr2g0283941	31.613	155	85	1	1	134	1	155	8.08e-20	82.0
Msa0537820	MtrunA17_Chr1g0197321	29.032	155	88	2	1	134	1	154	1.02e-19	79.7
Msa0537820	MtrunA17_Chr1g0188681	31.169	154	83	3	1	133	1	152	1.11e-19	79.7
Msa0537820	MtrunA17_Chr1g0197461	34.014	147	74	3	3	128	2	146	2.02e-19	79.0
Msa0537820	MtrunA17_Chr1g0193311	33.333	156	81	4	1	135	1	154	3.94e-18	75.5
Msa0537820	MtrunA17_Chr4g0031421	35.294	102	66	0	32	133	25	126	8.38e-17	71.6
Msa0537820	MtrunA17_Chr2g0296851	51.220	82	40	0	53	134	1	82	2.03e-16	69.7
Msa0537820	MtrunA17_Chr3g0105791	32.353	102	69	0	32	133	25	126	2.80e-15	67.8
Msa0537820	MtrunA17_Chr1g0188661	30.128	156	86	4	1	135	1	154	6.27e-15	67.4
Msa0537820	MtrunA17_Chr2g0296861	30.968	155	85	2	1	134	1	154	2.52e-14	65.9
Msa0537820	MtrunA17_Chr3g0106501	28.155	103	74	0	33	135	26	128	7.75e-13	61.6
Msa0537820	MtrunA17_Chr1g0188651	31.169	154	81	4	1	133	1	150	1.95e-12	60.8
Msa0537820	MtrunA17_Chr3g0106421	33.333	102	68	0	33	134	26	127	2.13e-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
Msa0537820	AT5G48670.1	42.581	155	67	3	1	134	1	154	7.83e-32	115
Msa0537820	AT5G26630.1	38.065	155	74	4	1	134	1	154	8.87e-27	99.8
Msa0537820	AT1G65300.1	37.255	153	74	2	3	134	2	153	1.20e-24	95.5
Msa0537820	AT1G65330.1	36.601	153	75	3	3	134	2	153	5.36e-21	85.9
Msa0537820	AT5G26650.1	36.184	152	75	2	4	134	2	152	1.11e-20	86.3
Msa0537820	AT3G05860.2	34.667	150	76	2	1	129	1	149	2.57e-20	82.8
Msa0537820	AT5G27960.1	35.294	153	77	2	4	135	2	153	2.99e-20	84.7
Msa0537820	AT3G05860.3	34.667	150	76	2	1	129	1	149	1.28e-19	82.0
Msa0537820	AT3G05860.1	34.667	150	76	2	1	129	1	149	1.87e-19	81.6
Msa0537820	AT5G27810.1	48.485	66	34	0	35	100	28	93	5.87e-16	69.3
Msa0537820	AT1G31630.1	29.801	151	85	3	3	133	2	151	6.08e-16	73.2
Msa0537820	AT1G31640.1	28.667	150	86	2	3	132	2	150	1.37e-15	72.4
Msa0537820	AT5G26580.1	33.793	145	80	4	1	134	1	140	9.52e-15	69.7
Msa0537820	AT2G28700.1	29.605	152	81	3	1	129	1	149	2.43e-13	65.9
Msa0537820	AT5G06500.1	29.560	159	79	3	1	133	1	152	8.14e-12	60.8

Find 29 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
CACAACAATGACTCGGAAAA+AGG	0.208892	4_1:-16762736	None:intergenic
TTGTGTCTTCAGTTTCTCTT+TGG	0.304045	4_1:+16762440	None:intergenic
GTGGGAGAAGAGCCAGAAAA+TGG	0.396457	4_1:-16762502	Msa0537820:CDS
TTTGTGTCATATAAGTCTCT+TGG	0.418787	4_1:+16762475	None:intergenic
ATGAGCCTCAACCGGAGATC+TGG	0.422183	4_1:-16762578	Msa0537820:intron
GGAGATCTGGCCATCACCAC+GGG	0.435650	4_1:-16762565	Msa0537820:CDS
GAAGGACATTAGTAGAAGGT+TGG	0.444167	4_1:-16762289	Msa0537820:CDS
AATTGAAGGACATTAGTAGA+AGG	0.455635	4_1:-16762293	Msa0537820:CDS
CGTGGTGATGGCCAGATCTC+CGG	0.460734	4_1:+16762567	None:intergenic
TTGATTCAAAACATCTTTGT+TGG	0.470119	4_1:-16762329	Msa0537820:CDS
GCAGAAGGGTCTATTGAAGA+AGG	0.498190	4_1:-16762658	Msa0537820:intron
TGGACCATATGAGCCTCAAC+CGG	0.517498	4_1:-16762586	Msa0537820:intron
GATGGCCAGATCTCCGGTTG+AGG	0.525272	4_1:+16762573	None:intergenic
ATGTTTCAATGTCTTTGTGA+AGG	0.533884	4_1:-16762381	Msa0537820:CDS
AGTGCAGAATAATATCTCCT+TGG	0.537754	4_1:-16762352	Msa0537820:CDS
GTATGGACTCCCCGTGGTGA+TGG	0.556504	4_1:+16762555	None:intergenic
AACCTACAATAAAAGGCAGA+AGG	0.564320	4_1:-16762673	Msa0537820:CDS
ATTCAGAACAATGTCTGAGT+GGG	0.569100	4_1:-16762520	Msa0537820:CDS
GACATTAGTAGAAGGTTGGA+AGG	0.584170	4_1:-16762285	Msa0537820:CDS
TATGACACAAAGGGTTCTGA+AGG	0.587149	4_1:-16762463	Msa0537820:CDS
CGGAGATCTGGCCATCACCA+CGG	0.587483	4_1:-16762566	Msa0537820:CDS
AGAGACTTATATGACACAAA+GGG	0.592057	4_1:-16762472	Msa0537820:CDS
AAGAGACTTATATGACACAA+AGG	0.616813	4_1:-16762473	Msa0537820:CDS
ACCTACAATAAAAGGCAGAA+GGG	0.621576	4_1:-16762672	Msa0537820:CDS
AATTCAGAACAATGTCTGAG+TGG	0.644068	4_1:-16762521	Msa0537820:CDS
TGTCAACTATGAGAAAGAGA+TGG	0.660566	4_1:-16762412	Msa0537820:CDS
AAGAGAAACTGAAGACACAA+AGG	0.673063	4_1:-16762437	Msa0537820:CDS
GAGATCTGGCCATCACCACG+GGG	0.753289	4_1:-16762564	Msa0537820:CDS
AGCACTGTATGGACTCCCCG+TGG	0.777500	4_1:+16762549	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!	GAAAAACAACCTACAATAAA+AGG	-	chr4_1:16762327-16762346	Msa0537820:CDS	25.0%
!	TTGATTCAAAACATCTTTGT+TGG	-	chr4_1:16762678-16762697	Msa0537820:CDS	25.0%
!!	TACTAATGTCCTTCAATTTT+TGG	+	chr4_1:16762712-16762731	None:intergenic	25.0%
	TTTGTGTCATATAAGTCTCT+TGG	+	chr4_1:16762535-16762554	None:intergenic	30.0%
	AAGAGACTTATATGACACAA+AGG	-	chr4_1:16762534-16762553	Msa0537820:CDS	30.0%
	AGAGACTTATATGACACAAA+GGG	-	chr4_1:16762535-16762554	Msa0537820:CDS	30.0%
	ATGTTTCAATGTCTTTGTGA+AGG	-	chr4_1:16762626-16762645	Msa0537820:intron	30.0%
!!	AAGATGTTTTGAATCAACCA+AGG	+	chr4_1:16762675-16762694	None:intergenic	30.0%
	GTTGATTGACCAAAAATTGA+AGG	-	chr4_1:16762700-16762719	Msa0537820:CDS	30.0%
	AATTGAAGGACATTAGTAGA+AGG	-	chr4_1:16762714-16762733	Msa0537820:CDS	30.0%
	AACCTACAATAAAAGGCAGA+AGG	-	chr4_1:16762334-16762353	Msa0537820:CDS	35.0%
	ACCTACAATAAAAGGCAGAA+GGG	-	chr4_1:16762335-16762354	Msa0537820:CDS	35.0%
	TATGAACTAAGCACTCTATG+TGG	-	chr4_1:16762374-16762393	Msa0537820:CDS	35.0%
!!!	TGAATTTTGAGAGCACTGTA+TGG	+	chr4_1:16762472-16762491	None:intergenic	35.0%
	AATTCAGAACAATGTCTGAG+TGG	-	chr4_1:16762486-16762505	Msa0537820:CDS	35.0%
	ATTCAGAACAATGTCTGAGT+GGG	-	chr4_1:16762487-16762506	Msa0537820:CDS	35.0%
	TTGTGTCTTCAGTTTCTCTT+TGG	+	chr4_1:16762570-16762589	None:intergenic	35.0%
	AAGAGAAACTGAAGACACAA+AGG	-	chr4_1:16762570-16762589	Msa0537820:CDS	35.0%
	TGTCAACTATGAGAAAGAGA+TGG	-	chr4_1:16762595-16762614	Msa0537820:intron	35.0%
	AGTGCAGAATAATATCTCCT+TGG	-	chr4_1:16762655-16762674	Msa0537820:intron	35.0%
!	ACCCTTCTGCCTTTTATTGT+AGG	+	chr4_1:16762339-16762358	None:intergenic	40.0%
	CTCATATGGTCCATAGACAA+TGG	+	chr4_1:16762414-16762433	None:intergenic	40.0%
!	TCTCTTGGTTCACCATTTTC+TGG	+	chr4_1:16762520-16762539	None:intergenic	40.0%
!	TATGACACAAAGGGTTCTGA+AGG	-	chr4_1:16762544-16762563	Msa0537820:CDS	40.0%
	GAAGGACATTAGTAGAAGGT+TGG	-	chr4_1:16762718-16762737	Msa0537820:CDS	40.0%
	GACATTAGTAGAAGGTTGGA+AGG	-	chr4_1:16762722-16762741	Msa0537820:CDS	40.0%
	GCAGAAGGGTCTATTGAAGA+AGG	-	chr4_1:16762349-16762368	Msa0537820:CDS	45.0%
	GAAGCTTGAGCCATTGTCTA+TGG	-	chr4_1:16762401-16762420	Msa0537820:CDS	45.0%
	TGGACCATATGAGCCTCAAC+CGG	-	chr4_1:16762421-16762440	Msa0537820:CDS	50.0%
	ATCTCCGGTTGAGGCTCATA+TGG	+	chr4_1:16762428-16762447	None:intergenic	50.0%
	GTGGGAGAAGAGCCAGAAAA+TGG	-	chr4_1:16762505-16762524	Msa0537820:CDS	50.0%
	ATGAGCCTCAACCGGAGATC+TGG	-	chr4_1:16762429-16762448	Msa0537820:CDS	55.0%
	GATGGCCAGATCTCCGGTTG+AGG	+	chr4_1:16762437-16762456	None:intergenic	60.0%
!!	CGTGGTGATGGCCAGATCTC+CGG	+	chr4_1:16762443-16762462	None:intergenic	60.0%
	CGGAGATCTGGCCATCACCA+CGG	-	chr4_1:16762441-16762460	Msa0537820:CDS	60.0%
	GGAGATCTGGCCATCACCAC+GGG	-	chr4_1:16762442-16762461	Msa0537820:CDS	60.0%
	GAGATCTGGCCATCACCACG+GGG	-	chr4_1:16762443-16762462	Msa0537820:CDS	60.0%
	GTATGGACTCCCCGTGGTGA+TGG	+	chr4_1:16762455-16762474	None:intergenic	60.0%
	AGCACTGTATGGACTCCCCG+TGG	+	chr4_1:16762461-16762480	None:intergenic	60.0%

Chromosome	Type	Strat	End	Strand	Name
chr4_1	gene	16762278	16762751	16762278	ID=Msa0537820;Name=Msa0537820
chr4_1	mRNA	16762278	16762751	16762278	ID=Msa0537820-mRNA-1;Parent=Msa0537820;Name=Msa0537820-mRNA-1;_AED=0.22;_eAED=0.22;_QI=0\|0\|0\|1\|0\|0\|2\|0\|136
chr4_1	exon	16762659	16762751	16762659	ID=Msa0537820-mRNA-1:exon:4975;Parent=Msa0537820-mRNA-1
chr4_1	exon	16762278	16762595	16762278	ID=Msa0537820-mRNA-1:exon:4974;Parent=Msa0537820-mRNA-1
chr4_1	CDS	16762659	16762751	16762659	ID=Msa0537820-mRNA-1:cds;Parent=Msa0537820-mRNA-1
chr4_1	CDS	16762278	16762595	16762278	ID=Msa0537820-mRNA-1:cds;Parent=Msa0537820-mRNA-1

Gene Sequence

>Msa0537820

ATGACTCGGAAAAAGGTGAAACTTGCTTTCATTGTCAATGATGCTTCTAGAAAAACAACCTACAATAAAAGGCAGAAGGGTCTATTGAAGAAGCCTCAACCGGAGATCTGGCCATCACCACGGGGAGTCCATACAGTGCTCTCAAAATTCAGAACAATGTCTGAGTGGGAGAAGAGCCAGAAAATGGTGAACCAAGAGACTTATATGACACAAAGGGTTCTGAAGGCCAAAGAGAAACTGAAGACACAAAGGCATGTCAACTATGAGAAAGAGATGGTTATGCTCATGTTTCAATGTCTTTGTGAAGGCAAATTAGTGCAGAATAATATCTCCTTGGTTGATTCAAAACATCTTTGTTGGTTGATTGACCAAAAATTGAAGGACATTAGTAGAAGGTTGGAAGGTCAGTAA

Protein sequence

>Msa0537820

MTRKKVKLAFIVNDASRKTTYNKRQKGLLKKPQPEIWPSPRGVHTVLSKFRTMSEWEKSQKMVNQETYMTQRVLKAKEKLKTQRHVNYEKEMVMLMFQCLCEGKLVQNNISLVDSKHLCWLIDQKLKDISRRLEGQ*