AlfalfaGEDB | Msa0523830

M. sativa cultivar zhongmu-4 / Msa0523830

KEGG: -
GO: -
PFAM: PF00249.34

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0523830	XP_024633411.1	100.000	81	0	0	1	81	1	81	1.75e-52	169

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0523830	sp\|Q1A173\|RADL6_ARATH	67.500	80	22	1	1	80	1	76	4.92e-34	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
Msa0523830	G7J732	100.000	81	0	0	1	81	1	81	8.38e-53	169

TFs/TRs:

Gene ID	Type	Classification
Msa0523830	TF	MYB-related

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0386790	Msa0523830	0.939501	1.144108e-99	-8.615850e-47
Msa0523830	Msa0661840	0.951270	2.909994e-109	-8.615850e-47
Msa0523830	Msa1397550	0.801684	8.016273e-49	-8.615850e-47
Msa0523830	Msa1418060	0.937906	1.615482e-98	-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
Msa0523830	MtrunA17_Chr3g0144631	100.000	81	0	0	1	81	1	81	1.61e-56	169
Msa0523830	MtrunA17_Chr1g0155181	71.014	69	20	0	14	82	5	73	1.80e-34	113
Msa0523830	MtrunA17_Chr3g0141601	69.565	69	21	0	14	82	5	73	7.05e-32	107
Msa0523830	MtrunA17_Chr7g0255841	72.308	65	18	0	19	83	15	79	1.70e-30	103
Msa0523830	MtrunA17_Chr3g0081631	62.963	81	23	2	1	80	1	75	6.13e-29	99.8
Msa0523830	MtrunA17_Chr8g0373131	62.687	67	24	1	16	82	5	70	2.39e-27	95.1
Msa0523830	MtrunA17_Chr8g0373111	62.687	67	24	1	16	82	5	70	2.43e-27	95.1
Msa0523830	MtrunA17_Chr8g0373121	62.687	67	24	1	16	82	5	70	2.43e-27	95.1
Msa0523830	MtrunA17_Chr5g0404101	60.938	64	25	0	16	79	19	82	7.98e-26	92.0
Msa0523830	MtrunA17_Chr6g0449111	60.000	65	26	0	14	78	8	72	1.71e-25	90.5
Msa0523830	MtrunA17_Chr5g0404301	68.852	61	18	1	16	76	4	63	2.05e-25	89.7
Msa0523830	MtrunA17_Chr8g0373101	63.492	63	22	1	14	76	3	64	3.83e-25	89.4
Msa0523830	MtrunA17_Chr3g0141641	52.239	67	32	0	16	82	3	69	8.41e-22	81.6
Msa0523830	MtrunA17_Chr8g0364741	45.122	82	39	1	16	91	10	91	2.68e-21	81.3
Msa0523830	MtrunA17_Chr5g0429521	53.623	69	32	0	16	84	29	97	6.49e-21	84.3
Msa0523830	MtrunA17_Chr8g0365011	52.239	67	32	0	14	80	6	72	2.33e-20	82.4
Msa0523830	MtrunA17_Chr3g0104071	56.522	69	30	0	16	84	43	111	1.56e-19	80.5
Msa0523830	MtrunA17_Chr7g0241761	50.000	70	35	0	14	83	33	102	2.66e-18	77.0
Msa0523830	MtrunA17_Chr5g0436501	50.000	68	34	0	16	83	27	94	4.44e-18	76.3
Msa0523830	MtrunA17_Chr1g0162081	45.455	77	42	0	14	90	10	86	8.36e-18	75.9
Msa0523830	MtrunA17_Chr7g0270711	50.000	80	33	2	16	88	11	90	1.69e-16	68.2
Msa0523830	MtrunA17_Chr1g0194071	59.649	57	22	1	16	71	11	67	7.93e-16	66.6
Msa0523830	MtrunA17_Chr1g0210471	47.619	63	33	0	16	78	24	86	1.14e-15	69.3
Msa0523830	MtrunA17_Chr4g0062741	40.000	70	39	1	12	78	4	73	2.70e-13	63.5

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0523830	AT1G75250.1	67.500	80	22	1	1	80	1	76	3.36e-35	117
Msa0523830	AT1G75250.2	67.500	80	22	1	1	80	1	76	5.01e-35	115
Msa0523830	AT4G39250.1	69.697	66	20	0	16	81	14	79	1.46e-33	112
Msa0523830	AT2G21650.1	65.672	67	23	0	16	82	14	80	2.14e-30	103
Msa0523830	AT1G19510.1	71.429	63	18	0	19	81	15	77	1.68e-29	101
Msa0523830	AT2G18328.1	69.841	63	19	0	19	81	14	76	9.69e-29	99.0
Msa0523830	AT4G36570.1	77.273	44	10	0	16	59	12	55	3.13e-21	79.3
Msa0523830	AT5G05790.2	52.941	68	32	0	14	81	29	96	6.05e-18	76.3
Msa0523830	AT5G05790.1	52.941	68	32	0	14	81	29	96	6.05e-18	76.3
Msa0523830	AT2G38090.1	53.846	65	30	0	16	80	29	93	1.46e-17	75.5
Msa0523830	AT5G58900.1	49.231	65	33	0	14	78	32	96	2.53e-17	74.7
Msa0523830	AT3G11280.2	47.826	69	36	0	16	84	33	101	4.83e-17	73.6
Msa0523830	AT3G11280.1	47.826	69	36	0	16	84	33	101	4.83e-17	73.6
Msa0523830	AT5G08520.1	49.254	67	34	0	14	80	10	76	3.80e-16	71.6
Msa0523830	AT5G04760.1	41.791	67	38	1	12	78	2	67	3.23e-13	62.8
Msa0523830	AT1G49010.1	42.647	68	36	1	14	78	6	73	1.58e-12	61.6
Msa0523830	AT5G01200.1	43.284	67	37	1	13	78	27	93	3.84e-12	60.5
Msa0523830	AT5G23650.1	39.189	74	45	0	5	78	2	75	3.52e-11	58.2

Find 23 sgRNAs with CRISPR-Local

Find 31 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
CTTCACGTGGATTTGTAATT+TGG	0.099924	3_4:-77293993	None:intergenic
ACAAGCCTTGTGATTCAATT+TGG	0.187124	3_4:+77293793	Msa0523830:CDS
TCAAAATTACAAAATCTGAT+AGG	0.347322	3_4:-77294267	None:intergenic
GTGGATTTGTAATTTGGAAT+AGG	0.364725	3_4:-77293987	None:intergenic
CTTATATAGATGCTTGCCTC+AGG	0.419615	3_4:+77294176	Msa0523830:intron
AGCACTTGCAAAATTTGATA+AGG	0.422428	3_4:+77293845	Msa0523830:CDS
CTGAAGTATCTAAAGTTGAA+TGG	0.424280	3_4:+77294202	Msa0523830:CDS
CAAAATTACAAAATCTGATA+GGG	0.464530	3_4:-77294266	None:intergenic
CACAAGGCTTGTGTTTGCTA+AGG	0.474591	3_4:-77293782	None:intergenic
GATCTCAAACACATTGAGTC+TGG	0.498892	3_4:+77293957	Msa0523830:CDS
AGACAGATGGAGGAACAAAC+AGG	0.503947	3_4:-77294243	None:intergenic
GAGACACTATGAGCTACTCT+TGG	0.504426	3_4:+77293932	Msa0523830:CDS
ACAAGGCTTGTGTTTGCTAA+GGG	0.544579	3_4:-77293781	None:intergenic
ACACTATGAGCTACTCTTGG+AGG	0.567606	3_4:+77293935	Msa0523830:CDS
GTGTTTGCTAAGGGAACTTG+AGG	0.586339	3_4:-77293772	None:intergenic
AATGTAGCAAAAGCAGTTGG+TGG	0.597235	3_4:+77293888	Msa0523830:CDS
CAAAATGTAGCAAAAGCAGT+TGG	0.599555	3_4:+77293885	Msa0523830:CDS
GGAGTCCAAATTGAATCACA+AGG	0.603739	3_4:-77293798	None:intergenic
ATAAGGATACCCCTGACCGT+TGG	0.605106	3_4:+77293862	Msa0523830:CDS
AAATCTGATAGGGAGACAGA+TGG	0.611076	3_4:-77294256	None:intergenic
AGTTGGTGGTAAATCAGTTG+AGG	0.635333	3_4:+77293902	Msa0523830:CDS
TTAGATACTTCAGAAGCCTG+AGG	0.659984	3_4:-77294192	None:intergenic
TCTGATAGGGAGACAGATGG+AGG	0.662436	3_4:-77294253	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	AAAGAAAAAAAAATATCATA+AGG	+	chr3_4:77294041-77294060	Msa0523830:intron	10.0%
!!!	TCAAACAACTTGTTTTGTTT+TGG	-	chr3_4:77293822-77293841	None:intergenic	25.0%
!	GAAACATGAACAAAAAATAG+TGG	-	chr3_4:77294112-77294131	None:intergenic	25.0%
	AGCACTTGCAAAATTTGATA+AGG	+	chr3_4:77293845-77293864	Msa0523830:CDS	30.0%
!	GTGGATTTGTAATTTGGAAT+AGG	-	chr3_4:77293990-77294009	None:intergenic	30.0%
	ATGAACAAAAAATAGTGGCA+TGG	-	chr3_4:77294107-77294126	None:intergenic	30.0%
!	CTGAAGTATCTAAAGTTGAA+TGG	+	chr3_4:77294202-77294221	Msa0523830:CDS	30.0%
!	ACAAGCCTTGTGATTCAATT+TGG	+	chr3_4:77293793-77293812	Msa0523830:CDS	35.0%
!	CTTTTGCTACATTTTGCCAA+CGG	-	chr3_4:77293881-77293900	None:intergenic	35.0%
	CAAAATGTAGCAAAAGCAGT+TGG	+	chr3_4:77293885-77293904	Msa0523830:CDS	35.0%
	CTTCACGTGGATTTGTAATT+TGG	-	chr3_4:77293996-77294015	None:intergenic	35.0%
	TAGTGGCATGGTACATAATT+TGG	-	chr3_4:77294095-77294114	None:intergenic	35.0%
!	ACAAGGCTTGTGTTTGCTAA+GGG	-	chr3_4:77293784-77293803	None:intergenic	40.0%
	GGAGTCCAAATTGAATCACA+AGG	-	chr3_4:77293801-77293820	None:intergenic	40.0%
	AATGTAGCAAAAGCAGTTGG+TGG	+	chr3_4:77293888-77293907	Msa0523830:CDS	40.0%
!!	AGTTGGTGGTAAATCAGTTG+AGG	+	chr3_4:77293902-77293921	Msa0523830:CDS	40.0%
	GATCTCAAACACATTGAGTC+TGG	+	chr3_4:77293957-77293976	Msa0523830:CDS	40.0%
!!	CTAATTTGCTACACTTCACG+TGG	-	chr3_4:77294009-77294028	None:intergenic	40.0%
	CTTATATAGATGCTTGCCTC+AGG	+	chr3_4:77294176-77294195	Msa0523830:intron	40.0%
	TTAGATACTTCAGAAGCCTG+AGG	-	chr3_4:77294195-77294214	None:intergenic	40.0%
	AAATCTGATAGGGAGACAGA+TGG	-	chr3_4:77294259-77294278	None:intergenic	40.0%
!	GTGTTTGCTAAGGGAACTTG+AGG	-	chr3_4:77293775-77293794	None:intergenic	45.0%
!	CACAAGGCTTGTGTTTGCTA+AGG	-	chr3_4:77293785-77293804	None:intergenic	45.0%
!	TACATTTTGCCAACGGTCAG+GGG	-	chr3_4:77293874-77293893	None:intergenic	45.0%
!	CTACATTTTGCCAACGGTCA+GGG	-	chr3_4:77293875-77293894	None:intergenic	45.0%
	GAGACACTATGAGCTACTCT+TGG	+	chr3_4:77293932-77293951	Msa0523830:CDS	45.0%
	ACACTATGAGCTACTCTTGG+AGG	+	chr3_4:77293935-77293954	Msa0523830:CDS	45.0%
	AGACAGATGGAGGAACAAAC+AGG	-	chr3_4:77294246-77294265	None:intergenic	45.0%
	ATAAGGATACCCCTGACCGT+TGG	+	chr3_4:77293862-77293881	Msa0523830:CDS	50.0%
!	GCTACATTTTGCCAACGGTC+AGG	-	chr3_4:77293876-77293895	None:intergenic	50.0%
	TCTGATAGGGAGACAGATGG+AGG	-	chr3_4:77294256-77294275	None:intergenic	50.0%

Chromosome	Type	Strat	End	Strand	Name
chr3_4	gene	77293768	77294280	77293768	ID=Msa0523830;Name=Msa0523830
chr3_4	mRNA	77293768	77294280	77293768	ID=Msa0523830-mRNA-1;Parent=Msa0523830;Name=Msa0523830-mRNA-1;_AED=0.16;_eAED=0.16;_QI=0\|0\|0.5\|1\|0\|0.5\|2\|50\|95
chr3_4	exon	77293768	77294009	77293768	ID=Msa0523830-mRNA-1:exon:22620;Parent=Msa0523830-mRNA-1
chr3_4	exon	77294185	77294280	77294185	ID=Msa0523830-mRNA-1:exon:22621;Parent=Msa0523830-mRNA-1
chr3_4	CDS	77293768	77294009	77293768	ID=Msa0523830-mRNA-1:cds;Parent=Msa0523830-mRNA-1
chr3_4	CDS	77294185	77294230	77294185	ID=Msa0523830-mRNA-1:cds;Parent=Msa0523830-mRNA-1
chr3_4	three_prime_UTR	77294231	77294280	77294231	ID=Msa0523830-mRNA-1:three_prime_utr;Parent=Msa0523830-mRNA-1

Gene Sequence	>Msa0523830 ATGGCCTCAAGTTCCCTTAGCAAACACAAGCCTTGTGATTCAATTTGGACTCCAAAACAAAACAAGTTGTTTGAAAAAGCACTTGCAAAATTTGATAAGGATACCCCTGACCGTTGGCAAAATGTAGCAAAAGCAGTTGGTGGTAAATCAGTTGAGGAAGTTAAGAGACACTATGAGCTACTCTTGGAGGATCTCAAACACATTGAGTCTGGTCATGTTCCTATTCCAAATTACAAATCCACATGCTTGCCTCAGGCTTCTGAAGTATCTAAAGTTGAATGGATTTGA
Protein sequence	>Msa0523830 MASSSLSKHKPCDSIWTPKQNKLFEKALAKFDKDTPDRWQNVAKAVGGKSVEEVKRHYELLLEDLKHIESGHVPIPNYKSTCLPQASEVSKVEWI*