AlfalfaGEDB | Msa1178720

M. sativa cultivar zhongmu-4 / Msa1178720

KEGG: K14007
GO: GO:0000003 GO:0006275 GO:0006996 GO:0007029 GO:0007030 GO:0007276 GO:0008150 GO:0008156 GO:0008361 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010256 GO:0010556 GO:0010558 GO:0010564 GO:0010605 GO:0010948 GO:0016043 GO:0019219 GO:0019222 GO:0019953 GO:0022414 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032501 GO:0032504 GO:0032535 GO:0032875 GO:0032876 GO:0044703 GO:0045786 GO:0045934 GO:0048232 GO:0048519 GO:0048523 GO:0048609 GO:0050789 GO:0050794 GO:0051052 GO:0051053 GO:0051171 GO:0051172 GO:0051704 GO:0051726 GO:0060255 GO:0065007 GO:0065008 GO:0071840 GO:0080090 GO:0080119 GO:0090066 GO:0090329 GO:2000104 GO:2000112 GO:2000113
PFAM: PF04811.18

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
Msa1178720	sp\|Q9SFU0\|SC24A_ARATH	78.261	69	15	0	1	69	620	688	2.15e-32	120

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1178720	G7KIB7	87.500	80	10	0	1	80	1	80	1.51e-43	144

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0627410	Msa1178720	0.924499	6.497020e-90	-8.615850e-47
Msa0636170	Msa1178720	0.812340	4.453225e-51	-8.615850e-47
Msa0661870	Msa1178720	0.808121	3.618316e-50	-8.615850e-47
Msa0678930	Msa1178720	0.820325	7.280224e-53	-8.615850e-47
Msa0691880	Msa1178720	0.805513	1.287105e-49	-8.615850e-47
Msa0722510	Msa1178720	0.805286	1.436273e-49	-8.615850e-47
Msa0726140	Msa1178720	0.806161	9.408378e-50	-8.615850e-47
Msa0733290	Msa1178720	0.809102	2.233287e-50	-8.615850e-47
Msa0741570	Msa1178720	0.819077	1.403587e-52	-8.615850e-47
Msa0745060	Msa1178720	0.809154	2.176865e-50	-8.615850e-47
Msa0822650	Msa1178720	0.812974	3.235417e-51	-8.615850e-47
Msa0825860	Msa1178720	0.819162	1.342405e-52	-8.615850e-47
Msa0145750	Msa1178720	0.811420	7.064207e-51	-8.615850e-47
Msa0153910	Msa1178720	0.828988	6.617752e-55	-8.615850e-47
Msa0366580	Msa1178720	0.814119	1.812384e-51	-8.615850e-47
Msa0406120	Msa1178720	0.830558	2.745295e-55	-8.615850e-47
Msa0431500	Msa1178720	0.835965	1.234185e-56	-8.615850e-47
Msa0456200	Msa1178720	0.910819	1.222561e-82	-8.615850e-47
Msa0482620	Msa1178720	0.821076	4.894045e-53	-8.615850e-47
Msa1024240	Msa1178720	0.825273	5.127987e-54	-8.615850e-47
Msa1025370	Msa1178720	0.809120	2.213630e-50	-8.615850e-47
Msa1100980	Msa1178720	0.821720	3.474864e-53	-8.615850e-47
Msa0324150	Msa1178720	0.803059	4.176546e-49	-8.615850e-47
Msa0326200	Msa1178720	0.915362	6.445941e-85	-8.615850e-47
Msa0353190	Msa1178720	0.915121	8.576082e-85	-8.615850e-47
Msa0353690	Msa1178720	0.895496	9.073447e-76	-8.615850e-47
Msa0360900	Msa1178720	0.815076	1.112612e-51	-8.615850e-47
Msa0363300	Msa1178720	0.817479	3.227463e-52	-8.615850e-47
Msa1135740	Msa1178720	0.817180	3.769320e-52	-8.615850e-47
Msa1136090	Msa1178720	0.852408	4.707091e-61	-8.615850e-47
Msa1160670	Msa1178720	0.812137	4.932404e-51	-8.615850e-47
Msa1178720	Msa1187940	0.845365	4.250371e-59	-8.615850e-47
Msa1178720	Msa1187950	0.814916	1.207372e-51	-8.615850e-47
Msa1178720	Msa1260100	0.822564	2.214571e-53	-8.615850e-47
Msa1178720	Msa1270270	0.809229	2.097909e-50	-8.615850e-47
Msa1178720	Msa1283330	0.807082	6.013235e-50	-8.615850e-47
Msa1178720	Msa1285930	0.801525	8.641388e-49	-8.615850e-47
Msa1178720	Msa1297210	0.854670	1.054645e-61	-8.615850e-47
Msa1178720	Msa1397610	0.810703	1.010107e-50	-8.615850e-47
Msa1178720	Msa1415310	0.805139	1.541791e-49	-8.615850e-47
Msa1178720	Msa1438250	0.825071	5.723510e-54	-8.615850e-47
Msa0548060	Msa1178720	0.810285	1.243779e-50	-8.615850e-47
Msa0865320	Msa1178720	0.802563	5.287045e-49	-8.615850e-47
Msa0885280	Msa1178720	0.840857	6.751957e-58	-8.615850e-47
Msa0885290	Msa1178720	0.845562	3.759141e-59	-8.615850e-47
Msa0887990	Msa1178720	0.847429	1.162843e-59	-8.615850e-47
Msa0922720	Msa1178720	0.804618	1.980887e-49	-8.615850e-47
Msa0965750	Msa1178720	0.817175	3.778635e-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
Msa1178720	MtrunA17_Chr7g0271481	92.754	69	5	0	1	69	602	670	5.34e-40	139
Msa1178720	MtrunA17_Chr1g0210851	37.681	69	43	0	1	69	699	767	1.55e-11	58.2

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1178720	AT3G07100.1	78.261	69	15	0	1	69	620	688	2.18e-33	120

Find 17 sgRNAs with CRISPR-Local

Find 35 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TGCTCATAAAATGGATCTTC+AGG	0.293277	8_1:-11602491	None:intergenic
CATACACATTTACTGAGATT+TGG	0.310882	8_1:-11602538	None:intergenic
GCAGCCATCTGCTCATAAAA+TGG	0.311495	8_1:-11602500	None:intergenic
TCCTGTCTGTGTAGGAACTC+TGG	0.429146	8_1:+11602973	Msa1178720:intron
TCTCCCCATGAGTAGCTGAT+TGG	0.442822	8_1:-11603036	None:intergenic
TGAGTAGCTGATTGGAAAGC+TGG	0.469035	8_1:-11603028	None:intergenic
GAGAGACTGCATGGGAAGCA+TGG	0.524555	8_1:+11603092	Msa1178720:CDS
GCTTTCCAATCAGCTACTCA+TGG	0.528786	8_1:+11603031	Msa1178720:CDS
TACACTGACATAGCCTCCTT+AGG	0.536987	8_1:+11602575	Msa1178720:CDS
CTTTCCAATCAGCTACTCAT+GGG	0.542155	8_1:+11603032	Msa1178720:CDS
GGAAAATAAAACACCTAAGG+AGG	0.554451	8_1:-11602588	None:intergenic
ACCTCACAAGAGAGACTGCA+TGG	0.560035	8_1:+11603083	Msa1178720:CDS
ACTCTGGCAAAGTACACTGC+TGG	0.591069	8_1:+11602989	Msa1178720:CDS
CCCATGCAGTCTCTCTTGTG+AGG	0.598716	8_1:-11603084	None:intergenic
TTTGGGACAGATAAAGAACA+TGG	0.635621	8_1:+11602458	None:intergenic
TTTCCAATCAGCTACTCATG+GGG	0.686768	8_1:+11603033	Msa1178720:CDS
CCTCACAAGAGAGACTGCAT+GGG	0.693489	8_1:+11603084	Msa1178720:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	TAACAGGTTTAAAAATAGAA+TGG	-	chr8_1:11602639-11602658	None:intergenic	20.0%
!	ACGAAATACATAGAAATTGA+AGG	-	chr8_1:11602612-11602631	None:intergenic	25.0%
!	ATCAATTAATCAAGAGTAAC+AGG	-	chr8_1:11602655-11602674	None:intergenic	25.0%
	CATACACATTTACTGAGATT+TGG	-	chr8_1:11602541-11602560	None:intergenic	30.0%
	GAAGGAAAATAAAACACCTA+AGG	-	chr8_1:11602594-11602613	None:intergenic	30.0%
!	ATTTGATGATTCTTCAGTTG+TGG	+	chr8_1:11602677-11602696	Msa1178720:intron	30.0%
!	ACTTGATGACATGAGTTTAT+GGG	+	chr8_1:11602715-11602734	Msa1178720:intron	30.0%
	TAAACTGATACTCTAACTCA+TGG	+	chr8_1:11602758-11602777	Msa1178720:intron	30.0%
	AAATGCTGACAGAATTACAT+CGG	-	chr8_1:11602888-11602907	None:intergenic	30.0%
	TGCTCATAAAATGGATCTTC+AGG	-	chr8_1:11602494-11602513	None:intergenic	35.0%
!	AGATCCATTTTATGAGCAGA+TGG	+	chr8_1:11602496-11602515	Msa1178720:exon	35.0%
	GGAAAATAAAACACCTAAGG+AGG	-	chr8_1:11602591-11602610	None:intergenic	35.0%
!	GACTTGATGACATGAGTTTA+TGG	+	chr8_1:11602714-11602733	Msa1178720:intron	35.0%
	GGATCTATTTGACTATGAAC+TGG	+	chr8_1:11602779-11602798	Msa1178720:intron	35.0%
	AATGCTGACAGAATTACATC+GGG	-	chr8_1:11602887-11602906	None:intergenic	35.0%
	TGTAATTCTGTCAGCATTTG+CGG	+	chr8_1:11602889-11602908	Msa1178720:intron	35.0%
!!!	TGTTTTTTTCCTGTCTGTGT+AGG	+	chr8_1:11602965-11602984	Msa1178720:intron	35.0%
	CTTTCCAATCAGCTACTCAT+GGG	+	chr8_1:11603032-11603051	Msa1178720:CDS	40.0%
	TTTCCAATCAGCTACTCATG+GGG	+	chr8_1:11603033-11603052	Msa1178720:CDS	40.0%
	GCAGCCATCTGCTCATAAAA+TGG	-	chr8_1:11602503-11602522	None:intergenic	45.0%
	TACACTGACATAGCCTCCTT+AGG	+	chr8_1:11602575-11602594	Msa1178720:CDS	45.0%
	ACAGAATTACATCGGGACAC+GGG	-	chr8_1:11602880-11602899	None:intergenic	45.0%
	GACAGAATTACATCGGGACA+CGG	-	chr8_1:11602881-11602900	None:intergenic	45.0%
	CATCAGCACGCAAGACTATA+TGG	-	chr8_1:11602923-11602942	None:intergenic	45.0%
	TGAGTAGCTGATTGGAAAGC+TGG	-	chr8_1:11603031-11603050	None:intergenic	45.0%
	GCTTTCCAATCAGCTACTCA+TGG	+	chr8_1:11603031-11603050	Msa1178720:CDS	45.0%
	CAGAATTACATCGGGACACG+GGG	-	chr8_1:11602879-11602898	None:intergenic	50.0%
	TCCTGTCTGTGTAGGAACTC+TGG	+	chr8_1:11602973-11602992	Msa1178720:intron	50.0%
	ACTCTGGCAAAGTACACTGC+TGG	+	chr8_1:11602989-11603008	Msa1178720:CDS	50.0%
	TCTCCCCATGAGTAGCTGAT+TGG	-	chr8_1:11603039-11603058	None:intergenic	50.0%
	ACCTCACAAGAGAGACTGCA+TGG	+	chr8_1:11603083-11603102	Msa1178720:CDS	50.0%
	CCTCACAAGAGAGACTGCAT+GGG	+	chr8_1:11603084-11603103	Msa1178720:CDS	50.0%
	GCCAGAGTTCCTACACAGAC+AGG	-	chr8_1:11602977-11602996	None:intergenic	55.0%
	CCCATGCAGTCTCTCTTGTG+AGG	-	chr8_1:11603087-11603106	None:intergenic	55.0%
	GAGAGACTGCATGGGAAGCA+TGG	+	chr8_1:11603092-11603111	Msa1178720:CDS	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr8_1	gene	11602468	11603144	11602468	ID=Msa1178720;Name=Msa1178720
chr8_1	mRNA	11602468	11603144	11602468	ID=Msa1178720-mRNA-1;Parent=Msa1178720;Name=Msa1178720-mRNA-1;_AED=0.11;_eAED=0.11;_QI=47\|0\|0\|1\|1\|0.5\|2\|0\|80
chr8_1	exon	11602468	11602596	11602468	ID=Msa1178720-mRNA-1:exon:4118;Parent=Msa1178720-mRNA-1
chr8_1	exon	11602987	11603144	11602987	ID=Msa1178720-mRNA-1:exon:4119;Parent=Msa1178720-mRNA-1
chr8_1	five_prime_UTR	11602468	11602514	11602468	ID=Msa1178720-mRNA-1:five_prime_utr;Parent=Msa1178720-mRNA-1
chr8_1	CDS	11602515	11602596	11602515	ID=Msa1178720-mRNA-1:cds;Parent=Msa1178720-mRNA-1
chr8_1	CDS	11602987	11603144	11602987	ID=Msa1178720-mRNA-1:cds;Parent=Msa1178720-mRNA-1

Gene Sequence	>Msa1178720 ATGGCTGCTGAGTTTTTCAAGTACCAAATCTCAGTAAATGTGTATGCATTCAGTGATAAGTACACTGACATAGCCTCCTTAGGAACTCTGGCAAAGTACACTGCTGGTCAAGTGTATTACTTTCCAGCTTTCCAATCAGCTACTCATGGGGAGAAATTGAGTCATGAATTAAGAAGATACCTCACAAGAGAGACTGCATGGGAAGCATGGATCATATGCATTGCAGAGATACTTAGTAAC
Protein sequence	>Msa1178720 MAAEFFKYQISVNVYAFSDKYTDIASLGTLAKYTAGQVYYFPAFQSATHGEKLSHELRRYLTRETAWEAWIICIAEILSN