AlfalfaGEDB | Msa0487360

M. sativa cultivar zhongmu-4 / Msa0487360

KEGG: -
GO: -
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
Msa0487360	AES68846.1	60.563	71	6	2	1	69	1	51	1.52e-13	73.2

Swissprot:

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

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0487360	G7IYS7	60.563	71	6	2	1	69	1	51	7.26e-14	73.2

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0088550	Msa0487360	0.835511	1.607892e-56	-8.615850e-47
Msa0135360	Msa0487360	0.831952	1.246581e-55	-8.615850e-47
Msa0179860	Msa0487360	0.826519	2.594428e-54	-8.615850e-47
Msa0190640	Msa0487360	0.800859	1.182822e-48	-8.615850e-47
Msa0232910	Msa0487360	0.814998	1.157903e-51	-8.615850e-47
Msa0399210	Msa0487360	0.806192	9.270495e-50	-8.615850e-47
Msa0446510	Msa0487360	0.801049	1.081450e-48	-8.615850e-47
Msa0352220	Msa0487360	0.805774	1.134605e-49	-8.615850e-47
Msa0487360	Msa0487370	0.935508	7.592601e-97	-8.615850e-47
Msa0487360	Msa0718240	0.807414	5.113040e-50	-8.615850e-47
Msa0487360	Msa1026500	0.809538	1.800880e-50	-8.615850e-47
Msa0487360	Msa1111760	0.805652	1.203649e-49	-8.615850e-47
Msa0487360	Msa1154070	0.805117	1.558375e-49	-8.615850e-47
Msa0487360	Msa1179120	0.804370	2.232007e-49	-8.615850e-47
Msa0487360	Msa1228210	0.804171	2.454680e-49	-8.615850e-47
Msa0487360	Msa1271280	0.814522	1.475891e-51	-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
Msa0487360	MtrunA17_Chr3g0083271	60.563	71	6	2	1	69	1	51	1.40e-17	73.2
Msa0487360	MtrunA17_Chr3g0082461	47.788	113	15	5	1	111	1	71	3.45e-11	56.6

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

Find 53 sgRNAs with CRISPR-Local

Find 81 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
GGTAAGGTGTTATCTTCTTT+TGG	0.201728	3_4:+6220497	None:intergenic
GGTAAGGTGTTATCTTCTTT+TGG	0.201728	3_4:+6220569	None:intergenic
GGTAAGGTGTTATCTTCTTT+TGG	0.201728	3_4:+6220641	None:intergenic
GGTAAGGTGTTATCTTCTTT+TGG	0.201728	3_4:+6220713	None:intergenic
AAATGAGTGTTATCTTCTTT+TGG	0.250224	3_4:+6220425	None:intergenic
GGGTGTTGAGGAGGCTTTCT+TGG	0.292723	3_4:+6220593	None:intergenic
GGGTGTTGAGGAGGCTTTCT+TGG	0.292723	3_4:+6220665	None:intergenic
GGGTGTTGAGGAGGCTTTCT+TGG	0.315739	3_4:+6220521	None:intergenic
ATTCTCATCCCTCAAGGCTT+TGG	0.330550	3_4:-6220908	Msa0487360:CDS
GTTGGCAGGGTAAGTTGGTT+TGG	0.333736	3_4:+6220619	None:intergenic
TTTGGGTTGGGTTGGTTGGT+AGG	0.340770	3_4:+6220758	None:intergenic
ACGGTGGTTTGTGTTTATTA+TGG	0.357596	3_4:+6220870	None:intergenic
TTGGCAGGGTAAGTTGGTTT+GGG	0.367053	3_4:+6220620	None:intergenic
GCTGGCAGGGTAAGTTGGTT+TGG	0.372773	3_4:+6220475	None:intergenic
GCTGGCAGGGTAAGTTGGTT+TGG	0.372773	3_4:+6220547	None:intergenic
GCTGGCAGGGTAAGTTGGTT+TGG	0.375568	3_4:+6220691	None:intergenic
GGTTGGTTGGTAGGATGTAT+AGG	0.386912	3_4:+6220767	None:intergenic
CCACCATCTACTCAAGGATT+TGG	0.393716	3_4:-6220797	Msa0487360:CDS
TGAGTAGATGGTGGATGTTT+AGG	0.399624	3_4:+6220806	None:intergenic
AGGGTAAGTTGGTTTGGGTA+AGG	0.401305	3_4:+6220481	None:intergenic
AGGGTAAGTTGGTTTGGGTA+AGG	0.401305	3_4:+6220553	None:intergenic
AGGGTAAGTTGGTTTGGGTA+AGG	0.401305	3_4:+6220625	None:intergenic
AGGGTAAGTTGGTTTGGGTA+AGG	0.401305	3_4:+6220697	None:intergenic
CTGGCAGGGTAAGTTGGTTT+GGG	0.411964	3_4:+6220476	None:intergenic
CTGGCAGGGTAAGTTGGTTT+GGG	0.411964	3_4:+6220548	None:intergenic
CTGGCAGGGTAAGTTGGTTT+GGG	0.411964	3_4:+6220692	None:intergenic
GGCTTTCTTGGAATGCTGGC+AGG	0.413646	3_4:+6220677	None:intergenic
GGCTTTCTTGGAATGTTGGC+AGG	0.415195	3_4:+6220605	None:intergenic
GGCTTTCTTGGAAAGCTGGC+AGG	0.423521	3_4:+6220533	None:intergenic
TCACCAAATCCTTGAGTAGA+TGG	0.432255	3_4:+6220794	None:intergenic
AGGAGGCTTTCTTGGAATGC+TGG	0.435548	3_4:+6220673	None:intergenic
AGGAGGCTTTCTTGGAAAGC+TGG	0.454598	3_4:+6220529	None:intergenic
AGGAGGCTTTCTTGGAATGT+TGG	0.457411	3_4:+6220601	None:intergenic
GGTTTGTGTTTATTATGGTT+TGG	0.471548	3_4:+6220875	None:intergenic
GTTGAGCACCAAAGCCTTGA+GGG	0.482178	3_4:+6220900	None:intergenic
GGAAAGCTGGCAGGGTAAGT+TGG	0.485288	3_4:+6220542	None:intergenic
GGAAAGCTGGCAGGGTAAGT+TGG	0.487771	3_4:+6220470	None:intergenic
TCTCTTATTCTCATCCCTCA+AGG	0.490859	3_4:-6220914	Msa0487360:CDS
GGAATGCTGGCAGGGTAAGT+TGG	0.491701	3_4:+6220686	None:intergenic
GGAATGTTGGCAGGGTAAGT+TGG	0.494184	3_4:+6220614	None:intergenic
TTGTGTTTATTATGGTTTGG+AGG	0.506608	3_4:+6220878	None:intergenic
GCTTTCTTGGAATGCTGGCA+GGG	0.564002	3_4:+6220678	None:intergenic
CACAAACCACCGTCTACTCA+AGG	0.569030	3_4:-6220860	Msa0487360:CDS
GCTTTCTTGGAAAGCTGGCA+GGG	0.573877	3_4:+6220534	None:intergenic
GGATGAGAATAAGAGAAGCA+AGG	0.575636	3_4:+6220921	None:intergenic
GAAGCAAATCCTTGAGTAGA+CGG	0.588915	3_4:+6220851	None:intergenic
AAACATCCACCATCTACTCA+AGG	0.614124	3_4:-6220803	Msa0487360:CDS
CCAAATCCTTGAGTAGATGG+TGG	0.614476	3_4:+6220797	None:intergenic
GGTTGAGCACCAAAGCCTTG+AGG	0.627683	3_4:+6220899	None:intergenic
GCTTTCTTGGAATGTTGGCA+GGG	0.628633	3_4:+6220606	None:intergenic
GAAAGACACAAGCAAGTACG+AGG	0.644201	3_4:+6220943	None:intergenic
GGATGTTTAGGATGATCATG+AGG	0.681938	3_4:+6220818	None:intergenic
GCAAATCCTTGAGTAGACGG+TGG	0.700559	3_4:+6220854	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	AAATGAGTGTTATCTTCTTT+TGG	+	chr3_4:6220955-6220974	None:intergenic	25.0%
!	TTGTGTTTATTATGGTTTGG+AGG	+	chr3_4:6220502-6220521	None:intergenic	30.0%
	GGTTTGTGTTTATTATGGTT+TGG	+	chr3_4:6220505-6220524	None:intergenic	30.0%
!	ACGGTGGTTTGTGTTTATTA+TGG	+	chr3_4:6220510-6220529	None:intergenic	35.0%
!!	AGGTGTTATCTTCTTTTGGA+GGG	+	chr3_4:6220663-6220682	None:intergenic	35.0%
!!	AAGGTGTTATCTTCTTTTGG+AGG	+	chr3_4:6220664-6220683	None:intergenic	35.0%
!!	GGTAAGGTGTTATCTTCTTT+TGG	+	chr3_4:6220667-6220686	None:intergenic	35.0%
!!	AGGTGTTATCTTCTTTTGGA+GGG	+	chr3_4:6220663-6220682	None:intergenic	35.0%
!!	AAGGTGTTATCTTCTTTTGG+AGG	+	chr3_4:6220664-6220683	None:intergenic	35.0%
!!	GGTAAGGTGTTATCTTCTTT+TGG	+	chr3_4:6220667-6220686	None:intergenic	35.0%
!!	AGGTGTTATCTTCTTTTGGA+GGG	+	chr3_4:6220663-6220682	None:intergenic	35.0%
!!	AAGGTGTTATCTTCTTTTGG+AGG	+	chr3_4:6220664-6220683	None:intergenic	35.0%
!!	GGTAAGGTGTTATCTTCTTT+TGG	+	chr3_4:6220667-6220686	None:intergenic	35.0%
!!	AGGTGTTATCTTCTTTTGGA+GGG	+	chr3_4:6220663-6220682	None:intergenic	35.0%
!!	AAGGTGTTATCTTCTTTTGG+AGG	+	chr3_4:6220664-6220683	None:intergenic	35.0%
!!	GGTAAGGTGTTATCTTCTTT+TGG	+	chr3_4:6220667-6220686	None:intergenic	35.0%
!	TGAGTGTTATCTTCTTTTGG+AGG	+	chr3_4:6220952-6220971	None:intergenic	35.0%
	GGATGAGAATAAGAGAAGCA+AGG	+	chr3_4:6220459-6220478	None:intergenic	40.0%
	TCTCTTATTCTCATCCCTCA+AGG	-	chr3_4:6220463-6220482	Msa0487360:CDS	40.0%
	GAAGCAAATCCTTGAGTAGA+CGG	+	chr3_4:6220529-6220548	None:intergenic	40.0%
!	GGATGTTTAGGATGATCATG+AGG	+	chr3_4:6220562-6220581	None:intergenic	40.0%
!!	TGAGTAGATGGTGGATGTTT+AGG	+	chr3_4:6220574-6220593	None:intergenic	40.0%
	AAACATCCACCATCTACTCA+AGG	-	chr3_4:6220574-6220593	Msa0487360:CDS	40.0%
	TCACCAAATCCTTGAGTAGA+TGG	+	chr3_4:6220586-6220605	None:intergenic	40.0%
!!!	GGATCATGCTTTTTTGGGTT+GGG	+	chr3_4:6220634-6220653	None:intergenic	40.0%
!!!	AGGATCATGCTTTTTTGGGT+TGG	+	chr3_4:6220635-6220654	None:intergenic	40.0%
!!!	GGTGAGGATCATGCTTTTTT+GGG	+	chr3_4:6220639-6220658	None:intergenic	40.0%
!!!	TGGTGAGGATCATGCTTTTT+TGG	+	chr3_4:6220640-6220659	None:intergenic	40.0%
!!	TGTTATCTTCTTTTGGAGGG+TGG	+	chr3_4:6220660-6220679	None:intergenic	40.0%
!!!	ACTTTTTTGGAAAGCTGGCA+GGG	+	chr3_4:6220918-6220937	None:intergenic	40.0%
!!!	AGGAGACTTTTTTGGAAAGC+TGG	+	chr3_4:6220923-6220942	None:intergenic	40.0%
	GAAAGACACAAGCAAGTACG+AGG	+	chr3_4:6220437-6220456	None:intergenic	45.0%
	ATTCTCATCCCTCAAGGCTT+TGG	-	chr3_4:6220469-6220488	Msa0487360:CDS	45.0%
	CCAAATCCTTGAGTAGATGG+TGG	+	chr3_4:6220583-6220602	None:intergenic	45.0%
	CCACCATCTACTCAAGGATT+TGG	-	chr3_4:6220580-6220599	Msa0487360:CDS	45.0%
!!	GGTTGGTTGGTAGGATGTAT+AGG	+	chr3_4:6220613-6220632	None:intergenic	45.0%
!!!	CTTTTTTGGGTTGGGTTGGT+TGG	+	chr3_4:6220626-6220645	None:intergenic	45.0%
!!!	CATGCTTTTTTGGGTTGGGT+TGG	+	chr3_4:6220630-6220649	None:intergenic	45.0%
!!	AGGGTAAGTTGGTTTGGGTA+AGG	+	chr3_4:6220683-6220702	None:intergenic	45.0%
!!!	TCTTCTTTTGGAGGGTGTTG+AGG	+	chr3_4:6220727-6220746	None:intergenic	45.0%
!!	AGGGTAAGTTGGTTTGGGTA+AGG	+	chr3_4:6220683-6220702	None:intergenic	45.0%
!!	TTGGCAGGGTAAGTTGGTTT+GGG	+	chr3_4:6220760-6220779	None:intergenic	45.0%
	GCTTTCTTGGAATGTTGGCA+GGG	+	chr3_4:6220774-6220793	None:intergenic	45.0%
	AGGAGGCTTTCTTGGAATGT+TGG	+	chr3_4:6220779-6220798	None:intergenic	45.0%
!!!	TCTTCTTTTGGAGGGTGTTG+AGG	+	chr3_4:6220727-6220746	None:intergenic	45.0%
!!	AGGGTAAGTTGGTTTGGGTA+AGG	+	chr3_4:6220683-6220702	None:intergenic	45.0%
!!!	TCTTCTTTTGGAGGGTGTTG+AGG	+	chr3_4:6220727-6220746	None:intergenic	45.0%
!!	AGGGTAAGTTGGTTTGGGTA+AGG	+	chr3_4:6220683-6220702	None:intergenic	45.0%
!!!	GACTTTTTTGGAAAGCTGGC+AGG	+	chr3_4:6220919-6220938	None:intergenic	45.0%
!!!	GGCTGATGAGGAGACTTTTT+TGG	+	chr3_4:6220931-6220950	None:intergenic	45.0%
!!	TCTTCTTTTGGAGGCTGATG+AGG	+	chr3_4:6220943-6220962	None:intergenic	45.0%
	GTTGAGCACCAAAGCCTTGA+GGG	+	chr3_4:6220480-6220499	None:intergenic	50.0%
	CACAAACCACCGTCTACTCA+AGG	-	chr3_4:6220517-6220536	Msa0487360:CDS	50.0%
	GCAAATCCTTGAGTAGACGG+TGG	+	chr3_4:6220526-6220545	None:intergenic	50.0%
!!	TTTGGGTTGGGTTGGTTGGT+AGG	+	chr3_4:6220622-6220641	None:intergenic	50.0%
!!	TCTTCTTTTGGAGGGTGGTG+AGG	+	chr3_4:6220655-6220674	None:intergenic	50.0%
!!	CTGGCAGGGTAAGTTGGTTT+GGG	+	chr3_4:6220688-6220707	None:intergenic	50.0%
	GCTTTCTTGGAATGCTGGCA+GGG	+	chr3_4:6220702-6220721	None:intergenic	50.0%
	AGGAGGCTTTCTTGGAATGC+TGG	+	chr3_4:6220707-6220726	None:intergenic	50.0%
!!!	TCTTTTGGAGGGTGTTGAGG+AGG	+	chr3_4:6220724-6220743	None:intergenic	50.0%
!!	GTTGGCAGGGTAAGTTGGTT+TGG	+	chr3_4:6220761-6220780	None:intergenic	50.0%
	GGAATGTTGGCAGGGTAAGT+TGG	+	chr3_4:6220766-6220785	None:intergenic	50.0%
	GGCTTTCTTGGAATGTTGGC+AGG	+	chr3_4:6220775-6220794	None:intergenic	50.0%
!!!	TCTTTTGGAGGGTGTTGAGG+AGG	+	chr3_4:6220724-6220743	None:intergenic	50.0%
!!	CTGGCAGGGTAAGTTGGTTT+GGG	+	chr3_4:6220688-6220707	None:intergenic	50.0%
	GCTTTCTTGGAAAGCTGGCA+GGG	+	chr3_4:6220846-6220865	None:intergenic	50.0%
	AGGAGGCTTTCTTGGAAAGC+TGG	+	chr3_4:6220851-6220870	None:intergenic	50.0%
!!!	TCTTTTGGAGGGTGTTGAGG+AGG	+	chr3_4:6220724-6220743	None:intergenic	50.0%
!!	CTGGCAGGGTAAGTTGGTTT+GGG	+	chr3_4:6220688-6220707	None:intergenic	50.0%
	GGTTGAGCACCAAAGCCTTG+AGG	+	chr3_4:6220481-6220500	None:intergenic	55.0%
!!	GCTGGCAGGGTAAGTTGGTT+TGG	+	chr3_4:6220689-6220708	None:intergenic	55.0%
	GGAATGCTGGCAGGGTAAGT+TGG	+	chr3_4:6220694-6220713	None:intergenic	55.0%
	GGCTTTCTTGGAATGCTGGC+AGG	+	chr3_4:6220703-6220722	None:intergenic	55.0%
!!	GGGTGTTGAGGAGGCTTTCT+TGG	+	chr3_4:6220715-6220734	None:intergenic	55.0%
!!	GGGTGTTGAGGAGGCTTTCT+TGG	+	chr3_4:6220715-6220734	None:intergenic	55.0%
!!	GCTGGCAGGGTAAGTTGGTT+TGG	+	chr3_4:6220689-6220708	None:intergenic	55.0%
	GGAAAGCTGGCAGGGTAAGT+TGG	+	chr3_4:6220838-6220857	None:intergenic	55.0%
	GGCTTTCTTGGAAAGCTGGC+AGG	+	chr3_4:6220847-6220866	None:intergenic	55.0%
!!	GGGTGTTGAGGAGGCTTTCT+TGG	+	chr3_4:6220715-6220734	None:intergenic	55.0%
!!	GCTGGCAGGGTAAGTTGGTT+TGG	+	chr3_4:6220689-6220708	None:intergenic	55.0%
	GGAAAGCTGGCAGGGTAAGT+TGG	+	chr3_4:6220838-6220857	None:intergenic	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr3_4	gene	6220421	6220978	6220421	ID=Msa0487360;Name=Msa0487360
chr3_4	mRNA	6220421	6220978	6220421	ID=Msa0487360-mRNA-1;Parent=Msa0487360;Name=Msa0487360-mRNA-1;_AED=0.05;_eAED=0.07;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|185
chr3_4	exon	6220421	6220978	6220421	ID=Msa0487360-mRNA-1:exon:2157;Parent=Msa0487360-mRNA-1
chr3_4	CDS	6220421	6220978	6220421	ID=Msa0487360-mRNA-1:cds;Parent=Msa0487360-mRNA-1

Gene Sequence

>Msa0487360

ATGACTTCTTTTTCCTCGTACTTGCTTGTGTCTTTCCTTGCTTCTCTTATTCTCATCCCTCAAGGCTTTGGTGCTCAACCTCCAAACCATAATAAACACAAACCACCGTCTACTCAAGGATTTGCTTCTCAATCTCATCCTCATGATCATCCTAAACATCCACCATCTACTCAAGGATTTGGTGATCATCCTATACATCCTACCAACCAACCCAACCCAAAAAAGCATGATCCTCACCACCCTCCAAAAGAAGATAACACCTTACCCAAACCAACTTACCCTGCCAGCATTCCAAGAAAGCCTCCTCAACACCCTCCAAAAGAAGATAACACCTTACCCAAACCAACTTACCCTGCCAACATTCCAAGAAAGCCTCCTCAACACCCTCCAAAAGAAGATAACACCTTACCCAAACCAACTTACCCTGCCAGCTTTCCAAGAAAGCCTCCTCAACACCCTCCAAAAGAAGATAACACCTTACCCAAACCAACTTACCCTGCCAGCTTTCCAAAAAAGTCTCCTCATCAGCCTCCAAAAGAAGATAACACTCATTTCTAA

Protein sequence

>Msa0487360

MTSFSSYLLVSFLASLILIPQGFGAQPPNHNKHKPPSTQGFASQSHPHDHPKHPPSTQGFGDHPIHPTNQPNPKKHDPHHPPKEDNTLPKPTYPASIPRKPPQHPPKEDNTLPKPTYPANIPRKPPQHPPKEDNTLPKPTYPASFPRKPPQHPPKEDNTLPKPTYPASFPKKSPHQPPKEDNTHF*