AlfalfaGEDB | Msa1209570

M. sativa cultivar zhongmu-4 / Msa1209570

KEGG: K00521
GO: GO:0000293 GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005886 GO:0008150 GO:0008152 GO:0016020 GO:0016491 GO:0016722 GO:0016723 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0055114 GO:0071944
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

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1209570	sp\|Q8VY13\|FRO8_ARATH	58.929	56	23	0	20	75	20	75	4.35e-19	83.2

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1209570	A0A444YCR5	80.723	83	16	0	1	83	1	83	6.50e-41	138

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0029850	Msa1209570	0.800283	1.550094e-48	-8.615850e-47
Msa0048000	Msa1209570	0.812188	4.807539e-51	-8.615850e-47
Msa0626280	Msa1209570	0.812559	3.988557e-51	-8.615850e-47
Msa0658570	Msa1209570	0.821489	3.929270e-53	-8.615850e-47
Msa0703490	Msa1209570	0.804087	2.556497e-49	-8.615850e-47
Msa0807030	Msa1209570	0.801079	1.066512e-48	-8.615850e-47
Msa0436370	Msa1209570	0.800295	1.541266e-48	-8.615850e-47
Msa0448550	Msa1209570	-0.800476	1.415936e-48	-8.615850e-47
Msa1068200	Msa1209570	-0.837290	5.671573e-57	-8.615850e-47
Msa1080160	Msa1209570	0.809352	1.974570e-50	-8.615850e-47
Msa0260810	Msa1209570	0.806391	8.415177e-50	-8.615850e-47
Msa0297960	Msa1209570	0.820732	5.871308e-53	-8.615850e-47
Msa0299200	Msa1209570	0.804835	1.785412e-49	-8.615850e-47
Msa1156340	Msa1209570	-0.827172	1.811386e-54	-8.615850e-47
Msa1209560	Msa1209570	0.840119	1.053630e-57	-8.615850e-47
Msa1209570	Msa1246040	0.841892	3.607072e-58	-8.615850e-47
Msa1209570	Msa1246500	0.800235	1.584822e-48	-8.615850e-47
Msa1209570	Msa1298910	0.808671	2.761284e-50	-8.615850e-47
Msa1209570	Msa1330530	0.802683	4.994750e-49	-8.615850e-47
Msa1209570	Msa1376890	0.815740	7.916429e-52	-8.615850e-47
Msa1209570	Msa1379850	0.802643	5.090035e-49	-8.615850e-47
Msa1209570	Msa1466810	0.811521	6.714573e-51	-8.615850e-47
Msa0492880	Msa1209570	0.800579	1.349195e-48	-8.615850e-47
Msa0567020	Msa1209570	0.801724	7.867303e-49	-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
Msa1209570	MtrunA17_Chr4g0058571	92.308	65	5	0	17	81	33	97	2.75e-32	117

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1209570	AT5G50160.1	58.929	56	23	0	20	75	20	75	4.42e-20	83.2

Find 9 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
ATAATTGCTATTGCTATAAT+TGG	0.176243	8_1:-68118843	Msa1209570:CDS
ATTATAGCAATAGCAATTAT+TGG	0.198333	8_1:+68118846	None:intergenic
TTGCAGCTTGGATTTCTCTT+TGG	0.308763	8_1:-68119094	Msa1209570:CDS
TTTAAGAGTTGCAAGTAAAG+TGG	0.451021	8_1:+68119136	None:intergenic
TGAATACTTTGCCACGCTGA+AGG	0.507529	8_1:+68119177	None:intergenic
GAATACTTTGCCACGCTGAA+GGG	0.527827	8_1:+68119178	None:intergenic
AAGCTGGATATCAAAGAAGC+GGG	0.574886	8_1:-68118800	Msa1209570:CDS
CAAAGTATTCAAGTCAGAGA+TGG	0.598654	8_1:-68119165	Msa1209570:exon
AAAGCTGGATATCAAAGAAG+CGG	0.623426	8_1:-68118801	Msa1209570:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	AATACAATTTTTGGATACTA+TGG	-	chr8_1:68119001-68119020	Msa1209570:intron	20.0%
!!	ATTATAGCAATAGCAATTAT+TGG	+	chr8_1:68119169-68119188	None:intergenic	20.0%
!!!	ATAATTGCTATTGCTATAAT+TGG	-	chr8_1:68119169-68119188	Msa1209570:five_prime_UTR	20.0%
!!	TTATTTTCATATTTGCAGCT+TGG	-	chr8_1:68118906-68118925	Msa1209570:intron	25.0%
!!	AGCGCTAATAATACAATTTT+TGG	-	chr8_1:68118992-68119011	Msa1209570:intron	25.0%
!!!	TGCAATAGAGATTTTAGTTT+AGG	+	chr8_1:68119033-68119052	None:intergenic	25.0%
!!	TATAATTGGACTTCTTTTCT+TGG	-	chr8_1:68119183-68119202	Msa1209570:five_prime_UTR	25.0%
	TTTAAGAGTTGCAAGTAAAG+TGG	+	chr8_1:68118879-68118898	None:intergenic	30.0%
!!!	TTTTTTGTCCATACTTGAGT+TGG	+	chr8_1:68118953-68118972	None:intergenic	30.0%
	CTCAAGTATGGACAAAAAAA+TGG	-	chr8_1:68118954-68118973	Msa1209570:intron	30.0%
!	CAAAGTATTCAAGTCAGAGA+TGG	-	chr8_1:68118847-68118866	Msa1209570:CDS	35.0%
!!!	TTTTGAAGCCAACTCAAGTA+TGG	-	chr8_1:68118942-68118961	Msa1209570:intron	35.0%
	CTAAATAGTAAGTCTTCTGC+AGG	-	chr8_1:68119118-68119137	Msa1209570:CDS	35.0%
	AAAGCTGGATATCAAAGAAG+CGG	-	chr8_1:68119211-68119230	Msa1209570:five_prime_UTR	35.0%
	AAAAATTAGACCCTTCAGCG+TGG	-	chr8_1:68118824-68118843	Msa1209570:CDS	40.0%
	TTGCAGCTTGGATTTCTCTT+TGG	-	chr8_1:68118918-68118937	Msa1209570:intron	40.0%
!	CTTTTCTTGGACTCAAAAGC+TGG	-	chr8_1:68119196-68119215	Msa1209570:five_prime_UTR	40.0%
	AAGCTGGATATCAAAGAAGC+GGG	-	chr8_1:68119212-68119231	Msa1209570:five_prime_UTR	40.0%
	GAATACTTTGCCACGCTGAA+GGG	+	chr8_1:68118837-68118856	None:intergenic	45.0%
	TGAATACTTTGCCACGCTGA+AGG	+	chr8_1:68118838-68118857	None:intergenic	45.0%

Chromosome	Type	Strat	End	Strand	Name
chr8_1	gene	68118797	68119237	68118797	ID=Msa1209570;Name=Msa1209570
chr8_1	mRNA	68118797	68119237	68118797	ID=Msa1209570-mRNA-1;Parent=Msa1209570;Name=Msa1209570-mRNA-1;_AED=0.47;_eAED=0.47;_QI=69\|0\|0.5\|1\|1\|1\|2\|0\|84
chr8_1	exon	68118797	68118894	68118797	ID=Msa1209570-mRNA-1:exon:22644;Parent=Msa1209570-mRNA-1
chr8_1	exon	68119012	68119237	68119012	ID=Msa1209570-mRNA-1:exon:22643;Parent=Msa1209570-mRNA-1
chr8_1	five_prime_UTR	68119169	68119237	68119169	ID=Msa1209570-mRNA-1:five_prime_utr;Parent=Msa1209570-mRNA-1
chr8_1	CDS	68119012	68119168	68119012	ID=Msa1209570-mRNA-1:cds;Parent=Msa1209570-mRNA-1
chr8_1	CDS	68118797	68118894	68118797	ID=Msa1209570-mRNA-1:cds;Parent=Msa1209570-mRNA-1

Gene Sequence	>Msa1209570 ATGGCAAGCTCCACTTTACTTGCAACTCTTAAACTGTTAATTATTTTCATATTTGCAGCTTGGATTTCTCTTTGGATTTTGAAGCCAACTCAAGTATGGACAAAAAAATGGAAACATGCAGAACAAAGCGCTAATAATACAATTTTTGGATACTATGGTCTAAACTTTGCTGTGTATACATTTCCAATAATTGCTATTGCTATAATTGGACTTCTTTTCTTGGACTCAAAAGCTGGATATCAAAGAAGCGGGTAA
Protein sequence	>Msa1209570 MASSTLLATLKLLIIFIFAAWISLWILKPTQVWTKKWKHAEQSANNTIFGYYGLNFAVYTFPIIAIAIIGLLFLDSKAGYQRSG*