AlfalfaGEDB | Msa0354370

M. sativa cultivar zhongmu-4 / Msa0354370

KEGG: K03086
GO: GO:0000988 GO:0000990 GO:0003674 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0006139 GO:0006351 GO:0006352 GO:0006355 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009314 GO:0009416 GO:0009507 GO:0009536 GO:0009628 GO:0009889 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0016070 GO:0016987 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0031323 GO:0031326 GO:0032774 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043254 GO:0044087 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044424 GO:0044444 GO:0044464 GO:0046483 GO:0050789 GO:0050794 GO:0050896 GO:0051128 GO:0051171 GO:0051252 GO:0051716 GO:0060255 GO:0065007 GO:0071214 GO:0071478 GO:0071482 GO:0071704 GO:0080090 GO:0090304 GO:0097659 GO:0104004 GO:0140110 GO:1901360 GO:1901362 GO:1901576 GO:1903506 GO:2000112 GO:2000142 GO:2001141
PFAM: PF04539.19

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0354370	XP_039688195.1	93.636	110	6	1	1	109	1	110	3.95e-57	184

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0354370	sp\|Q9ZSL6\|SIGD_ARATH	52.252	111	52	1	1	110	263	373	1.44e-30	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
Msa0354370	G7J0W0	93.636	110	6	1	1	109	1	110	1.89e-57	184

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0354370	Msa0495830	0.847338	1.232119e-59	-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
Msa0354370	MtrunA17_Chr3g0090001	93.636	110	6	1	1	109	250	359	2.70e-58	185
Msa0354370	MtrunA17_Chr3g0089951	93.000	100	6	1	1	99	1	100	9.17e-53	161

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0354370	AT5G13730.1	52.252	111	52	1	1	110	263	373	1.47e-31	115

Find 21 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
ATCTTCTCCGGAATCGTTTC+AGG	0.267742	3_1:+25482640	None:intergenic
TCCGGAATCGTTTCAGGTCC+TGG	0.358635	3_1:+25482646	None:intergenic
ATAGCTCTGTCCAATGAAAT+TGG	0.360695	3_1:+25482822	None:intergenic
ACCAGGACCTGAAACGATTC+CGG	0.407081	3_1:-25482647	Msa0354370:CDS
AGATTATACTTTGGACTCAA+TGG	0.428294	3_1:-25482541	Msa0354370:CDS
AAGTAGACAACCAATTTCAT+TGG	0.441740	3_1:-25482832	Msa0354370:CDS
GAGAGAATCTGACAGATTCA+TGG	0.482979	3_1:-25482519	Msa0354370:CDS
TGCCTCTCAACCATCTTCTC+CGG	0.501251	3_1:+25482628	None:intergenic
GAGAGGCAGTTGGTGACGCA+AGG	0.505999	3_1:-25482613	Msa0354370:CDS
GAGATAGTAAGATTATACTT+TGG	0.511798	3_1:-25482550	Msa0354370:CDS
TGAAACGATTCCGGAGAAGA+TGG	0.541547	3_1:-25482638	Msa0354370:CDS
TCAGCAATTTCATTATATGT+CGG	0.554776	3_1:+25482900	None:intergenic
AGAGGCAGTTGGTGACGCAA+GGG	0.576524	3_1:-25482612	Msa0354370:CDS
TCAAAGCAACTTAATACTGA+AGG	0.589123	3_1:-25482793	Msa0354370:intron
ATAATGCAGGAGATTATACC+AGG	0.604707	3_1:-25482664	Msa0354370:intron
TTCCGGAGAAGATGGTTGAG+AGG	0.609116	3_1:-25482630	Msa0354370:CDS
GAAGATGGTTGAGAGGCAGT+TGG	0.627553	3_1:-25482623	Msa0354370:CDS
GAGGCAGTTGGTGACGCAAG+GGG	0.636268	3_1:-25482611	Msa0354370:CDS
GACATATAATGAAATTGCTG+AGG	0.644481	3_1:-25482898	Msa0354370:CDS
TCTTAAGACGAAGACTGAGG+CGG	0.681542	3_1:-25482926	Msa0354370:CDS
ATGTCTTAAGACGAAGACTG+AGG	0.725315	3_1:-25482929	Msa0354370:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!	TCAGCAATTTCATTATATGT+CGG	+	chr3_1:25482537-25482556	None:intergenic	25.0%
!	TCTTTACTATGATATAATGC+AGG	-	chr3_1:25482757-25482776	Msa0354370:intron	25.0%
!	GAGATAGTAAGATTATACTT+TGG	-	chr3_1:25482884-25482903	Msa0354370:CDS	25.0%
	GACATATAATGAAATTGCTG+AGG	-	chr3_1:25482536-25482555	Msa0354370:CDS	30.0%
	AAGTAGACAACCAATTTCAT+TGG	-	chr3_1:25482602-25482621	Msa0354370:CDS	30.0%
	TCAAAGCAACTTAATACTGA+AGG	-	chr3_1:25482641-25482660	Msa0354370:CDS	30.0%
	AGATTATACTTTGGACTCAA+TGG	-	chr3_1:25482893-25482912	Msa0354370:CDS	30.0%
!	ATAGCTCTGTCCAATGAAAT+TGG	+	chr3_1:25482615-25482634	None:intergenic	35.0%
	ATAATGCAGGAGATTATACC+AGG	-	chr3_1:25482770-25482789	Msa0354370:intron	35.0%
	ATGTCTTAAGACGAAGACTG+AGG	-	chr3_1:25482505-25482524	Msa0354370:CDS	40.0%
	GAGAGAATCTGACAGATTCA+TGG	-	chr3_1:25482915-25482934	Msa0354370:CDS	40.0%
	TCTTAAGACGAAGACTGAGG+CGG	-	chr3_1:25482508-25482527	Msa0354370:CDS	45.0%
	ATCTTCTCCGGAATCGTTTC+AGG	+	chr3_1:25482797-25482816	None:intergenic	45.0%
	TGAAACGATTCCGGAGAAGA+TGG	-	chr3_1:25482796-25482815	Msa0354370:CDS	45.0%
	ACCAGGACCTGAAACGATTC+CGG	-	chr3_1:25482787-25482806	Msa0354370:intron	50.0%
	TTCCGGAGAAGATGGTTGAG+AGG	-	chr3_1:25482804-25482823	Msa0354370:CDS	50.0%
	TGCCTCTCAACCATCTTCTC+CGG	+	chr3_1:25482809-25482828	None:intergenic	50.0%
	GAAGATGGTTGAGAGGCAGT+TGG	-	chr3_1:25482811-25482830	Msa0354370:CDS	50.0%
!	TCCGGAATCGTTTCAGGTCC+TGG	+	chr3_1:25482791-25482810	None:intergenic	55.0%
!!	AGAGGCAGTTGGTGACGCAA+GGG	-	chr3_1:25482822-25482841	Msa0354370:CDS	55.0%
!!	GAGAGGCAGTTGGTGACGCA+AGG	-	chr3_1:25482821-25482840	Msa0354370:CDS	60.0%
!!	GAGGCAGTTGGTGACGCAAG+GGG	-	chr3_1:25482823-25482842	Msa0354370:CDS	60.0%

Chromosome	Type	Strat	End	Strand	Name
chr3_1	gene	25482477	25482979	25482477	ID=Msa0354370;Name=Msa0354370
chr3_1	mRNA	25482477	25482979	25482477	ID=Msa0354370-mRNA-1;Parent=Msa0354370;Name=Msa0354370-mRNA-1;_AED=0.03;_eAED=0.18;_QI=0\|0\|0\|1\|1\|1\|2\|0\|128
chr3_1	exon	25482794	25482979	25482794	ID=Msa0354370-mRNA-1:exon:5623;Parent=Msa0354370-mRNA-1
chr3_1	exon	25482477	25482677	25482477	ID=Msa0354370-mRNA-1:exon:5622;Parent=Msa0354370-mRNA-1
chr3_1	CDS	25482794	25482979	25482794	ID=Msa0354370-mRNA-1:cds;Parent=Msa0354370-mRNA-1
chr3_1	CDS	25482477	25482677	25482477	ID=Msa0354370-mRNA-1:cds;Parent=Msa0354370-mRNA-1

Gene Sequence

>Msa0354370

ATGGTTGCAAAAATCGCAGAGGCTAACAATGTCTTAAGACGAAGACTGAGGCGGAAGCCGACATATAATGAAATTGCTGAGGTTCTCAATGTGAATGTTTCAACTGTAAAACTTGTTTCTGAAAGAAGTAGACAACCAATTTCATTGGACAGAGCTATCGCTGATCAAAGCAACTTAATACTGAAGGAGATTATACCAGGACCTGAAACGATTCCGGAGAAGATGGTTGAGAGGCAGTTGGTGACGCAAGGGGTTGTGAAGCTTCTTAACACACTTAACAAGAGAGAAGAAGAGATAGTAAGATTATACTTTGGACTCAATGGAGAGAATCTGACAGATTCATGGCATTGCATTGTCAAAATTGCAAACAAATTCACTTGTAGATAG

Protein sequence

>Msa0354370

MVAKIAEANNVLRRRLRRKPTYNEIAEVLNVNVSTVKLVSERSRQPISLDRAIADQSNLILKEIIPGPETIPEKMVERQLVTQGVVKLLNTLNKREEEIVRLYFGLNGENLTDSWHCIVKIANKFTCR*