AlfalfaGEDB | Msa0502720

M. sativa cultivar zhongmu-4 / Msa0502720

KEGG: -
GO: GO:0003674 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0006950 GO:0006970 GO:0008150 GO:0009628 GO:0009651 GO:0009987 GO:0019725 GO:0042592 GO:0043167 GO:0043169 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0045454 GO:0046872 GO:0046914 GO:0050789 GO:0050794 GO:0050896 GO:0050897 GO:0065007 GO:0065008
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
Msa0502720	XP_024640168.1	76.190	84	12	1	11	86	9	92	8.01e-36	131

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0502720	sp\|Q9LEV3\|CBSX3_ARATH	54.217	83	29	2	11	84	9	91	5.95e-23	90.9

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0502720	B7FJN7	76.190	84	12	1	11	86	9	92	3.83e-36	131

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0498490	Msa0502720	0.847498	1.113147e-59	-8.615850e-47
Msa0502720	Msa0502730	0.938906	3.097924e-99	-8.615850e-47
Msa0502720	Msa0502740	0.872192	3.839926e-67	-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
Msa0502720	MtrunA17_Chr5g0433161	76.190	84	12	1	11	86	9	92	7.37e-40	131
Msa0502720	MtrunA17_Chr5g0433101	74.390	82	13	1	11	84	9	90	5.69e-32	117

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0502720	AT5G10860.1	54.217	83	29	2	11	84	9	91	6.04e-24	90.9

Find 24 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TCGCAATCCTGCTTGCATTT+TGG	0.275516	3_4:-45387023	None:intergenic
GTGCTGATGGTTCCTGGCTT+TGG	0.314433	3_4:+45387223	Msa0502720:CDS
GTAAAGGTGCTGATGGTTCC+TGG	0.372640	3_4:+45387217	Msa0502720:CDS
AAATAACTTCATACTTTCTC+TGG	0.380571	3_4:-45387578	None:intergenic
TAACTCTTCCTTTACTTGGT+TGG	0.400717	3_4:-45387541	None:intergenic
TGATTAACTCTTCCTTTACT+TGG	0.403850	3_4:-45387545	None:intergenic
TCAAACCGTGAAAAGGAAAC+TGG	0.426829	3_4:-45387120	None:intergenic
TCAGACATCTTGCAAGGAAA+AGG	0.429987	3_4:+45387195	Msa0502720:intron
TGTTTATGTTGCTGTCAAAT+CGG	0.448188	3_4:+45387263	Msa0502720:CDS
AAAAGGAAACTGGCTGCAAA+AGG	0.470259	3_4:-45387110	None:intergenic
ATCTGTGGTGCACCAAAGCC+AGG	0.513664	3_4:-45387235	None:intergenic
TGCTACACCTGCTTGTATTG+AGG	0.519734	3_4:+45387146	Msa0502720:CDS
AGCAGACTCAAACCGTGAAA+AGG	0.527310	3_4:-45387127	None:intergenic
AAGGAAACTGGCTGCAAAAG+GGG	0.532336	3_4:-45387108	None:intergenic
AAAGGAAACTGGCTGCAAAA+GGG	0.547802	3_4:-45387109	None:intergenic
TAGACAGCCAAAATGCAAGC+AGG	0.551267	3_4:+45387016	None:intergenic
TTCAAGTGCCAACCAAGTAA+AGG	0.556710	3_4:+45387533	Msa0502720:CDS
ATCTTGCAAGGAAAAGGTAA+AGG	0.570122	3_4:+45387201	Msa0502720:CDS
CCTGCTTGTATTGAGGAGCA+TGG	0.583950	3_4:+45387153	Msa0502720:CDS
GGAAAAGGTAAAGGTGCTGA+TGG	0.584293	3_4:+45387210	Msa0502720:CDS
ACAATTTCAGACATCTTGCA+AGG	0.588745	3_4:+45387189	Msa0502720:intron
CCATGCTCCTCAATACAAGC+AGG	0.596883	3_4:-45387153	None:intergenic
AACATAAACAGTGTCATCTG+TGG	0.639874	3_4:-45387250	None:intergenic
GCAAAAGGGGATTCACCGTG+CGG	0.705636	3_4:-45387095	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	AACAGAAATATTAATTCATA+AGG	-	chr3_4:45387447-45387466	None:intergenic	15.0%
!	TGATATATGTTGCATTTAGA+AGG	+	chr3_4:45387466-45387485	Msa0502720:intron	25.0%
!	ATTGCGATCATTTTGTCAAA+CGG	+	chr3_4:45387039-45387058	Msa0502720:CDS	30.0%
	TGTTTATGTTGCTGTCAAAT+CGG	+	chr3_4:45387263-45387282	Msa0502720:CDS	30.0%
!	AAATCGGTAATGCATTTTGT+TGG	+	chr3_4:45387279-45387298	Msa0502720:intron	30.0%
	TATATGTTGCATTTAGAAGG+TGG	+	chr3_4:45387469-45387488	Msa0502720:intron	30.0%
	TGATTAACTCTTCCTTTACT+TGG	-	chr3_4:45387548-45387567	None:intergenic	30.0%
!	TTGCGATCATTTTGTCAAAC+GGG	+	chr3_4:45387040-45387059	Msa0502720:CDS	35.0%
!	TTGCAAGATGTCTGAAATTG+TGG	-	chr3_4:45387190-45387209	None:intergenic	35.0%
	ACAATTTCAGACATCTTGCA+AGG	+	chr3_4:45387189-45387208	Msa0502720:intron	35.0%
	ATCTTGCAAGGAAAAGGTAA+AGG	+	chr3_4:45387201-45387220	Msa0502720:CDS	35.0%
	AACATAAACAGTGTCATCTG+TGG	-	chr3_4:45387253-45387272	None:intergenic	35.0%
	TGCAGATGACAAAACAATGT+TGG	+	chr3_4:45387368-45387387	Msa0502720:intron	35.0%
	TAACTCTTCCTTTACTTGGT+TGG	-	chr3_4:45387544-45387563	None:intergenic	35.0%
!	GATCATTTTGTCAAACGGGA+AGG	+	chr3_4:45387044-45387063	Msa0502720:CDS	40.0%
	AAAGGAAACTGGCTGCAAAA+GGG	-	chr3_4:45387112-45387131	None:intergenic	40.0%
	AAAAGGAAACTGGCTGCAAA+AGG	-	chr3_4:45387113-45387132	None:intergenic	40.0%
	TCAAACCGTGAAAAGGAAAC+TGG	-	chr3_4:45387123-45387142	None:intergenic	40.0%
	TCAGACATCTTGCAAGGAAA+AGG	+	chr3_4:45387195-45387214	Msa0502720:intron	40.0%
	CAATGTTGGAACTTGTGAGT+TGG	+	chr3_4:45387382-45387401	Msa0502720:intron	40.0%
	TTCAAGTGCCAACCAAGTAA+AGG	+	chr3_4:45387533-45387552	Msa0502720:CDS	40.0%
!	TCGCAATCCTGCTTGCATTT+TGG	-	chr3_4:45387026-45387045	None:intergenic	45.0%
	AAGGAAACTGGCTGCAAAAG+GGG	-	chr3_4:45387111-45387130	None:intergenic	45.0%
!	TGCAGCCAGTTTCCTTTTCA+CGG	+	chr3_4:45387115-45387134	Msa0502720:CDS	45.0%
	AGCAGACTCAAACCGTGAAA+AGG	-	chr3_4:45387130-45387149	None:intergenic	45.0%
	TGCTACACCTGCTTGTATTG+AGG	+	chr3_4:45387146-45387165	Msa0502720:CDS	45.0%
!!	GGAAAAGGTAAAGGTGCTGA+TGG	+	chr3_4:45387210-45387229	Msa0502720:CDS	45.0%
!	TGTTTTGCAACGAGTCCGCA+CGG	+	chr3_4:45387080-45387099	Msa0502720:CDS	50.0%
	CCATGCTCCTCAATACAAGC+AGG	-	chr3_4:45387156-45387175	None:intergenic	50.0%
	CCTGCTTGTATTGAGGAGCA+TGG	+	chr3_4:45387153-45387172	Msa0502720:CDS	50.0%
!!	GTAAAGGTGCTGATGGTTCC+TGG	+	chr3_4:45387217-45387236	Msa0502720:CDS	50.0%
	GCAAAAGGGGATTCACCGTG+CGG	-	chr3_4:45387098-45387117	None:intergenic	55.0%
!	GTGCTGATGGTTCCTGGCTT+TGG	+	chr3_4:45387223-45387242	Msa0502720:CDS	55.0%
	ATCTGTGGTGCACCAAAGCC+AGG	-	chr3_4:45387238-45387257	None:intergenic	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr3_4	gene	45387021	45387589	45387021	ID=Msa0502720;Name=Msa0502720
chr3_4	mRNA	45387021	45387589	45387021	ID=Msa0502720-mRNA-1;Parent=Msa0502720;Name=Msa0502720-mRNA-1;_AED=0.55;_eAED=0.55;_QI=0\|0\|0\|0.5\|0\|0\|4\|0\|105
chr3_4	exon	45387021	45387174	45387021	ID=Msa0502720-mRNA-1:exon:9660;Parent=Msa0502720-mRNA-1
chr3_4	exon	45387199	45387284	45387199	ID=Msa0502720-mRNA-1:exon:9661;Parent=Msa0502720-mRNA-1
chr3_4	exon	45387485	45387490	45387485	ID=Msa0502720-mRNA-1:exon:9662;Parent=Msa0502720-mRNA-1
chr3_4	exon	45387521	45387589	45387521	ID=Msa0502720-mRNA-1:exon:9663;Parent=Msa0502720-mRNA-1
chr3_4	CDS	45387021	45387174	45387021	ID=Msa0502720-mRNA-1:cds;Parent=Msa0502720-mRNA-1
chr3_4	CDS	45387199	45387284	45387199	ID=Msa0502720-mRNA-1:cds;Parent=Msa0502720-mRNA-1
chr3_4	CDS	45387485	45387490	45387485	ID=Msa0502720-mRNA-1:cds;Parent=Msa0502720-mRNA-1
chr3_4	CDS	45387521	45387589	45387521	ID=Msa0502720-mRNA-1:cds;Parent=Msa0502720-mRNA-1

Gene Sequence	>Msa0502720 AGCCAAAATGCAAGCAGGATTGCGATCATTTTGTCAAACGGGAAGGTCATTAAAAATGCTGTTTTGCAACGAGTCCGCACGGTGAATCCCCTTTTGCAGCCAGTTTCCTTTTCACGGTTTGAGTCTGCTACACCTGCTTGTATTGAGGAGCATGACATCTTGCAAGGAAAAGGTAAAGGTGCTGATGGTTCCTGGCTTTGGTGCACCACAGATGACACTGTTTATGTTGCTGTCAAATCGAAGGTGAGACATCAGTGTTTCAAGTGCCAACCAAGTAAAGGAAGAGTTAATCAAATTACTCAACCAGAGAAAGTA
Protein sequence	>Msa0502720 SQNASRIAIILSNGKVIKNAVLQRVRTVNPLLQPVSFSRFESATPACIEEHDILQGKGKGADGSWLWCTTDDTVYVAVKSKVRHQCFKCQPSKGRVNQITQPEKV