AlfalfaGEDB | Msa1409980

M. sativa cultivar zhongmu-4 / Msa1409980

KEGG: K14406
GO: GO:0000375 GO:0000377 GO:0000398 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0006139 GO:0006351 GO:0006353 GO:0006366 GO:0006369 GO:0006396 GO:0006397 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0008380 GO:0009058 GO:0009059 GO:0009987 GO:0010467 GO:0016070 GO:0016071 GO:0018130 GO:0019438 GO:0031123 GO:0031124 GO:0031974 GO:0031981 GO:0032774 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0070013 GO:0071704 GO:0090304 GO:0097659 GO:1901360 GO:1901362 GO:1901576
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
Msa1409980	sp\|Q8L4J2\|CTF50_ARATH	60.656	61	24	0	4	64	3	63	7.03e-20	84.0

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1409980	G7IGS9	96.875	64	2	0	1	64	1	64	4.94e-34	129

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0657750	Msa1409980	0.801970	7.001330e-49	-8.615850e-47
Msa0828920	Msa1409980	0.810106	1.359196e-50	-8.615850e-47
Msa0140300	Msa1409980	0.804399	2.201430e-49	-8.615850e-47
Msa0334040	Msa1409980	0.812198	4.782046e-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
Msa1409980	MtrunA17_Chr2g0308391	96.875	64	2	0	1	64	1	64	9.52e-38	129
Msa1409980	MtrunA17_Chr6g0486441	92.188	64	4	1	1	63	1	64	1.65e-36	120

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1409980	AT5G60940.1	60.656	61	24	0	4	64	3	63	7.14e-21	84.0

Find 11 sgRNAs with CRISPR-Local

Find 12 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AGCAATTGAAGAAGCTTGTT+GGG	0.436533	tig0023613:+223	None:intergenic
AAGCAATTGAAGAAGCTTGT+TGG	0.458812	tig0023613:+222	None:intergenic
GGCGGAGCTTGTACATTGAA+TGG	0.492273	tig0023613:+244	None:intergenic
GCTTCTTCAATTGCTTGCTA+AGG	0.498964	tig0023613:-215	None:intergenic
TCGGAGCAGACAGTTGAAGA+TGG	0.510885	tig0023613:-450	Msa1409980:CDS
CGGAGCAGACAGTTGAAGAT+GGG	0.554497	tig0023613:-449	Msa1409980:CDS
AAATGGAAAACAGTAGTAGT+AGG	0.565424	tig0023613:-473	Msa1409980:CDS
GGAAAACAGTAGTAGTAGGT+CGG	0.595441	tig0023613:-469	Msa1409980:CDS
TCGTCACAACAATCTCACTC+AGG	0.620583	tig0023613:-385	Msa1409980:intron
AATTGAAGAAGCTTGTTGGG+CGG	0.652211	tig0023613:+226	None:intergenic
TGTTGCTGAAGCAACAACAG+TGG	0.689668	tig0023613:+273	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	AATTGAATTGAATTGAATTG+AGG	+	tig0023613:366-385	None:intergenic	20.0%
!!!	AATTCTTGTTTTTTCATTTC+AGG	-	tig0023613:400-419	Msa1409980:CDS	20.0%
	AAATGGAAAACAGTAGTAGT+AGG	-	tig0023613:226-245	Msa1409980:CDS	30.0%
!	AGCAATTGAAGAAGCTTGTT+GGG	+	tig0023613:479-498	None:intergenic	35.0%
	AAGCAATTGAAGAAGCTTGT+TGG	+	tig0023613:480-499	None:intergenic	35.0%
	GGAAAACAGTAGTAGTAGGT+CGG	-	tig0023613:230-249	Msa1409980:CDS	40.0%
!!	AATTGAAGAAGCTTGTTGGG+CGG	+	tig0023613:476-495	None:intergenic	40.0%
	TCGTCACAACAATCTCACTC+AGG	-	tig0023613:314-333	Msa1409980:intron	45.0%
	TGTTGCTGAAGCAACAACAG+TGG	+	tig0023613:429-448	None:intergenic	45.0%
	TCGGAGCAGACAGTTGAAGA+TGG	-	tig0023613:249-268	Msa1409980:CDS	50.0%
	CGGAGCAGACAGTTGAAGAT+GGG	-	tig0023613:250-269	Msa1409980:CDS	50.0%
	GGCGGAGCTTGTACATTGAA+TGG	+	tig0023613:458-477	None:intergenic	50.0%

Chromosome	Type	Strat	End	Strand	Name
tig0023613	gene	216	505	216	ID=Msa1409980;Name=Msa1409980
tig0023613	mRNA	216	505	216	ID=Msa1409980-mRNA-1;Parent=Msa1409980;Name=Msa1409980-mRNA-1;_AED=0.00;_eAED=0.00;_QI=12\|1\|0.5\|1\|1\|1\|2\|0\|64
tig0023613	exon	216	299	216	ID=Msa1409980-mRNA-1:exon:26355;Parent=Msa1409980-mRNA-1
tig0023613	exon	386	505	386	ID=Msa1409980-mRNA-1:exon:26354;Parent=Msa1409980-mRNA-1
tig0023613	five_prime_UTR	494	505	494	ID=Msa1409980-mRNA-1:five_prime_utr;Parent=Msa1409980-mRNA-1
tig0023613	CDS	386	493	386	ID=Msa1409980-mRNA-1:cds;Parent=Msa1409980-mRNA-1
tig0023613	CDS	216	299	216	ID=Msa1409980-mRNA-1:cds;Parent=Msa1409980-mRNA-1

Gene Sequence	>Msa1409980 ATGGAAAACAGTAGTAGTAGGTCGGAGCAGACAGTTGAAGATGGGAAACTGTATAGACATCTCAATTCTCTTATCGTCGCTCATCTTCGTCACAACAATCTCACTCAGGCTGCCACTGTTGTTGCTTCAGCAACAATGACACCATTCAATGTACAAGCTCCGCCCAACAAGCTTCTTCAATTGCTTGCTAAG
Protein sequence	>Msa1409980 MENSSSRSEQTVEDGKLYRHLNSLIVAHLRHNNLTQAATVVASATMTPFNVQAPPNKLLQLLAK