AlfalfaGEDB | Msa1110390

M. sativa cultivar zhongmu-4 / Msa1110390

KEGG: -
GO: GO:0000976 GO:0000977 GO:0000981 GO:0001012 GO:0001067 GO:0001085 GO:0001228 GO:0003674 GO:0003676 GO:0003677 GO:0003682 GO:0003690 GO:0003700 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005667 GO:0006139 GO:0006351 GO:0006355 GO:0006357 GO:0006366 GO:0006725 GO:0006807 GO:0008134 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0016070 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0030154 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032502 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044212 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044424 GO:0044464 GO:0045893 GO:0045935 GO:0045944 GO:0046483 GO:0048518 GO:0048522 GO:0048869 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0097159 GO:0097659 GO:0140110 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1902680 GO:1903506 GO:1903508 GO:1990837 GO:2000112 GO:2001141
PFAM: PF00320.30

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1110390	GAU37470.1	79.000	100	17	2	5	101	16	114	1.02e-42	146

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1110390	sp\|Q8LG10\|GAT15_ARATH	48.889	90	34	4	15	101	37	117	3.07e-16	72.0

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1110390	A0A2Z6NLR0	79.000	100	17	2	5	101	16	114	4.85e-43	146

TFs/TRs:

Gene ID	Type	Classification
Msa1110390	TF	C2C2-GATA

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR

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
Msa1110390	MtrunA17_Chr4g0068031	79.612	103	15	2	5	101	16	118	7.04e-40	129

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1110390	AT3G06740.1	48.889	90	34	4	15	101	37	117	3.12e-17	72.0
Msa1110390	AT5G49300.1	50.000	84	32	2	15	95	32	108	2.47e-16	69.7
Msa1110390	AT4G16141.1	52.778	72	23	2	16	76	34	105	8.42e-13	61.6
Msa1110390	AT3G16870.1	45.455	77	29	3	16	89	39	105	2.11e-11	57.8

Find 25 sgRNAs with CRISPR-Local

Find 31 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
ATCAGAGATTATTGAATTTA+AGG	0.060866	7_3:+55254852	Msa1110390:CDS
AACAGAGCTAGTAAAGTTTA+TGG	0.220023	7_3:-55254502	None:intergenic
ACCACGACATTGAGGAGTTT+TGG	0.295427	7_3:-55254574	None:intergenic
GCGGCGGCGGAAGCAAAGTT+GGG	0.384378	7_3:+55254813	Msa1110390:CDS
GGCGGCGGCGGAAGCAAAGT+TGG	0.395020	7_3:+55254812	Msa1110390:CDS
AACGAAGAAGGAACAAGAAA+GGG	0.398579	7_3:+55254776	Msa1110390:CDS
ATGCTTGCGGGACCAGGAGC+AGG	0.445349	7_3:+55254714	Msa1110390:CDS
CAACGAAGAAGGAACAAGAA+AGG	0.448446	7_3:+55254775	Msa1110390:CDS
AGTCACTATGCAATGCTTGC+GGG	0.464586	7_3:+55254702	Msa1110390:intron
AATAAGAGTAACGGCGGCGG+CGG	0.473501	7_3:+55254800	Msa1110390:CDS
AAGAAAACTTGTGCCGGTTG+CGG	0.485045	7_3:+55254546	Msa1110390:CDS
TATGCAATGCTTGCGGGACC+AGG	0.509461	7_3:+55254708	Msa1110390:CDS
AGCAAAGGAAACAACGAAGA+AGG	0.525059	7_3:+55254764	Msa1110390:CDS
CAGTCACTATGCAATGCTTG+CGG	0.572070	7_3:+55254701	Msa1110390:intron
AATCCAAAGAAAACTTGTGC+CGG	0.577183	7_3:+55254540	Msa1110390:CDS
GGGAATAAGAGTAACGGCGG+CGG	0.586228	7_3:+55254797	Msa1110390:CDS
TTTGGACCACCACGACATTG+AGG	0.595285	7_3:-55254582	None:intergenic
TCAATGTCGTGGTGGTCCAA+AGG	0.602676	7_3:+55254584	Msa1110390:CDS
CGGCGGCGGAAGCAAAGTTG+GGG	0.613040	7_3:+55254814	Msa1110390:CDS
TCCAAAACTCCTCAATGTCG+TGG	0.628200	7_3:+55254573	Msa1110390:CDS
ACGAAGAAGGAACAAGAAAG+GGG	0.636309	7_3:+55254777	Msa1110390:CDS
GCAATATTAGGGATAAGCAA+AGG	0.637460	7_3:+55254749	Msa1110390:CDS
AGAAAGGGGAATAAGAGTAA+CGG	0.665248	7_3:+55254791	Msa1110390:CDS
AAAACTCCTCAATGTCGTGG+TGG	0.684546	7_3:+55254576	Msa1110390:CDS
AAGGGGAATAAGAGTAACGG+CGG	0.727683	7_3:+55254794	Msa1110390:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	ATCAGAGATTATTGAATTTA+AGG	+	chr7_3:55254852-55254871	Msa1110390:CDS	20.0%
!	AAGAAAAAGAGAGCAATATT+AGG	+	chr7_3:55254737-55254756	Msa1110390:CDS	25.0%
!	AGAAAAAGAGAGCAATATTA+GGG	+	chr7_3:55254738-55254757	Msa1110390:CDS	25.0%
	AACAGAGCTAGTAAAGTTTA+TGG	-	chr7_3:55254505-55254524	None:intergenic	30.0%
	TGATTAGCGTTAATTACCTT+TGG	-	chr7_3:55254603-55254622	None:intergenic	30.0%
	AATCCAAAGAAAACTTGTGC+CGG	+	chr7_3:55254540-55254559	Msa1110390:CDS	35.0%
	GCAATATTAGGGATAAGCAA+AGG	+	chr7_3:55254749-55254768	Msa1110390:CDS	35.0%
	AACGAAGAAGGAACAAGAAA+GGG	+	chr7_3:55254776-55254795	Msa1110390:CDS	35.0%
	AGAAAGGGGAATAAGAGTAA+CGG	+	chr7_3:55254791-55254810	Msa1110390:CDS	35.0%
	AGCAAAGGAAACAACGAAGA+AGG	+	chr7_3:55254764-55254783	Msa1110390:CDS	40.0%
	CAACGAAGAAGGAACAAGAA+AGG	+	chr7_3:55254775-55254794	Msa1110390:CDS	40.0%
	ACGAAGAAGGAACAAGAAAG+GGG	+	chr7_3:55254777-55254796	Msa1110390:CDS	40.0%
!	CAACCGGCACAAGTTTTCTT+TGG	-	chr7_3:55254546-55254565	None:intergenic	45.0%
!!	AAGAAAACTTGTGCCGGTTG+CGG	+	chr7_3:55254546-55254565	Msa1110390:CDS	45.0%
	TCCAAAACTCCTCAATGTCG+TGG	+	chr7_3:55254573-55254592	Msa1110390:CDS	45.0%
!	ACCACGACATTGAGGAGTTT+TGG	-	chr7_3:55254577-55254596	None:intergenic	45.0%
	AAAACTCCTCAATGTCGTGG+TGG	+	chr7_3:55254576-55254595	Msa1110390:CDS	45.0%
	CAGTCACTATGCAATGCTTG+CGG	+	chr7_3:55254701-55254720	Msa1110390:intron	45.0%
	AGTCACTATGCAATGCTTGC+GGG	+	chr7_3:55254702-55254721	Msa1110390:intron	45.0%
!	TCTCTTTTTCTTCCTGCTCC+TGG	-	chr7_3:55254729-55254748	None:intergenic	45.0%
	AAGGGGAATAAGAGTAACGG+CGG	+	chr7_3:55254794-55254813	Msa1110390:CDS	45.0%
!!!	AGTTTTGGACGTTCCGCAAC+CGG	-	chr7_3:55254562-55254581	None:intergenic	50.0%
	TTTGGACCACCACGACATTG+AGG	-	chr7_3:55254585-55254604	None:intergenic	50.0%
	TCAATGTCGTGGTGGTCCAA+AGG	+	chr7_3:55254584-55254603	Msa1110390:CDS	50.0%
	TATGCAATGCTTGCGGGACC+AGG	+	chr7_3:55254708-55254727	Msa1110390:CDS	55.0%
	GGGAATAAGAGTAACGGCGG+CGG	+	chr7_3:55254797-55254816	Msa1110390:CDS	55.0%
	AATAAGAGTAACGGCGGCGG+CGG	+	chr7_3:55254800-55254819	Msa1110390:CDS	55.0%
	ATGCTTGCGGGACCAGGAGC+AGG	+	chr7_3:55254714-55254733	Msa1110390:CDS	65.0%
	GCGGCGGCGGAAGCAAAGTT+GGG	+	chr7_3:55254813-55254832	Msa1110390:CDS	65.0%
	CGGCGGCGGAAGCAAAGTTG+GGG	+	chr7_3:55254814-55254833	Msa1110390:CDS	65.0%
	GGCGGCGGCGGAAGCAAAGT+TGG	+	chr7_3:55254812-55254831	Msa1110390:CDS	70.0%

Chromosome	Type	Strat	End	Strand	Name
chr7_3	gene	55254495	55254898	55254495	ID=Msa1110390;Name=Msa1110390
chr7_3	mRNA	55254495	55254898	55254495	ID=Msa1110390-mRNA-1;Parent=Msa1110390;Name=Msa1110390-mRNA-1;_AED=0.12;_eAED=0.12;_QI=0\|0\|0\|1\|1\|1\|2\|0\|101
chr7_3	exon	55254495	55254605	55254495	ID=Msa1110390-mRNA-1:exon:11616;Parent=Msa1110390-mRNA-1
chr7_3	exon	55254704	55254898	55254704	ID=Msa1110390-mRNA-1:exon:11617;Parent=Msa1110390-mRNA-1
chr7_3	CDS	55254495	55254605	55254495	ID=Msa1110390-mRNA-1:cds;Parent=Msa1110390-mRNA-1
chr7_3	CDS	55254704	55254898	55254704	ID=Msa1110390-mRNA-1:cds;Parent=Msa1110390-mRNA-1

Gene Sequence	>Msa1110390 TTGCATGCCATAAACTTTACTAGCTCTGTTTCATCAGATAACAACAATCCAAAGAAAACTTGTGCCGGTTGCGGAACGTCCAAAACTCCTCAATGTCGTGGTGGTCCAAAGTCACTATGCAATGCTTGCGGGACCAGGAGCAGGAAGAAAAAGAGAGCAATATTAGGGATAAGCAAAGGAAACAACGAAGAAGGAACAAGAAAGGGGAATAAGAGTAACGGCGGCGGCGGAAGCAAAGTTGGGGATAATTTGAACATGAATCAGAGATTATTGAATTTAAGGAAAGAAGTGTTTATGAATCGATAA
Protein sequence	>Msa1110390 LHAINFTSSVSSDNNNPKKTCAGCGTSKTPQCRGGPKSLCNACGTRSRKKKRAILGISKGNNEEGTRKGNKSNGGGGSKVGDNLNMNQRLLNLRKEVFMNR*