AlfalfaGEDB | Msa1110540

M. sativa cultivar zhongmu-4 / Msa1110540

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
Msa1110540	GAU37470.1	76.596	94	18	2	5	95	16	108	2.40e-36	130

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1110540	sp\|Q9FJ10\|GAT16_ARATH	47.619	84	34	2	15	95	32	108	1.11e-13	65.1

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1110540	A0A2Z6NLR0	76.596	94	18	2	5	95	16	108	1.15e-36	130

TFs/TRs:

Gene ID	Type	Classification
Msa1110540	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
Msa1110540	MtrunA17_Chr4g0068031	76.289	97	17	2	5	95	16	112	1.78e-33	112

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1110540	AT5G49300.1	47.619	84	34	2	15	95	32	108	1.13e-14	65.1
Msa1110540	AT3G06740.1	47.561	82	31	3	15	93	37	109	3.42e-14	63.9
Msa1110540	AT4G16141.1	63.830	47	14	1	18	61	36	82	5.98e-13	61.6
Msa1110540	AT3G16870.1	45.455	77	29	3	16	89	39	105	1.52e-11	57.8

Find 27 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
ATCAGAGATTATTGAATTTA+AGG	0.060866	7_3:+55625021	Msa1110540:CDS
AAGAAGAAGAGAGCAATATT+AGG	0.216353	7_3:+55624906	Msa1110540:CDS
AACAGAGCTAGTAAAGTTTA+TGG	0.220023	7_3:-55624671	None:intergenic
ACCACGACATTGAGGAGTTT+TGG	0.295427	7_3:-55624743	None:intergenic
TCTCTTCTTCTTCCTGCTCC+TGG	0.356990	7_3:-55624895	None:intergenic
AGAAGAAGAGAGCAATATTA+GGG	0.387155	7_3:+55624907	Msa1110540:CDS
AACGAAGAAGGAACAAGAAA+GGG	0.398579	7_3:+55624945	Msa1110540:CDS
GCGGCGCAGGAAGCAAAGTT+GGG	0.416991	7_3:+55624982	Msa1110540:CDS
GGCGGCGCAGGAAGCAAAGT+TGG	0.432286	7_3:+55624981	Msa1110540:CDS
ATGCTTGCGGGACCAGGAGC+AGG	0.445349	7_3:+55624883	Msa1110540:CDS
AGTCACTATGCAATGCTTGC+GGG	0.464586	7_3:+55624871	Msa1110540:intron
CAACGAAGAAGGAACAAGAA+AGG	0.479363	7_3:+55624944	Msa1110540:CDS
GGACGTTCCGCAACCGGCAC+AGG	0.481338	7_3:-55624722	None:intergenic
AAGAAAACCTGTGCCGGTTG+CGG	0.485045	7_3:+55624715	Msa1110540:CDS
AATAAGAGTAACGGCGGCGC+AGG	0.488121	7_3:+55624969	Msa1110540:CDS
TATGCAATGCTTGCGGGACC+AGG	0.509461	7_3:+55624877	Msa1110540:CDS
AGCAAAGAAAACAACGAAGA+AGG	0.512688	7_3:+55624933	Msa1110540:CDS
AATCCAAAGAAAACCTGTGC+CGG	0.567940	7_3:+55624709	Msa1110540:CDS
CAGTCACTATGCAATGCTTG+CGG	0.572070	7_3:+55624870	Msa1110540:intron
TTTGGACCACCACGACATTG+AGG	0.595285	7_3:-55624751	None:intergenic
TCAATGTCGTGGTGGTCCAA+AGG	0.602676	7_3:+55624753	Msa1110540:CDS
TCCAAAACTCCTCAATGTCG+TGG	0.628200	7_3:+55624742	Msa1110540:CDS
ACGAAGAAGGAACAAGAAAG+GGG	0.636309	7_3:+55624946	Msa1110540:CDS
CGGCGCAGGAAGCAAAGTTG+GGG	0.652494	7_3:+55624983	Msa1110540:CDS
AGAAAGGGGAATAAGAGTAA+CGG	0.665248	7_3:+55624960	Msa1110540:CDS
AAAACTCCTCAATGTCGTGG+TGG	0.684546	7_3:+55624745	Msa1110540:CDS
AAGGGGAATAAGAGTAACGG+CGG	0.727683	7_3:+55624963	Msa1110540:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	ATCAGAGATTATTGAATTTA+AGG	+	chr7_3:55625021-55625040	Msa1110540:CDS	20.0%
	AACAGAGCTAGTAAAGTTTA+TGG	-	chr7_3:55624674-55624693	None:intergenic	30.0%
	TGATTAGCGTTAATTACCTT+TGG	-	chr7_3:55624772-55624791	None:intergenic	30.0%
	AAGAAGAAGAGAGCAATATT+AGG	+	chr7_3:55624906-55624925	Msa1110540:CDS	30.0%
	AGAAGAAGAGAGCAATATTA+GGG	+	chr7_3:55624907-55624926	Msa1110540:CDS	30.0%
	AGCAAAGAAAACAACGAAGA+AGG	+	chr7_3:55624933-55624952	Msa1110540:CDS	35.0%
	AACGAAGAAGGAACAAGAAA+GGG	+	chr7_3:55624945-55624964	Msa1110540:CDS	35.0%
	AGAAAGGGGAATAAGAGTAA+CGG	+	chr7_3:55624960-55624979	Msa1110540:CDS	35.0%
	AATCCAAAGAAAACCTGTGC+CGG	+	chr7_3:55624709-55624728	Msa1110540:CDS	40.0%
	CAACGAAGAAGGAACAAGAA+AGG	+	chr7_3:55624944-55624963	Msa1110540:CDS	40.0%
	ACGAAGAAGGAACAAGAAAG+GGG	+	chr7_3:55624946-55624965	Msa1110540:CDS	40.0%
	TCCAAAACTCCTCAATGTCG+TGG	+	chr7_3:55624742-55624761	Msa1110540:CDS	45.0%
!	ACCACGACATTGAGGAGTTT+TGG	-	chr7_3:55624746-55624765	None:intergenic	45.0%
	AAAACTCCTCAATGTCGTGG+TGG	+	chr7_3:55624745-55624764	Msa1110540:CDS	45.0%
	CAGTCACTATGCAATGCTTG+CGG	+	chr7_3:55624870-55624889	Msa1110540:intron	45.0%
	AGTCACTATGCAATGCTTGC+GGG	+	chr7_3:55624871-55624890	Msa1110540:intron	45.0%
	AAGGGGAATAAGAGTAACGG+CGG	+	chr7_3:55624963-55624982	Msa1110540:CDS	45.0%
!	CAACCGGCACAGGTTTTCTT+TGG	-	chr7_3:55624715-55624734	None:intergenic	50.0%
!!	AAGAAAACCTGTGCCGGTTG+CGG	+	chr7_3:55624715-55624734	Msa1110540:CDS	50.0%
!!!	AGTTTTGGACGTTCCGCAAC+CGG	-	chr7_3:55624731-55624750	None:intergenic	50.0%
	TTTGGACCACCACGACATTG+AGG	-	chr7_3:55624754-55624773	None:intergenic	50.0%
	TCAATGTCGTGGTGGTCCAA+AGG	+	chr7_3:55624753-55624772	Msa1110540:CDS	50.0%
	TCTCTTCTTCTTCCTGCTCC+TGG	-	chr7_3:55624898-55624917	None:intergenic	50.0%
	TATGCAATGCTTGCGGGACC+AGG	+	chr7_3:55624877-55624896	Msa1110540:CDS	55.0%
	AATAAGAGTAACGGCGGCGC+AGG	+	chr7_3:55624969-55624988	Msa1110540:CDS	55.0%
	GCGGCGCAGGAAGCAAAGTT+GGG	+	chr7_3:55624982-55625001	Msa1110540:CDS	60.0%
	CGGCGCAGGAAGCAAAGTTG+GGG	+	chr7_3:55624983-55625002	Msa1110540:CDS	60.0%
	ATGCTTGCGGGACCAGGAGC+AGG	+	chr7_3:55624883-55624902	Msa1110540:CDS	65.0%
	GGCGGCGCAGGAAGCAAAGT+TGG	+	chr7_3:55624981-55625000	Msa1110540:CDS	65.0%
	GGACGTTCCGCAACCGGCAC+AGG	-	chr7_3:55624725-55624744	None:intergenic	70.0%

Chromosome	Type	Strat	End	Strand	Name
chr7_3	gene	55624664	55625049	55624664	ID=Msa1110540;Name=Msa1110540
chr7_3	mRNA	55624664	55625049	55624664	ID=Msa1110540-mRNA-1;Parent=Msa1110540;Name=Msa1110540-mRNA-1;_AED=0.15;_eAED=0.15;_QI=0\|0\|0\|1\|1\|1\|2\|0\|95
chr7_3	exon	55624664	55624774	55624664	ID=Msa1110540-mRNA-1:exon:11683;Parent=Msa1110540-mRNA-1
chr7_3	exon	55624873	55625049	55624873	ID=Msa1110540-mRNA-1:exon:11684;Parent=Msa1110540-mRNA-1
chr7_3	CDS	55624664	55624774	55624664	ID=Msa1110540-mRNA-1:cds;Parent=Msa1110540-mRNA-1
chr7_3	CDS	55624873	55625049	55624873	ID=Msa1110540-mRNA-1:cds;Parent=Msa1110540-mRNA-1

Gene Sequence	>Msa1110540 TTGCATGCCATAAACTTTACTAGCTCTGTTTCATCAGATAACAACAATCCAAAGAAAACCTGTGCCGGTTGCGGAACGTCCAAAACTCCTCAATGTCGTGGTGGTCCAAAGTCACTATGCAATGCTTGCGGGACCAGGAGCAGGAAGAAGAAGAGAGCAATATTAGGGATAAGCAAAGAAAACAACGAAGAAGGAACAAGAAAGGGGAATAAGAGTAACGGCGGCGCAGGAAGCAAAGTTGGGGATAATTTGAACATGAATCAGAGATTATTGAATTTAAGGAAATAA
Protein sequence	>Msa1110540 LHAINFTSSVSSDNNNPKKTCAGCGTSKTPQCRGGPKSLCNACGTRSRKKKRAILGISKENNEEGTRKGNKSNGGAGSKVGDNLNMNQRLLNLRK*