AlfalfaGEDB | Msa1110480

M. sativa cultivar zhongmu-4 / Msa1110480

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
Msa1110480	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
Msa1110480	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
Msa1110480	A0A2Z6NLR0	76.596	94	18	2	5	95	16	108	1.15e-36	130

TFs/TRs:

Gene ID	Type	Classification
Msa1110480	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
Msa1110480	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
Msa1110480	AT5G49300.1	47.619	84	34	2	15	95	32	108	1.13e-14	65.1
Msa1110480	AT3G06740.1	47.561	82	31	3	15	93	37	109	3.42e-14	63.9
Msa1110480	AT4G16141.1	63.830	47	14	1	18	61	36	82	5.98e-13	61.6
Msa1110480	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:+55489650	Msa1110480:CDS
AAGAAGAAGAGAGCAATATT+AGG	0.216353	7_3:+55489535	Msa1110480:CDS
AACAGAGCTAGTAAAGTTTA+TGG	0.220023	7_3:-55489300	None:intergenic
ACCACGACATTGAGGAGTTT+TGG	0.295427	7_3:-55489372	None:intergenic
TCTCTTCTTCTTCCTGCTCC+TGG	0.356990	7_3:-55489524	None:intergenic
AGAAGAAGAGAGCAATATTA+GGG	0.387155	7_3:+55489536	Msa1110480:CDS
AACGAAGAAGGAACAAGAAA+GGG	0.398579	7_3:+55489574	Msa1110480:CDS
GCGGCGCAGGAAGCAAAGTT+GGG	0.416991	7_3:+55489611	Msa1110480:CDS
GGCGGCGCAGGAAGCAAAGT+TGG	0.432286	7_3:+55489610	Msa1110480:CDS
ATGCTTGCGGGACCAGGAGC+AGG	0.445349	7_3:+55489512	Msa1110480:CDS
AGTCACTATGCAATGCTTGC+GGG	0.464586	7_3:+55489500	Msa1110480:intron
CAACGAAGAAGGAACAAGAA+AGG	0.479363	7_3:+55489573	Msa1110480:CDS
GGACGTTCCGCAACCGGCAC+AGG	0.481338	7_3:-55489351	None:intergenic
AAGAAAACCTGTGCCGGTTG+CGG	0.485045	7_3:+55489344	Msa1110480:CDS
AATAAGAGTAACGGCGGCGC+AGG	0.488121	7_3:+55489598	Msa1110480:CDS
TATGCAATGCTTGCGGGACC+AGG	0.509461	7_3:+55489506	Msa1110480:CDS
AGCAAAGAAAACAACGAAGA+AGG	0.512688	7_3:+55489562	Msa1110480:CDS
AATCCAAAGAAAACCTGTGC+CGG	0.567940	7_3:+55489338	Msa1110480:CDS
CAGTCACTATGCAATGCTTG+CGG	0.572070	7_3:+55489499	Msa1110480:intron
TTTGGACCACCACGACATTG+AGG	0.595285	7_3:-55489380	None:intergenic
TCAATGTCGTGGTGGTCCAA+AGG	0.602676	7_3:+55489382	Msa1110480:CDS
TCCAAAACTCCTCAATGTCG+TGG	0.628200	7_3:+55489371	Msa1110480:CDS
ACGAAGAAGGAACAAGAAAG+GGG	0.636309	7_3:+55489575	Msa1110480:CDS
CGGCGCAGGAAGCAAAGTTG+GGG	0.652494	7_3:+55489612	Msa1110480:CDS
AGAAAGGGGAATAAGAGTAA+CGG	0.665248	7_3:+55489589	Msa1110480:CDS
AAAACTCCTCAATGTCGTGG+TGG	0.684546	7_3:+55489374	Msa1110480:CDS
AAGGGGAATAAGAGTAACGG+CGG	0.727683	7_3:+55489592	Msa1110480:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	ATCAGAGATTATTGAATTTA+AGG	+	chr7_3:55489650-55489669	Msa1110480:CDS	20.0%
	AACAGAGCTAGTAAAGTTTA+TGG	-	chr7_3:55489303-55489322	None:intergenic	30.0%
	TGATTAGCGTTAATTACCTT+TGG	-	chr7_3:55489401-55489420	None:intergenic	30.0%
	AAGAAGAAGAGAGCAATATT+AGG	+	chr7_3:55489535-55489554	Msa1110480:CDS	30.0%
	AGAAGAAGAGAGCAATATTA+GGG	+	chr7_3:55489536-55489555	Msa1110480:CDS	30.0%
	AGCAAAGAAAACAACGAAGA+AGG	+	chr7_3:55489562-55489581	Msa1110480:CDS	35.0%
	AACGAAGAAGGAACAAGAAA+GGG	+	chr7_3:55489574-55489593	Msa1110480:CDS	35.0%
	AGAAAGGGGAATAAGAGTAA+CGG	+	chr7_3:55489589-55489608	Msa1110480:CDS	35.0%
	AATCCAAAGAAAACCTGTGC+CGG	+	chr7_3:55489338-55489357	Msa1110480:CDS	40.0%
	CAACGAAGAAGGAACAAGAA+AGG	+	chr7_3:55489573-55489592	Msa1110480:CDS	40.0%
	ACGAAGAAGGAACAAGAAAG+GGG	+	chr7_3:55489575-55489594	Msa1110480:CDS	40.0%
	TCCAAAACTCCTCAATGTCG+TGG	+	chr7_3:55489371-55489390	Msa1110480:CDS	45.0%
!	ACCACGACATTGAGGAGTTT+TGG	-	chr7_3:55489375-55489394	None:intergenic	45.0%
	AAAACTCCTCAATGTCGTGG+TGG	+	chr7_3:55489374-55489393	Msa1110480:CDS	45.0%
	CAGTCACTATGCAATGCTTG+CGG	+	chr7_3:55489499-55489518	Msa1110480:intron	45.0%
	AGTCACTATGCAATGCTTGC+GGG	+	chr7_3:55489500-55489519	Msa1110480:intron	45.0%
	AAGGGGAATAAGAGTAACGG+CGG	+	chr7_3:55489592-55489611	Msa1110480:CDS	45.0%
!	CAACCGGCACAGGTTTTCTT+TGG	-	chr7_3:55489344-55489363	None:intergenic	50.0%
!!	AAGAAAACCTGTGCCGGTTG+CGG	+	chr7_3:55489344-55489363	Msa1110480:CDS	50.0%
!!!	AGTTTTGGACGTTCCGCAAC+CGG	-	chr7_3:55489360-55489379	None:intergenic	50.0%
	TTTGGACCACCACGACATTG+AGG	-	chr7_3:55489383-55489402	None:intergenic	50.0%
	TCAATGTCGTGGTGGTCCAA+AGG	+	chr7_3:55489382-55489401	Msa1110480:CDS	50.0%
	TCTCTTCTTCTTCCTGCTCC+TGG	-	chr7_3:55489527-55489546	None:intergenic	50.0%
	TATGCAATGCTTGCGGGACC+AGG	+	chr7_3:55489506-55489525	Msa1110480:CDS	55.0%
	AATAAGAGTAACGGCGGCGC+AGG	+	chr7_3:55489598-55489617	Msa1110480:CDS	55.0%
	GCGGCGCAGGAAGCAAAGTT+GGG	+	chr7_3:55489611-55489630	Msa1110480:CDS	60.0%
	CGGCGCAGGAAGCAAAGTTG+GGG	+	chr7_3:55489612-55489631	Msa1110480:CDS	60.0%
	ATGCTTGCGGGACCAGGAGC+AGG	+	chr7_3:55489512-55489531	Msa1110480:CDS	65.0%
	GGCGGCGCAGGAAGCAAAGT+TGG	+	chr7_3:55489610-55489629	Msa1110480:CDS	65.0%
	GGACGTTCCGCAACCGGCAC+AGG	-	chr7_3:55489354-55489373	None:intergenic	70.0%

Chromosome	Type	Strat	End	Strand	Name
chr7_3	gene	55489293	55489678	55489293	ID=Msa1110480;Name=Msa1110480
chr7_3	mRNA	55489293	55489678	55489293	ID=Msa1110480-mRNA-1;Parent=Msa1110480;Name=Msa1110480-mRNA-1;_AED=0.15;_eAED=0.15;_QI=0\|0\|0\|1\|1\|1\|2\|0\|95
chr7_3	exon	55489293	55489403	55489293	ID=Msa1110480-mRNA-1:exon:11642;Parent=Msa1110480-mRNA-1
chr7_3	exon	55489502	55489678	55489502	ID=Msa1110480-mRNA-1:exon:11643;Parent=Msa1110480-mRNA-1
chr7_3	CDS	55489293	55489403	55489293	ID=Msa1110480-mRNA-1:cds;Parent=Msa1110480-mRNA-1
chr7_3	CDS	55489502	55489678	55489502	ID=Msa1110480-mRNA-1:cds;Parent=Msa1110480-mRNA-1

Gene Sequence	>Msa1110480 TTGCATGCCATAAACTTTACTAGCTCTGTTTCATCAGATAACAACAATCCAAAGAAAACCTGTGCCGGTTGCGGAACGTCCAAAACTCCTCAATGTCGTGGTGGTCCAAAGTCACTATGCAATGCTTGCGGGACCAGGAGCAGGAAGAAGAAGAGAGCAATATTAGGGATAAGCAAAGAAAACAACGAAGAAGGAACAAGAAAGGGGAATAAGAGTAACGGCGGCGCAGGAAGCAAAGTTGGGGATAATTTGAACATGAATCAGAGATTATTGAATTTAAGGAAATAA
Protein sequence	>Msa1110480 LHAINFTSSVSSDNNNPKKTCAGCGTSKTPQCRGGPKSLCNACGTRSRKKKRAILGISKENNEEGTRKGNKSNGGAGSKVGDNLNMNQRLLNLRK*