AlfalfaGEDB | Msa0226840

M. sativa cultivar zhongmu-4 / Msa0226840

KEGG: K18490
GO: GO:0003674 GO:0003700 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0140110 GO:1903506 GO:2000112 GO:2001141
PFAM: PF00046.32

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0226840	AES78040.1	66.038	159	41	3	5	150	1	159	4.81e-61	196

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0226840	sp\|O81788\|WOX13_ARATH	50.676	148	47	2	19	140	37	184	1.09e-37	132

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0226840	G7KVS3	66.038	159	41	3	5	150	1	159	2.30e-61	196

TFs/TRs:

Gene ID	Type	Classification
Msa0226840	TF	HB-WOX

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
Msa0226840	MtrunA17_Chr7g0222981	66.038	159	41	3	5	150	1	159	4.42e-65	196
Msa0226840	MtrunA17_Chr1g0212511	55.191	183	51	5	1	153	1	182	1.65e-54	172
Msa0226840	MtrunA17_Chr3g0144021	49.660	147	47	3	16	136	16	161	9.58e-42	138
Msa0226840	MtrunA17_Chr4g0043891	39.506	81	42	1	60	140	8	81	1.08e-13	66.2
Msa0226840	MtrunA17_Chr8g0392991	38.710	93	53	2	60	152	96	184	1.35e-13	67.0
Msa0226840	MtrunA17_Chr2g0283141	41.935	62	36	0	60	121	55	116	2.06e-12	63.5
Msa0226840	MtrunA17_Chr7g0223471	40.625	64	38	0	58	121	45	108	1.03e-11	61.6
Msa0226840	MtrunA17_Chr5g0436661	28.723	94	67	0	28	121	1	94	1.87e-11	59.3
Msa0226840	MtrunA17_Chr7g0238431	30.612	98	68	0	60	157	8	105	5.91e-11	58.2

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0226840	AT4G35550.1	50.676	148	47	2	19	140	37	184	1.11e-38	132
Msa0226840	AT1G20700.3	46.400	125	43	2	19	119	30	154	2.20e-33	117
Msa0226840	AT1G20700.1	46.400	125	43	2	19	119	30	154	2.36e-33	117
Msa0226840	AT1G20710.1	40.136	147	63	4	7	128	1	147	4.23e-26	98.2
Msa0226840	AT1G20700.2	57.812	64	27	0	56	119	29	92	3.03e-24	92.0
Msa0226840	AT5G45980.1	37.209	86	51	1	56	138	51	136	7.80e-14	67.8
Msa0226840	AT3G18010.1	41.935	62	36	0	60	121	76	137	2.27e-12	63.9
Msa0226840	AT2G33880.1	41.935	62	36	0	60	121	55	116	4.16e-12	63.2
Msa0226840	AT2G33880.2	41.935	62	36	0	60	121	55	116	4.61e-12	63.2
Msa0226840	AT2G01500.1	43.636	55	31	0	60	114	61	115	1.64e-11	60.8
Msa0226840	AT5G05770.1	31.915	94	64	0	60	153	29	122	1.86e-11	58.5
Msa0226840	AT2G28610.1	40.323	62	37	0	60	121	8	69	2.51e-11	60.1

Find 22 sgRNAs with CRISPR-Local

Find 35 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
CTGAGACCAATGTATATAAT+TGG	0.221984	2_1:-77305524	Msa0226840:CDS
TATAAGCTACATTCTTTAGT+TGG	0.363091	2_1:+77305359	None:intergenic
ACCTGTGCAACTTCAAACTA+TGG	0.365268	2_1:-77305634	Msa0226840:CDS
TCCAAGCAAGGAAAAGATAA+AGG	0.385115	2_1:-77305583	Msa0226840:CDS
CTCAGAAATTTGTCCGTGCT+TGG	0.426170	2_1:+77305542	None:intergenic
GAAAGGCATGGAGAACTTGA+TGG	0.451939	2_1:-77305968	None:intergenic
TTGGATTAGATACGAATTCA+AGG	0.467702	2_1:-77305674	Msa0226840:intron
TACGAATTCAAGGCACCGTT+GGG	0.484858	2_1:-77305664	Msa0226840:CDS
GCACAGGTGTTGGCGCCCAA+CGG	0.514889	2_1:+77305649	None:intergenic
ATACGAATTCAAGGCACCGT+TGG	0.517633	2_1:-77305665	Msa0226840:CDS
TCCATAGTTTGAAGTTGCAC+AGG	0.521708	2_1:+77305633	None:intergenic
GTTTGAAGTTGCACAGGTGT+TGG	0.543910	2_1:+77305639	None:intergenic
ACTTACCAGTGCGTCGACCT+TGG	0.555081	2_1:+77305818	None:intergenic
GCGAATATTTGAAGCTGAGA+CGG	0.563300	2_1:-77305610	Msa0226840:CDS
CTGAAACCAATTATATACAT+TGG	0.563327	2_1:+77305518	None:intergenic
TGTTAATGTTGAATCAGAAG+TGG	0.571771	2_1:-77305457	Msa0226840:CDS
GGTTTCAGAACAGACGTGCT+AGG	0.577434	2_1:-77305503	Msa0226840:CDS
GTTGTTGATTTAGCCAAGCA+CGG	0.577536	2_1:-77305555	Msa0226840:CDS
TGAGACGGAGTCTCCAAGCA+AGG	0.649464	2_1:-77305595	Msa0226840:CDS
CTTATCATCAGAATCAACCT+CGG	0.655992	2_1:+77305431	None:intergenic
CTAGGTACAAGAGAAAGCAT+CGG	0.670064	2_1:-77305485	Msa0226840:CDS
TGAATCAGAAGTGGAGACCG+AGG	0.711591	2_1:-77305448	Msa0226840:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	TAATTAAATGTGATACTACA+TGG	+	chr2_1:77305575-77305594	None:intergenic	20.0%
!!	ATGTAGTATCACATTTAATT+AGG	-	chr2_1:77305574-77305593	Msa0226840:CDS	20.0%
!!	AACCAAATAAAGTAATAATC+TGG	+	chr2_1:77305607-77305626	None:intergenic	20.0%
!!!	CATAAACTGCAATTTGTTTT+CGG	+	chr2_1:77305460-77305479	None:intergenic	25.0%
!	CTCCAGATTATTACTTTATT+TGG	-	chr2_1:77305602-77305621	Msa0226840:CDS	25.0%
!	AAAGAAAGAGTAACTGAATT+AGG	+	chr2_1:77305638-77305657	None:intergenic	25.0%
!!	CAGTTACTCTTTCTTTTTAT+TGG	-	chr2_1:77305642-77305661	Msa0226840:CDS	25.0%
!	CTGAAACCAATTATATACAT+TGG	+	chr2_1:77305820-77305839	None:intergenic	25.0%
!!	CTTGGTTTTTATGCATTTGA+AGG	+	chr2_1:77305502-77305521	None:intergenic	30.0%
	CTTCAAATGCATAAAAACCA+AGG	-	chr2_1:77305500-77305519	Msa0226840:CDS	30.0%
!	TTGGATTAGATACGAATTCA+AGG	-	chr2_1:77305661-77305680	Msa0226840:CDS	30.0%
	CTGAGACCAATGTATATAAT+TGG	-	chr2_1:77305811-77305830	Msa0226840:intron	30.0%
	TGTTAATGTTGAATCAGAAG+TGG	-	chr2_1:77305878-77305897	Msa0226840:CDS	30.0%
	TCCAAGCAAGGAAAAGATAA+AGG	-	chr2_1:77305752-77305771	Msa0226840:intron	35.0%
!	TCCTTTATCTTTTCCTTGCT+TGG	+	chr2_1:77305756-77305775	None:intergenic	35.0%
	CTTATCATCAGAATCAACCT+CGG	+	chr2_1:77305907-77305926	None:intergenic	35.0%
	ACCTGTGCAACTTCAAACTA+TGG	-	chr2_1:77305701-77305720	Msa0226840:intron	40.0%
!	TCCATAGTTTGAAGTTGCAC+AGG	+	chr2_1:77305705-77305724	None:intergenic	40.0%
!	GCGAATATTTGAAGCTGAGA+CGG	-	chr2_1:77305725-77305744	Msa0226840:intron	40.0%
!!	GTTGTTGATTTAGCCAAGCA+CGG	-	chr2_1:77305780-77305799	Msa0226840:intron	40.0%
!	CTAGGTACAAGAGAAAGCAT+CGG	-	chr2_1:77305850-77305869	Msa0226840:CDS	40.0%
!	TCGACGCACTGGTAAGTTTA+GGG	-	chr2_1:77305523-77305542	Msa0226840:CDS	45.0%
!!	ATACGAATTCAAGGCACCGT+TGG	-	chr2_1:77305670-77305689	Msa0226840:intron	45.0%
!!	TACGAATTCAAGGCACCGTT+GGG	-	chr2_1:77305671-77305690	Msa0226840:intron	45.0%
!	GTTTGAAGTTGCACAGGTGT+TGG	+	chr2_1:77305699-77305718	None:intergenic	45.0%
	CTCAGAAATTTGTCCGTGCT+TGG	+	chr2_1:77305796-77305815	None:intergenic	45.0%
!!	TGAGTTTTGTGCGTCTCAAC+TGG	-	chr2_1:77305935-77305954	Msa0226840:CDS	45.0%
	AAAAACCAAGGTCGACGCAC+TGG	-	chr2_1:77305512-77305531	Msa0226840:CDS	50.0%
!	GTCGACGCACTGGTAAGTTT+AGG	-	chr2_1:77305522-77305541	Msa0226840:CDS	50.0%
	GGTTTCAGAACAGACGTGCT+AGG	-	chr2_1:77305832-77305851	Msa0226840:CDS	50.0%
	TGAATCAGAAGTGGAGACCG+AGG	-	chr2_1:77305887-77305906	Msa0226840:CDS	50.0%
!!!	GCGTCTCAACTGGCTTTTGA+TGG	-	chr2_1:77305945-77305964	Msa0226840:CDS	50.0%
!	ACTTACCAGTGCGTCGACCT+TGG	+	chr2_1:77305520-77305539	None:intergenic	55.0%
	TGAGACGGAGTCTCCAAGCA+AGG	-	chr2_1:77305740-77305759	Msa0226840:intron	55.0%
!!	GCACAGGTGTTGGCGCCCAA+CGG	+	chr2_1:77305689-77305708	None:intergenic	65.0%

Chromosome	Type	Strat	End	Strand	Name
chr2_1	gene	77305374	77305983	77305374	ID=Msa0226840;Name=Msa0226840
chr2_1	mRNA	77305374	77305983	77305374	ID=Msa0226840-mRNA-1;Parent=Msa0226840;Name=Msa0226840-mRNA-1;_AED=0.08;_eAED=0.08;_QI=0\|0\|0\|1\|1\|1\|2\|0\|157
chr2_1	exon	77305824	77305983	77305824	ID=Msa0226840-mRNA-1:exon:23594;Parent=Msa0226840-mRNA-1
chr2_1	exon	77305374	77305687	77305374	ID=Msa0226840-mRNA-1:exon:23593;Parent=Msa0226840-mRNA-1
chr2_1	CDS	77305824	77305983	77305824	ID=Msa0226840-mRNA-1:cds;Parent=Msa0226840-mRNA-1
chr2_1	CDS	77305374	77305687	77305374	ID=Msa0226840-mRNA-1:cds;Parent=Msa0226840-mRNA-1

Gene Sequence

>Msa0226840

ATGGAGAACTTGATGGAGTTGCAGAAGAATAGTTTGAATCAGAACGTAAATGTTGTGATGACTGATGAACAAGTCGAAACTCTCCGAAAACAAATTGCAGTTTATGCTGTCATCTCTGAACAACTCCTTCAAATGCATAAAAACCAAGGTCGACGCACTGATACGAATTCAAGGCACCGTTGGGCGCCAACACCTGTGCAACTTCAAACTATGGAGCGAATATTTGAAGCTGAGACGGAGTCTCCAAGCAAGGAAAAGATAAAGGAGATTGTTGTTGATTTAGCCAAGCACGGACAAATTTCTGAGACCAATGTATATAATTGGTTTCAGAACAGACGTGCTAGGTACAAGAGAAAGCATCGGAGTAGTGTTAATGTTGAATCAGAAGTGGAGACCGAGGTTGATTCTGATGATAAGAAGATCGATGAGTTTTGTGCGTCTCAACTGGCTTTTGATGGTATGCTGTCCAACTAA

Protein sequence

>Msa0226840

MENLMELQKNSLNQNVNVVMTDEQVETLRKQIAVYAVISEQLLQMHKNQGRRTDTNSRHRWAPTPVQLQTMERIFEAETESPSKEKIKEIVVDLAKHGQISETNVYNWFQNRRARYKRKHRSSVNVESEVETEVDSDDKKIDEFCASQLAFDGMLSN*