AlfalfaGEDB | Msa0705400

M. sativa cultivar zhongmu-4 / Msa0705400

KEGG: -
GO: GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0005856 GO:0005938 GO:0006355 GO:0007275 GO:0008150 GO:0009553 GO:0009889 GO:0009890 GO:0009892 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0019219 GO:0019222 GO:0030863 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044448 GO:0044464 GO:0045892 GO:0045934 GO:0048229 GO:0048519 GO:0048523 GO:0048856 GO:0050789 GO:0050794 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0060255 GO:0065007 GO:0070013 GO:0071944 GO:0080090 GO:0099568 GO:1902679 GO:1903506 GO:1903507 GO:2000112 GO:2000113 GO:2001141
PFAM: PF04844.16

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0705400	PNY09705.1	56.757	185	45	3	19	168	156	340	5.84e-55	187

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0705400	sp\|Q8VZN1\|OFP5_ARATH	40.152	132	47	1	69	168	210	341	1.05e-23	98.6

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0705400	A0A2K3P326	56.757	185	45	3	19	168	156	340	2.79e-55	187

TFs/TRs:

Gene ID	Type	Classification
Msa0705400	TF	OFP

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
Msa0705400	MtrunA17_Chr8g0379681	57.714	175	31	3	30	170	154	319	3.19e-56	180
Msa0705400	MtrunA17_Chr2g0284471	38.043	184	66	3	27	170	133	308	3.69e-31	115
Msa0705400	MtrunA17_Chr5g0432531	40.833	120	50	3	70	170	130	247	6.69e-22	89.0
Msa0705400	MtrunA17_Chr4g0013081	61.404	57	22	0	114	170	319	375	3.74e-20	86.3
Msa0705400	MtrunA17_Chr7g0244571	56.452	62	27	0	109	170	281	342	7.14e-20	85.1
Msa0705400	MtrunA17_Chr8g0390531	52.381	63	30	0	108	170	257	319	1.94e-16	75.5
Msa0705400	MtrunA17_Chr4g0075391	33.333	99	55	2	68	166	51	138	3.88e-13	63.5
Msa0705400	MtrunA17_Chr1g0177881	48.214	56	29	0	115	170	108	163	1.62e-12	62.8
Msa0705400	MtrunA17_Chr4g0025901	37.838	74	45	1	95	167	84	157	8.72e-11	57.8

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0705400	AT4G18830.1	40.152	132	47	1	69	168	210	341	1.07e-24	98.6
Msa0705400	AT1G06920.1	54.839	62	28	0	109	170	243	304	5.77e-19	82.4
Msa0705400	AT5G58360.1	56.364	55	24	0	116	170	231	285	1.40e-18	81.3
Msa0705400	AT5G01840.1	57.895	57	24	0	114	170	203	259	6.83e-18	79.0
Msa0705400	AT2G30400.1	57.895	57	24	0	114	170	257	313	1.65e-17	78.6
Msa0705400	AT5G19650.1	48.276	58	30	0	109	166	154	211	8.22e-15	70.1
Msa0705400	AT3G52525.1	50.000	52	26	0	119	170	76	127	7.33e-13	63.5
Msa0705400	AT4G04025.1	48.077	52	27	0	115	166	119	170	2.29e-12	62.4
Msa0705400	AT2G18500.1	41.667	60	35	0	111	170	228	287	4.25e-12	63.5

Find 41 sgRNAs with CRISPR-Local

Find 90 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TGCTGTTGTCAAGTGTTCTT+TGG	0.203486	4_4:+77996541	Msa0705400:intron
AATAACTCTTCTATTTCTTC+TGG	0.254477	4_4:-77996626	None:intergenic
TCTGCTTTGGTTTCCTCCTC+TGG	0.258313	4_4:-77996366	None:intergenic
TTTCAAAGTGTCAAAGAAAA+TGG	0.330050	4_4:+77996271	Msa0705400:CDS
TCATCTTTAGGAACCATCTT+TGG	0.345780	4_4:-77996412	None:intergenic
CTTACCTTGGAACTCTGCTT+TGG	0.374018	4_4:-77996379	None:intergenic
ATATCGTTATCAAAGTATTT+CGG	0.395971	4_4:+77996687	Msa0705400:CDS
TCTCAGCTAAGAGGCTAGAT+TGG	0.398823	4_4:+77996191	Msa0705400:CDS
AACGATATCATGGTATTCAT+TGG	0.403796	4_4:-77996672	None:intergenic
GCCTCTTAGCTGAGAACAAA+TGG	0.412862	4_4:-77996183	None:intergenic
TCCATTTGTTCTCAGCTAAG+AGG	0.425545	4_4:+77996182	Msa0705400:CDS
TGGAGAATGTACTCTTACCT+TGG	0.430524	4_4:-77996392	None:intergenic
GCAACAAGACATTGGGATGA+TGG	0.448165	4_4:-77996220	None:intergenic
ACTCTTCTATTTCTTCTGGT+TGG	0.449506	4_4:-77996622	None:intergenic
ATGGTTCCTAAAGATGAAAT+CGG	0.458231	4_4:+77996418	Msa0705400:CDS
CCTGCTACAATGATGACTTC+AGG	0.462170	4_4:-77995990	None:intergenic
AGGTTCTTCTCCTGTGAGCA+TGG	0.468991	4_4:-77995970	None:intergenic
CAACAAGACATTGGGATGAT+GGG	0.473152	4_4:-77996219	None:intergenic
CAAGAAATGCAACAAGACAT+TGG	0.492676	4_4:-77996228	None:intergenic
TTAAAGCAAAGGTTAACAAA+AGG	0.494673	4_4:+77996314	Msa0705400:CDS
AAGAAATGCAACAAGACATT+GGG	0.508621	4_4:-77996227	None:intergenic
CGTTATCAAAGTATTTCGGC+AGG	0.514978	4_4:+77996691	Msa0705400:CDS
AAGCAAAGGTTAACAAAAGG+AGG	0.522101	4_4:+77996317	Msa0705400:CDS
CCTGAAGTCATCATTGTAGC+AGG	0.522903	4_4:+77995990	Msa0705400:CDS
AAGAGTACATTCTCCAAAGA+TGG	0.525431	4_4:+77996399	Msa0705400:CDS
ATACTTTGATAACGATATCA+TGG	0.526846	4_4:-77996682	None:intergenic
CTTTAGAGATGATCACCCTC+CGG	0.548070	4_4:-77997411	None:intergenic
CGGAGGGTGATCATCTCTAA+AGG	0.549682	4_4:+77997412	Msa0705400:CDS
TGAGGACATGCCATGCTCAC+AGG	0.560857	4_4:+77995960	None:intergenic
ATGTGAGGAGTTTAAAGCAA+AGG	0.562245	4_4:+77996303	Msa0705400:CDS
GAATCTCTAAAATCTTGTTG+TGG	0.573719	4_4:-77996566	None:intergenic
AGCAAAGGTTAACAAAAGGA+GGG	0.601137	4_4:+77996318	Msa0705400:CDS
ACTGGAAATTCAGAAACTGC+AGG	0.618671	4_4:+77996023	Msa0705400:CDS
TTACAGCAATGGAGGCCGGA+GGG	0.626583	4_4:+77997396	Msa0705400:intron
GAAACCAAAGCAGAGTTCCA+AGG	0.627313	4_4:+77996375	Msa0705400:CDS
GTAGCAGGAGTTGTAGACAC+TGG	0.655143	4_4:+77996005	Msa0705400:CDS
TTTACAGCAATGGAGGCCGG+AGG	0.665176	4_4:+77997395	Msa0705400:intron
AACAAGACATTGGGATGATG+GGG	0.681075	4_4:-77996218	None:intergenic
TGAGTAGAGAATTCCAGAGG+AGG	0.682840	4_4:+77996353	Msa0705400:CDS
ATGTGAGTAGAGAATTCCAG+AGG	0.693761	4_4:+77996350	Msa0705400:CDS
AAATGGTGTGAATCAATGTG+AGG	0.719388	4_4:+77996288	Msa0705400:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	ATATATCAATATATATCATA+TGG	+	chr4_4:77996942-77996961	Msa0705400:intron	10.0%
!!	TATATCAATATATATCATAT+GGG	+	chr4_4:77996943-77996962	Msa0705400:intron	10.0%
!!	TTAATAATATTGTAATAGTT+TGG	-	chr4_4:77997003-77997022	None:intergenic	10.0%
!!	ATAAACTACATATTATAACT+TGG	-	chr4_4:77996807-77996826	None:intergenic	15.0%
!!	ATATCAATATATATCATATG+GGG	+	chr4_4:77996944-77996963	Msa0705400:intron	15.0%
!!	AAAAACAAAACAAAACAAAA+AGG	-	chr4_4:77997373-77997392	None:intergenic	15.0%
!!!	TAGTTTTGCTTCTTTTTTTT+TGG	-	chr4_4:77996464-77996483	None:intergenic	20.0%
!!!	ATATCGTTATCAAAGTATTT+CGG	+	chr4_4:77996687-77996706	Msa0705400:CDS	20.0%
!!	ATTTATTACACAAACTAGAT+TGG	-	chr4_4:77996733-77996752	None:intergenic	20.0%
!!	TGATATATTTAAGTGTTTGT+TGG	-	chr4_4:77996930-77996949	None:intergenic	20.0%
!!	AGAAAAACAATAAAAGCAAA+AGG	+	chr4_4:77997144-77997163	Msa0705400:intron	20.0%
!!	TTTCAAAGTGTCAAAGAAAA+TGG	+	chr4_4:77996271-77996290	Msa0705400:CDS	25.0%
!	TTAAAGCAAAGGTTAACAAA+AGG	+	chr4_4:77996314-77996333	Msa0705400:CDS	25.0%
!!	ATTTTTCCGATTTCATCTTT+AGG	-	chr4_4:77996427-77996446	None:intergenic	25.0%
!	AGATGAAATCGGAAAAATAA+AGG	+	chr4_4:77996429-77996448	Msa0705400:CDS	25.0%
!!	AATAACTCTTCTATTTCTTC+TGG	-	chr4_4:77996629-77996648	None:intergenic	25.0%
!!!	ATACTTTGATAACGATATCA+TGG	-	chr4_4:77996685-77996704	None:intergenic	25.0%
!	TCAATATAACTATTCTCTTG+TGG	+	chr4_4:77996829-77996848	Msa0705400:intron	25.0%
!!!	TTTTGACTTCATTATTTGTG+AGG	+	chr4_4:77996861-77996880	Msa0705400:intron	25.0%
!	GGCTAATTTCTATTTATTTC+TGG	-	chr4_4:77997332-77997351	None:intergenic	25.0%
!!!	TTGTTTTTGTTTTACAGCAA+TGG	+	chr4_4:77997385-77997404	Msa0705400:intron	25.0%
	AAGAAATGCAACAAGACATT+GGG	-	chr4_4:77996230-77996249	None:intergenic	30.0%
!	GCATTTCTTGCAGAAATTTT+TGG	+	chr4_4:77996241-77996260	Msa0705400:CDS	30.0%
	ATGGTTCCTAAAGATGAAAT+CGG	+	chr4_4:77996418-77996437	Msa0705400:CDS	30.0%
	ACTAAAGATGAAGAAAGAAG+AGG	+	chr4_4:77996480-77996499	Msa0705400:intron	30.0%
!!	GAATCTCTAAAATCTTGTTG+TGG	-	chr4_4:77996569-77996588	None:intergenic	30.0%
	AACGATATCATGGTATTCAT+TGG	-	chr4_4:77996675-77996694	None:intergenic	30.0%
	TATAACTATTCTCTTGTGGT+TGG	+	chr4_4:77996833-77996852	Msa0705400:intron	30.0%
	TGAAATTTAGGTGGTTAGAT+GGG	-	chr4_4:77997027-77997046	None:intergenic	30.0%
	ATTCACGTCATGTGAAATTT+AGG	-	chr4_4:77997039-77997058	None:intergenic	30.0%
	TTGAGAAGAGGACTATAAAA+AGG	+	chr4_4:77997179-77997198	Msa0705400:intron	30.0%
	CAAACCATGCTTAACAAAAA+AGG	+	chr4_4:77997258-77997277	Msa0705400:intron	30.0%
!!!	TTGACCTTTTTTGTTAAGCA+TGG	-	chr4_4:77997265-77997284	None:intergenic	30.0%
	CTGGAAATATTATCTAGTCA+TGG	-	chr4_4:77997313-77997332	None:intergenic	30.0%
!!!	TTTTTGTTTTACAGCAATGG+AGG	+	chr4_4:77997388-77997407	Msa0705400:intron	30.0%
!	CAGGTGATGTTGATTGAATA+AGG	+	chr4_4:77996042-77996061	Msa0705400:intron	35.0%
	CAAGAAATGCAACAAGACAT+TGG	-	chr4_4:77996231-77996250	None:intergenic	35.0%
!!!	CTTGCAGAAATTTTTGGTCT+TGG	+	chr4_4:77996247-77996266	Msa0705400:CDS	35.0%
	AAATGGTGTGAATCAATGTG+AGG	+	chr4_4:77996288-77996307	Msa0705400:CDS	35.0%
!	ATGTGAGGAGTTTAAAGCAA+AGG	+	chr4_4:77996303-77996322	Msa0705400:CDS	35.0%
	AAGCAAAGGTTAACAAAAGG+AGG	+	chr4_4:77996317-77996336	Msa0705400:CDS	35.0%
	AGCAAAGGTTAACAAAAGGA+GGG	+	chr4_4:77996318-77996337	Msa0705400:CDS	35.0%
!	AAGAGTACATTCTCCAAAGA+TGG	+	chr4_4:77996399-77996418	Msa0705400:CDS	35.0%
!	TCATCTTTAGGAACCATCTT+TGG	-	chr4_4:77996415-77996434	None:intergenic	35.0%
	GAAGAAAGAAGAGGAAATTG+TGG	+	chr4_4:77996489-77996508	Msa0705400:intron	35.0%
!	ACTCTTCTATTTCTTCTGGT+TGG	-	chr4_4:77996625-77996644	None:intergenic	35.0%
	GTGAAATTTAGGTGGTTAGA+TGG	-	chr4_4:77997028-77997047	None:intergenic	35.0%
	TAAGACTCAAAGTTGAGAAG+AGG	+	chr4_4:77997167-77997186	Msa0705400:intron	35.0%
	GAGGACTATAAAAAGGTCTA+AGG	+	chr4_4:77997186-77997205	Msa0705400:intron	35.0%
	TACTCTTATGCAGATTCATG+CGG	-	chr4_4:77997212-77997231	None:intergenic	35.0%
!	TTATCTAGTCATGGAAGTGT+TGG	-	chr4_4:77997304-77997323	None:intergenic	35.0%
	ACTGGAAATTCAGAAACTGC+AGG	+	chr4_4:77996023-77996042	Msa0705400:CDS	40.0%
!!	ATGAGTTTAGCCTTGCTCTT+TGG	-	chr4_4:77996079-77996098	None:intergenic	40.0%
	CAACAACTTCGAATGATTCC+GGG	-	chr4_4:77996146-77996165	None:intergenic	40.0%
	GCAACAACTTCGAATGATTC+CGG	-	chr4_4:77996147-77996166	None:intergenic	40.0%
	TCCATTTGTTCTCAGCTAAG+AGG	+	chr4_4:77996182-77996201	Msa0705400:CDS	40.0%
	AACAAGACATTGGGATGATG+GGG	-	chr4_4:77996221-77996240	None:intergenic	40.0%
	CAACAAGACATTGGGATGAT+GGG	-	chr4_4:77996222-77996241	None:intergenic	40.0%
	ATGTGAGTAGAGAATTCCAG+AGG	+	chr4_4:77996350-77996369	Msa0705400:CDS	40.0%
	TGGAGAATGTACTCTTACCT+TGG	-	chr4_4:77996395-77996414	None:intergenic	40.0%
	GAAAGAAGAGGAAATTGTGG+AGG	+	chr4_4:77996492-77996511	Msa0705400:intron	40.0%
	TTGTGGAGGTAAACAGATGA+AGG	+	chr4_4:77996506-77996525	Msa0705400:intron	40.0%
	TGTGGAGGTAAACAGATGAA+GGG	+	chr4_4:77996507-77996526	Msa0705400:intron	40.0%
	TGCTGTTGTCAAGTGTTCTT+TGG	+	chr4_4:77996541-77996560	Msa0705400:intron	40.0%
!	CGTTATCAAAGTATTTCGGC+AGG	+	chr4_4:77996691-77996710	Msa0705400:CDS	40.0%
!	TCAAAGTATTTCGGCAGGTA+TGG	+	chr4_4:77996696-77996715	Msa0705400:intron	40.0%
	ATATCATATGGGGCATGTAG+AGG	+	chr4_4:77996954-77996973	Msa0705400:intron	40.0%
	TATCATATGGGGCATGTAGA+GGG	+	chr4_4:77996955-77996974	Msa0705400:intron	40.0%
	CACGTCATGTGAAATTTAGG+TGG	-	chr4_4:77997036-77997055	None:intergenic	40.0%
!	AAAATCTGCTATGACTTGGC+TGG	-	chr4_4:77997115-77997134	None:intergenic	40.0%
!	AGCCAAGTCATAGCAGATTT+TGG	+	chr4_4:77997114-77997133	Msa0705400:intron	40.0%
	CACCAAAATCTGCTATGACT+TGG	-	chr4_4:77997119-77997138	None:intergenic	40.0%
	AGGCATGATTGAGTTAAGCA+TGG	-	chr4_4:77997353-77997372	None:intergenic	40.0%
	CCTGCTACAATGATGACTTC+AGG	-	chr4_4:77995993-77996012	None:intergenic	45.0%
	CCTGAAGTCATCATTGTAGC+AGG	+	chr4_4:77995990-77996009	Msa0705400:CDS	45.0%
	TAGTGCATAGCCAAAGAGCA+AGG	+	chr4_4:77996066-77996085	Msa0705400:intron	45.0%
	GAATGATTCCGGGACAAACT+AGG	-	chr4_4:77996136-77996155	None:intergenic	45.0%
	GCCTCTTAGCTGAGAACAAA+TGG	-	chr4_4:77996186-77996205	None:intergenic	45.0%
	TCTCAGCTAAGAGGCTAGAT+TGG	+	chr4_4:77996191-77996210	Msa0705400:CDS	45.0%
	GCAACAAGACATTGGGATGA+TGG	-	chr4_4:77996223-77996242	None:intergenic	45.0%
	TGAGTAGAGAATTCCAGAGG+AGG	+	chr4_4:77996353-77996372	Msa0705400:CDS	45.0%
	GAAACCAAAGCAGAGTTCCA+AGG	+	chr4_4:77996375-77996394	Msa0705400:CDS	45.0%
	CTTACCTTGGAACTCTGCTT+TGG	-	chr4_4:77996382-77996401	None:intergenic	45.0%
!	TGTTTTACAGCAATGGAGGC+CGG	+	chr4_4:77997392-77997411	Msa0705400:intron	45.0%
	GTAGCAGGAGTTGTAGACAC+TGG	+	chr4_4:77996005-77996024	Msa0705400:CDS	50.0%
!	TCTGCTTTGGTTTCCTCCTC+TGG	-	chr4_4:77996369-77996388	None:intergenic	50.0%
	TAGGCAGCAGCTCTCATAGC+AGG	-	chr4_4:77996117-77996136	None:intergenic	55.0%
!	AGCTGCTGCCTAGTTTGTCC+CGG	+	chr4_4:77996125-77996144	Msa0705400:intron	55.0%
	TTTACAGCAATGGAGGCCGG+AGG	+	chr4_4:77997395-77997414	Msa0705400:intron	55.0%
	TTACAGCAATGGAGGCCGGA+GGG	+	chr4_4:77997396-77997415	Msa0705400:intron	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr4_4	gene	77995972	77997431	77995972	ID=Msa0705400;Name=Msa0705400
chr4_4	mRNA	77995972	77997431	77995972	ID=Msa0705400-mRNA-1;Parent=Msa0705400;Name=Msa0705400-mRNA-1;_AED=0.23;_eAED=0.27;_QI=0\|0\|0\|0.5\|1\|1\|4\|0\|177
chr4_4	exon	77995972	77996044	77995972	ID=Msa0705400-mRNA-1:exon:24863;Parent=Msa0705400-mRNA-1
chr4_4	exon	77996179	77996450	77996179	ID=Msa0705400-mRNA-1:exon:24864;Parent=Msa0705400-mRNA-1
chr4_4	exon	77996554	77996712	77996554	ID=Msa0705400-mRNA-1:exon:24865;Parent=Msa0705400-mRNA-1
chr4_4	exon	77997402	77997431	77997402	ID=Msa0705400-mRNA-1:exon:24866;Parent=Msa0705400-mRNA-1
chr4_4	CDS	77995972	77996044	77995972	ID=Msa0705400-mRNA-1:cds;Parent=Msa0705400-mRNA-1
chr4_4	CDS	77996179	77996450	77996179	ID=Msa0705400-mRNA-1:cds;Parent=Msa0705400-mRNA-1
chr4_4	CDS	77996554	77996712	77996554	ID=Msa0705400-mRNA-1:cds;Parent=Msa0705400-mRNA-1
chr4_4	CDS	77997402	77997431	77997402	ID=Msa0705400-mRNA-1:cds;Parent=Msa0705400-mRNA-1

Gene Sequence

>Msa0705400

ATGCTCACAGGAGAAGAACCTGAAGTCATCATTGTAGCAGGAGTTGTAGACACTGGAAATTCAGAAACTGCAGAGTTCCATTTGTTCTCAGCTAAGAGGCTAGATTGGACAACCCCATCATCCCAATGTCTTGTTGCATTTCTTGCAGAAATTTTTGGTCTTGGCTTTCAAAGTGTCAAAGAAAATGGTGTGAATCAATGTGAGGAGTTTAAAGCAAAGGTTAACAAAAGGAGGGAATCAGTTCATGTGAGTAGAGAATTCCAGAGGAGGAAACCAAAGCAGAGTTCCAAGGTAAGAGTACATTCTCCAAAGATGGTTCCTAAAGATGAAATCGGAAAAATAAAGTGTTCTTTGGATCCACAACAAGATTTTAGAGATTCAATGATTGAGATGATCACAGAGAAACAGATAAGCCAACCAGAAGAAATAGAAGAGTTATTAGCATGTTATTTGAGTTTGAATTCCAATGAATACCATGATATCGTTATCAAAGTATTTCGGCAGCAATGGAGGCCGGAGGGTGATCATCTCTAA

Protein sequence

>Msa0705400

MLTGEEPEVIIVAGVVDTGNSETAEFHLFSAKRLDWTTPSSQCLVAFLAEIFGLGFQSVKENGVNQCEEFKAKVNKRRESVHVSREFQRRKPKQSSKVRVHSPKMVPKDEIGKIKCSLDPQQDFRDSMIEMITEKQISQPEEIEELLACYLSLNSNEYHDIVIKVFRQQWRPEGDHL*