AlfalfaGEDB | Msa0543510

M. sativa cultivar zhongmu-4 / Msa0543510

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: PF06203.17

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0543510	KEH28606.1	94.444	72	4	0	1	72	13	84	6.06e-41	140

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0543510	sp\|Q8GXL7\|GAT24_ARATH	77.333	75	15	1	1	73	99	173	2.71e-30	110

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0543510	A0A072UGP1	94.444	72	4	0	1	72	13	84	2.89e-41	140

TFs/TRs:

Gene ID	Type	Classification
Msa0543510	TR	Others

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
Msa0543510	MtrunA17_Chr4g0002261	94.231	52	3	0	20	71	1	52	7.10e-31	102
Msa0543510	MtrunA17_Chr3g0132751	58.333	72	30	0	1	72	89	160	6.59e-21	83.6
Msa0543510	MtrunA17_Chr3g0132761	63.014	73	26	1	1	73	91	162	2.81e-20	81.3
Msa0543510	MtrunA17_Chr4g0049741	52.000	75	33	1	1	72	63	137	6.85e-15	67.0
Msa0543510	MtrunA17_Chr5g0427661	55.405	74	30	2	1	73	94	165	4.13e-14	64.7

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0543510	AT3G21175.3	79.452	73	15	0	1	73	99	171	2.12e-35	119
Msa0543510	AT3G21175.2	79.452	73	15	0	1	73	99	171	3.23e-33	115
Msa0543510	AT3G21175.1	77.333	75	15	1	1	73	99	173	2.75e-31	110
Msa0543510	AT1G51600.1	70.667	75	20	1	1	73	103	177	9.35e-29	103
Msa0543510	AT1G51600.2	70.667	75	20	1	1	73	103	177	9.35e-29	103
Msa0543510	AT4G24470.1	45.946	74	39	1	1	73	103	176	6.47e-13	61.6
Msa0543510	AT4G24470.2	45.946	74	39	1	1	73	103	176	6.47e-13	61.6
Msa0543510	AT4G24470.3	45.946	74	39	1	1	73	103	176	6.66e-13	61.6

Find 17 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TCAATCTGTACTACTGTTAT+TGG	0.235229	4_1:-29860539	Msa0543510:CDS
CAATCTGTACTACTGTTATT+GGG	0.360369	4_1:-29860538	Msa0543510:CDS
ACCTTCCATGCCAATTTCTC+CGG	0.420398	4_1:-29860491	Msa0543510:CDS
TTTCTCCGGACGAAAATAAC+CGG	0.434754	4_1:-29860477	Msa0543510:CDS
ATTGGCATGGAAGGTAAGGT+TGG	0.459291	4_1:+29860499	Msa0543500:intron
AGAAATTGGCATGGAAGGTA+AGG	0.522598	4_1:+29860495	Msa0543500:CDS
TCCGGAGAAATTGGCATGGA+AGG	0.555042	4_1:+29860490	Msa0543500:CDS
TCAATGAAGCTAATCTCTGA+GGG	0.569675	4_1:+29860343	Msa0543500:intron
GGCATGGAAGGTAAGGTTGG+AGG	0.573711	4_1:+29860502	Msa0543500:intron
TAGATTTCGTGAAAAGCGGA+AGG	0.584600	4_1:-29860319	Msa0543510:CDS
TTCGTAAAGAAGTAGCACTA+AGG	0.592761	4_1:-29860263	None:intergenic
TGATTAGATTTCGTGAAAAG+CGG	0.593015	4_1:-29860323	Msa0543510:CDS
ATCAATGAAGCTAATCTCTG+AGG	0.598501	4_1:+29860342	Msa0543500:intron
CTGTACTACTGTTATTGGGA+GGG	0.609779	4_1:-29860534	Msa0543510:CDS
TCTGTACTACTGTTATTGGG+AGG	0.631795	4_1:-29860535	Msa0543510:CDS
TTCGTCCGGAGAAATTGGCA+TGG	0.650275	4_1:+29860486	Msa0543500:CDS
TTCTCCGGACGAAAATAACC+GGG	0.655712	4_1:-29860476	Msa0543510:intron

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	ACATTTTATTAGGGATTTAT+TGG	-	chr4_1:29860420-29860439	Msa0543510:intron	20.0%
!!	GCTCATGAAACATTTTATTA+GGG	-	chr4_1:29860411-29860430	Msa0543510:intron	25.0%
	TCAATCTGTACTACTGTTAT+TGG	-	chr4_1:29860268-29860287	Msa0543510:CDS	30.0%
	CAATCTGTACTACTGTTATT+GGG	-	chr4_1:29860269-29860288	Msa0543510:CDS	30.0%
	GTATTACTACATTACTTGGT+TGG	-	chr4_1:29860353-29860372	Msa0543510:CDS	30.0%
!	GGCTCATGAAACATTTTATT+AGG	-	chr4_1:29860410-29860429	Msa0543510:intron	30.0%
	TGATTAGATTTCGTGAAAAG+CGG	-	chr4_1:29860484-29860503	Msa0543510:CDS	30.0%
!	TTATTTTCGTCCGGAGAAAT+TGG	+	chr4_1:29860329-29860348	Msa0543500:intron	35.0%
	CCAAGTAATGTAGTAATACC+CGG	+	chr4_1:29860352-29860371	Msa0543500:intron	35.0%
!!	GTTCGATTGATAGTTTTTGC+TGG	-	chr4_1:29860377-29860396	Msa0543510:CDS	35.0%
!	GTTTTTGCTGGTCAAATATC+TGG	-	chr4_1:29860389-29860408	Msa0543510:intron	35.0%
	TCAATGAAGCTAATCTCTGA+GGG	+	chr4_1:29860467-29860486	Msa0543500:CDS	35.0%
	ATCAATGAAGCTAATCTCTG+AGG	+	chr4_1:29860468-29860487	Msa0543500:CDS	35.0%
	TCTGTACTACTGTTATTGGG+AGG	-	chr4_1:29860272-29860291	Msa0543510:CDS	40.0%
	CTGTACTACTGTTATTGGGA+GGG	-	chr4_1:29860273-29860292	Msa0543510:CDS	40.0%
	AGAAATTGGCATGGAAGGTA+AGG	+	chr4_1:29860315-29860334	Msa0543500:intron	40.0%
	TTTCTCCGGACGAAAATAAC+CGG	-	chr4_1:29860330-29860349	Msa0543510:CDS	40.0%
!!	AATACCCGGTTATTTTCGTC+CGG	+	chr4_1:29860338-29860357	Msa0543500:intron	40.0%
	CCGGGTATTACTACATTACT+TGG	-	chr4_1:29860349-29860368	Msa0543510:CDS	40.0%
	TAGATTTCGTGAAAAGCGGA+AGG	-	chr4_1:29860488-29860507	Msa0543510:CDS	40.0%
	ATTGGCATGGAAGGTAAGGT+TGG	+	chr4_1:29860311-29860330	Msa0543500:intron	45.0%
	ACCTTCCATGCCAATTTCTC+CGG	-	chr4_1:29860316-29860335	Msa0543510:CDS	45.0%
	TTCTCCGGACGAAAATAACC+GGG	-	chr4_1:29860331-29860350	Msa0543510:CDS	45.0%
	TCCGGAGAAATTGGCATGGA+AGG	+	chr4_1:29860320-29860339	Msa0543500:intron	50.0%
	TTCGTCCGGAGAAATTGGCA+TGG	+	chr4_1:29860324-29860343	Msa0543500:intron	50.0%
!	TGAGGGACGCTGAGTTTTTC+TGG	+	chr4_1:29860450-29860469	Msa0543500:CDS	50.0%
	GGCATGGAAGGTAAGGTTGG+AGG	+	chr4_1:29860308-29860327	Msa0543500:intron	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr4_1	gene	29860266	29860563	29860266	ID=Msa0543510;Name=Msa0543510
chr4_1	mRNA	29860266	29860563	29860266	ID=Msa0543510-mRNA-1;Parent=Msa0543510;Name=Msa0543510-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0\|0\|0\|1\|1\|0.5\|2\|0\|73
chr4_1	exon	29860477	29860563	29860477	ID=Msa0543510-mRNA-1:exon:7909;Parent=Msa0543510-mRNA-1
chr4_1	exon	29860266	29860397	29860266	ID=Msa0543510-mRNA-1:exon:7908;Parent=Msa0543510-mRNA-1
chr4_1	CDS	29860477	29860563	29860477	ID=Msa0543510-mRNA-1:cds;Parent=Msa0543510-mRNA-1
chr4_1	CDS	29860266	29860397	29860266	ID=Msa0543510-mRNA-1:cds;Parent=Msa0543510-mRNA-1

Gene Sequence	>Msa0543510 GTTCAATCTGTACTACTGTTATTGGGAGGGCGTGAAGTACCTCCAACCTTACCTTCCATGCCAATTTCTCCGGACGAAAATAACCGGGGATTTATTGGTACGCCAGAAAAACTCAGCGTCCCTCAGAGATTAGCTTCATTGATTAGATTTCGTGAAAAGCGGAAGGAACGAAATTTTGACAAAAAAATTCGTTATACTGTTCGTAAAGAAGTAGCACTA
Protein sequence	>Msa0543510 VQSVLLLLGGREVPPTLPSMPISPDENNRGFIGTPEKLSVPQRLASLIRFREKRKERNFDKKIRYTVRKEVAL