AlfalfaGEDB | Msa0053300

M. sativa cultivar zhongmu-4 / Msa0053300

KEGG: K21630
GO: GO:0000003 GO:0000976 GO:0000977 GO:0000981 GO:0001012 GO:0001067 GO:0001085 GO:0001228 GO:0003006 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:0007275 GO:0008134 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009790 GO:0009791 GO:0009793 GO:0009889 GO:0009891 GO:0009893 GO:0009908 GO:0009909 GO:0009987 GO:0010154 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0016070 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0022414 GO:0030154 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032501 GO:0032502 GO:0032774 GO:0032991 GO:0034641 GO:0034645 GO:0034654 GO:0040034 GO:0042802 GO:0042803 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:0046983 GO:0048316 GO:0048367 GO:0048437 GO:0048506 GO:0048509 GO:0048510 GO:0048518 GO:0048522 GO:0048580 GO:0048608 GO:0048731 GO:0048831 GO:0048856 GO:0048869 GO:0050789 GO:0050793 GO:0050794 GO:0051171 GO:0051173 GO:0051239 GO:0051252 GO:0051254 GO:0060255 GO:0061458 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0090567 GO:0097159 GO:0097659 GO:0099402 GO:0140110 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1902680 GO:1903506 GO:1903508 GO:1990837 GO:2000026 GO:2000112 GO:2000241 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
Msa0053300	AES59248.1	53.571	112	35	5	9	112	2	104	2.32e-19	87.4

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0053300	sp\|Q6QPM2\|GAT19_ARATH	52.000	50	24	0	68	117	75	124	6.28e-11	60.5

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0053300	G7I9Y7	53.571	112	35	5	9	112	2	104	1.11e-19	87.4

TFs/TRs:

Gene ID	Type	Classification
Msa0053300	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
Msa0053300	MtrunA17_Chr1g0151471	53.571	112	35	5	9	112	2	104	2.14e-23	87.4
Msa0053300	MtrunA17_Chr1g0151461	43.158	95	45	2	27	112	140	234	9.69e-15	68.9
Msa0053300	MtrunA17_Chr7g0271861	44.068	59	33	0	68	126	22	80	2.00e-11	57.4
Msa0053300	MtrunA17_Chr2g0299081	75.000	32	8	0	66	97	167	198	8.95e-11	57.8

Query id	Subject id	identity %	alignment length	mismatches	q. start	q. end	s. start	s. end	e-value	bit score
Msa0053300	AT4G36620.1	52.000	50	24	68	117	75	124	6.39e-12	60.5
Msa0053300	AT5G26930.1	58.974	39	16	64	102	22	60	1.00e-11	58.2
Msa0053300	AT2G18380.1	54.000	50	23	68	117	92	141	3.14e-11	58.5

Find 27 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TTCAGTGTCAAGAGACTTAT+TGG	0.157774	1_2:-7716253	None:intergenic
TTCTTCTTTGTGGCTGGAAC+TGG	0.239072	1_2:-7715779	None:intergenic
AGTATTCGCCATTGCCCTTT+TGG	0.253039	1_2:-7715890	None:intergenic
ATACGAACACTACTCCTCTT+TGG	0.387924	1_2:+7715978	Msa0053300:CDS
GAATACTATATCCAAGGAAT+TGG	0.396437	1_2:+7715906	Msa0053300:CDS
TAAGTCTCTTGACACTGAAA+AGG	0.427389	1_2:+7716257	Msa0053300:CDS
TTGCCTCTTCCCTTCTTCGT+CGG	0.477939	1_2:-7716227	None:intergenic
ACCGAATACGAATACCCAAA+AGG	0.493067	1_2:+7715875	Msa0053300:CDS
GGAGGGCTGAACCAATTCCT+TGG	0.517307	1_2:-7715917	None:intergenic
AAGTCTCTTGACACTGAAAA+GGG	0.520040	1_2:+7716258	Msa0053300:CDS
TCTTTGGAGGAGTGATCCTA+CGG	0.527332	1_2:+7715994	Msa0053300:CDS
CCGAATACGAATACCCAAAA+GGG	0.528839	1_2:+7715876	Msa0053300:CDS
CTTGACACTGAAAAGGGAAA+GGG	0.539575	1_2:+7716264	Msa0053300:CDS
ATGTGGACTCCGACGAAGAA+GGG	0.540307	1_2:+7716218	Msa0053300:CDS
TCTTGACACTGAAAAGGGAA+AGG	0.549774	1_2:+7716263	Msa0053300:CDS
CGAACACTACTCCTCTTTGG+AGG	0.558044	1_2:+7715981	Msa0053300:CDS
GAGTGATCCTACGGGTTCCA+AGG	0.561497	1_2:+7716003	Msa0053300:CDS
ACTGAAAAGGGAAAGGGAAA+CGG	0.566578	1_2:+7716270	Msa0053300:CDS
CATGTGGACTCCGACGAAGA+AGG	0.573346	1_2:+7716217	Msa0053300:CDS
ACTCCGACGAAGAAGGGAAG+AGG	0.589069	1_2:+7716224	Msa0053300:CDS
CAGTCGTTGTGCAATGCATG+TGG	0.610062	1_2:+7716201	Msa0053300:intron
ACGAATACCCAAAAGGGCAA+TGG	0.610371	1_2:+7715882	Msa0053300:CDS
CTTTGGAGGAGTGATCCTAC+GGG	0.615002	1_2:+7715995	Msa0053300:CDS
AATGGCGAATACTATATCCA+AGG	0.653439	1_2:+7715900	Msa0053300:CDS
ATCGCAATCGAAACAAACCC+TGG	0.664892	1_2:-7715957	None:intergenic
GTAGGATCACTCCTCCAAAG+AGG	0.676661	1_2:-7715992	None:intergenic
GTAATTACCTTGGAACCCGT+AGG	0.686052	1_2:-7716010	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	AATTTGATAGTAAATAAGTT+GGG	-	chr1_2:7716051-7716070	None:intergenic	15.0%
!!!	AAATTTGATAGTAAATAAGT+TGG	-	chr1_2:7716052-7716071	None:intergenic	15.0%
!!!	TATTCTATACTTTTTTTTGT+TGG	+	chr1_2:7716096-7716115	Msa0053300:intron	15.0%
!!!	AGCAGTTTTTATTTTCTTTT+TGG	-	chr1_2:7715855-7715874	None:intergenic	20.0%
!!!	ATTTGATAGTAAATAAGTTG+GGG	-	chr1_2:7716050-7716069	None:intergenic	20.0%
!!	ATAGTTAACAAGAAATATGT+TGG	+	chr1_2:7716176-7716195	Msa0053300:intron	20.0%
!	TTGAGATTAAGTAATTACCT+TGG	-	chr1_2:7716023-7716042	None:intergenic	25.0%
!!!	AGCAGTTTTTTTCTTCTTTG+TGG	-	chr1_2:7715792-7715811	None:intergenic	30.0%
!!	AGCAACTGATTTCTTCTTTT+TGG	-	chr1_2:7715825-7715844	None:intergenic	30.0%
	GAATACTATATCCAAGGAAT+TGG	+	chr1_2:7715906-7715925	Msa0053300:CDS	30.0%
!!!	GTTTTTTTCTTCTTTGTGGC+TGG	-	chr1_2:7715788-7715807	None:intergenic	35.0%
	AATGGCGAATACTATATCCA+AGG	+	chr1_2:7715900-7715919	Msa0053300:CDS	35.0%
!!	TTGTGTTTTTACTAGGAGGA+GGG	-	chr1_2:7715937-7715956	None:intergenic	35.0%
	TCCTAGTAAAAACACAACCA+GGG	+	chr1_2:7715940-7715959	Msa0053300:CDS	35.0%
	TTCAGTGTCAAGAGACTTAT+TGG	-	chr1_2:7716256-7716275	None:intergenic	35.0%
	TAAGTCTCTTGACACTGAAA+AGG	+	chr1_2:7716257-7716276	Msa0053300:CDS	35.0%
	AAGTCTCTTGACACTGAAAA+GGG	+	chr1_2:7716258-7716277	Msa0053300:CDS	35.0%
	ACCGAATACGAATACCCAAA+AGG	+	chr1_2:7715875-7715894	Msa0053300:CDS	40.0%
!!	CCCTTTTGGGTATTCGTATT+CGG	-	chr1_2:7715879-7715898	None:intergenic	40.0%
	CCGAATACGAATACCCAAAA+GGG	+	chr1_2:7715876-7715895	Msa0053300:CDS	40.0%
!!	GTTGTGTTTTTACTAGGAGG+AGG	-	chr1_2:7715938-7715957	None:intergenic	40.0%
!!	CTGGTTGTGTTTTTACTAGG+AGG	-	chr1_2:7715941-7715960	None:intergenic	40.0%
	CTCCTAGTAAAAACACAACC+AGG	+	chr1_2:7715939-7715958	Msa0053300:CDS	40.0%
!!	ACCCTGGTTGTGTTTTTACT+AGG	-	chr1_2:7715944-7715963	None:intergenic	40.0%
	ATACGAACACTACTCCTCTT+TGG	+	chr1_2:7715978-7715997	Msa0053300:CDS	40.0%
	TCTTGACACTGAAAAGGGAA+AGG	+	chr1_2:7716263-7716282	Msa0053300:CDS	40.0%
	CTTGACACTGAAAAGGGAAA+GGG	+	chr1_2:7716264-7716283	Msa0053300:CDS	40.0%
	ACTGAAAAGGGAAAGGGAAA+CGG	+	chr1_2:7716270-7716289	Msa0053300:CDS	40.0%
	TTCTTCTTTGTGGCTGGAAC+TGG	-	chr1_2:7715782-7715801	None:intergenic	45.0%
	ACGAATACCCAAAAGGGCAA+TGG	+	chr1_2:7715882-7715901	Msa0053300:CDS	45.0%
!	GTATTCGCCATTGCCCTTTT+GGG	-	chr1_2:7715892-7715911	None:intergenic	45.0%
!	AGTATTCGCCATTGCCCTTT+TGG	-	chr1_2:7715893-7715912	None:intergenic	45.0%
	ATCGCAATCGAAACAAACCC+TGG	-	chr1_2:7715960-7715979	None:intergenic	45.0%
!	TCTTTGGAGGAGTGATCCTA+CGG	+	chr1_2:7715994-7716013	Msa0053300:CDS	45.0%
	GTAATTACCTTGGAACCCGT+AGG	-	chr1_2:7716013-7716032	None:intergenic	45.0%
	CGAACACTACTCCTCTTTGG+AGG	+	chr1_2:7715981-7716000	Msa0053300:CDS	50.0%
	GTAGGATCACTCCTCCAAAG+AGG	-	chr1_2:7715995-7716014	None:intergenic	50.0%
!	CTTTGGAGGAGTGATCCTAC+GGG	+	chr1_2:7715995-7716014	Msa0053300:CDS	50.0%
	CAGTCGTTGTGCAATGCATG+TGG	+	chr1_2:7716201-7716220	Msa0053300:intron	50.0%
	ATGTGGACTCCGACGAAGAA+GGG	+	chr1_2:7716218-7716237	Msa0053300:CDS	50.0%
	TTGCCTCTTCCCTTCTTCGT+CGG	-	chr1_2:7716230-7716249	None:intergenic	50.0%
	GGAGGGCTGAACCAATTCCT+TGG	-	chr1_2:7715920-7715939	None:intergenic	55.0%
	GAGTGATCCTACGGGTTCCA+AGG	+	chr1_2:7716003-7716022	Msa0053300:CDS	55.0%
	CATGTGGACTCCGACGAAGA+AGG	+	chr1_2:7716217-7716236	Msa0053300:CDS	55.0%
	ACTCCGACGAAGAAGGGAAG+AGG	+	chr1_2:7716224-7716243	Msa0053300:CDS	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr1_2	gene	7715758	7716329	7715758	ID=Msa0053300;Name=Msa0053300
chr1_2	mRNA	7715758	7716329	7715758	ID=Msa0053300-mRNA-1;Parent=Msa0053300;Name=Msa0053300-mRNA-1;_AED=0.10;_eAED=0.12;_QI=0\|0\|0\|1\|1\|1\|2\|0\|130
chr1_2	exon	7715758	7716024	7715758	ID=Msa0053300-mRNA-1:exon:2677;Parent=Msa0053300-mRNA-1
chr1_2	exon	7716204	7716329	7716204	ID=Msa0053300-mRNA-1:exon:2678;Parent=Msa0053300-mRNA-1
chr1_2	CDS	7715758	7716024	7715758	ID=Msa0053300-mRNA-1:cds;Parent=Msa0053300-mRNA-1
chr1_2	CDS	7716204	7716329	7716204	ID=Msa0053300-mRNA-1:cds;Parent=Msa0053300-mRNA-1

Gene Sequence

>Msa0053300

ATGAGAGTAAGTAACGATGATCCAGTTCCAGCCACAAAGAAGAAAAAAACTGCTGCTAGTGCTGCCAAAAAGAAGAAATCAGTTGCTAGTGCTTCCAAAAAGAAAATAAAAACTGCTACCGAATACGAATACCCAAAAGGGCAATGGCGAATACTATATCCAAGGAATTGGTTCAGCCCTCCTCCTAGTAAAAACACAACCAGGGTTTGTTTCGATTGCGATACGAACACTACTCCTCTTTGGAGGAGTGATCCTACGGGTTCCAAGTCGTTGTGCAATGCATGTGGACTCCGACGAAGAAGGGAAGAGGCAAAAGCCAATAAGTCTCTTGACACTGAAAAGGGAAAGGGAAACGGCGAAAGCTCATCATCTGAGAATGTGAAGAAGTTTTAA

Protein sequence

>Msa0053300

MRVSNDDPVPATKKKKTAASAAKKKKSVASASKKKIKTATEYEYPKGQWRILYPRNWFSPPPSKNTTRVCFDCDTNTTPLWRSDPTGSKSLCNACGLRRRREEAKANKSLDTEKGKGNGESSSSENVKKF*