AlfalfaGEDB | Msa0512710

M. sativa cultivar zhongmu-4 / Msa0512710

KEGG: K11314
GO: GO:0003674 GO:0003682 GO:0003700 GO:0003712 GO:0003713 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006325 GO:0006338 GO:0006355 GO:0006357 GO:0006950 GO:0006996 GO:0008150 GO:0009266 GO:0009409 GO:0009628 GO:0009631 GO:0009719 GO:0009725 GO:0009733 GO:0009735 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010033 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010638 GO:0016043 GO:0019219 GO:0019222 GO:0031056 GO:0031058 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0031399 GO:0031401 GO:0032268 GO:0032270 GO:0033043 GO:0033044 GO:0035065 GO:0035066 GO:0042127 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0045935 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0050896 GO:0051128 GO:0051130 GO:0051171 GO:0051173 GO:0051246 GO:0051247 GO:0051252 GO:0051254 GO:0051276 GO:0060255 GO:0065007 GO:0071840 GO:0080090 GO:0140110 GO:1901983 GO:1901985 GO:1902275 GO:1902680 GO:1903506 GO:1903508 GO:1905269 GO:2000112 GO:2000756 GO:2000758 GO:2001141 GO:2001252
PFAM: PF00249.34

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0512710	XP_013461146.1	90.000	60	6	0	23	82	100	159	8.62e-32	120

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0512710	sp\|Q75LL6\|TADA2_ORYSJ	61.667	60	23	0	23	82	104	163	2.62e-22	92.8

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0512710	A0A072VAF9	90.000	60	6	0	23	82	100	159	4.12e-32	120

TFs/TRs:

Gene ID	Type	Classification
Msa0512710	TF	MYB-related

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	q. start	q. end	s. start	s. end	e-value	bit score
Msa0512710	MtrunA17_Chr3g0120221	90.000	60	6	23	82	100	159	7.93e-36	120
Msa0512710	MtrunA17_Chr3g0120191	79.630	54	11	29	82	10	63	4.89e-27	95.9
Msa0512710	MtrunA17_Chr3g0120841	70.000	60	18	23	82	105	164	3.89e-21	86.3
Msa0512710	MtrunA17_Chr2g0290321	58.333	60	25	23	82	101	160	1.11e-19	82.0
Msa0512710	MtrunA17_Chr2g0290341	48.611	72	37	11	82	73	144	1.49e-19	81.6
Msa0512710	MtrunA17_Chr7g0239471	61.667	60	23	23	82	100	159	3.12e-17	75.1

Query id	Subject id	identity %	alignment length	mismatches	q. start	q. end	s. start	s. end	e-value	bit score
Msa0512710	AT4G16420.2	55.882	68	30	15	82	90	157	7.90e-22	88.6
Msa0512710	AT4G16420.3	55.882	68	30	15	82	90	157	7.95e-22	88.6
Msa0512710	AT4G16420.1	55.882	68	30	15	82	90	157	7.97e-22	88.6
Msa0512710	AT3G07740.2	47.222	72	38	11	82	21	92	1.47e-18	79.3
Msa0512710	AT3G07740.3	47.222	72	38	11	82	71	142	1.52e-18	79.3
Msa0512710	AT3G07740.1	47.222	72	38	11	82	92	163	1.53e-18	79.3
Msa0512710	AT3G07740.4	53.333	60	28	23	82	111	170	5.83e-18	77.8

Find 16 sgRNAs with CRISPR-Local

Find 23 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TTCTGCTTACATGTCCATAT+TGG	0.309275	3_4:-62604038	Msa0512710:CDS
TCTTCATGCACACTCCAATA+TGG	0.344180	3_4:+62604024	None:intergenic
ACATGTATGGATTTGAGAAT+TGG	0.349491	3_4:-62603859	Msa0512710:CDS
ACGTTGTCAAATAGACTTAC+AGG	0.376720	3_4:+62603743	None:intergenic
TCTCAAATCCATACATGTCA+AGG	0.519033	3_4:+62603864	None:intergenic
TCAAATAGACTTACAGGAAG+AGG	0.528922	3_4:+62603749	None:intergenic
ATGGTGTTGCTGAACATGTT+GGG	0.532190	3_4:-62603835	Msa0512710:CDS
TGAAGAGTTGTTACTTCCTG+AGG	0.545309	3_4:-62604007	Msa0512710:intron
TCAGATATACAACATTATAG+TGG	0.585833	3_4:+62603786	None:intergenic
TATGGATTTGAGAATTGGAA+TGG	0.599113	3_4:-62603854	Msa0512710:CDS
CTCAAATCCATACATGTCAA+GGG	0.602788	3_4:+62603865	None:intergenic
AATGGTGTTGCTGAACATGT+TGG	0.605755	3_4:-62603836	Msa0512710:CDS
TACACCAAGCATTCAAACAG+AGG	0.627089	3_4:+62603697	None:intergenic
CTTACAGGAAGAGGAGCACA+TGG	0.648202	3_4:+62603758	None:intergenic
TAGAGCAGAATTGATACATG+AGG	0.674226	3_4:-62604115	None:intergenic
TTATAGTGGTCAATACACTC+AGG	0.688875	3_4:+62603800	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	TGTTATGATAATATGAAATA+AGG	+	chr3_4:62603911-62603930	None:intergenic	15.0%
!	TCAGATATACAACATTATAG+TGG	+	chr3_4:62604031-62604050	None:intergenic	25.0%
!!	TAACAAGCTTGTTTCGTTTT+AGG	-	chr3_4:62603926-62603945	Msa0512710:intron	30.0%
	ACATGTATGGATTTGAGAAT+TGG	-	chr3_4:62603955-62603974	Msa0512710:intron	30.0%
	TATGGATTTGAGAATTGGAA+TGG	-	chr3_4:62603960-62603979	Msa0512710:intron	30.0%
	TTCTGCTTACATGTCCATAT+TGG	-	chr3_4:62603776-62603795	Msa0512710:CDS	35.0%
	CTCAAATCCATACATGTCAA+GGG	+	chr3_4:62603952-62603971	None:intergenic	35.0%
	TCTCAAATCCATACATGTCA+AGG	+	chr3_4:62603953-62603972	None:intergenic	35.0%
	TTATAGTGGTCAATACACTC+AGG	+	chr3_4:62604017-62604036	None:intergenic	35.0%
	TCAAATAGACTTACAGGAAG+AGG	+	chr3_4:62604068-62604087	None:intergenic	35.0%
	ACGTTGTCAAATAGACTTAC+AGG	+	chr3_4:62604074-62604093	None:intergenic	35.0%
	TCTTCATGCACACTCCAATA+TGG	+	chr3_4:62603793-62603812	None:intergenic	40.0%
!	TGAAGAGTTGTTACTTCCTG+AGG	-	chr3_4:62603807-62603826	Msa0512710:CDS	40.0%
!	TTGTTACTTCCTGAGGTTTG+TGG	-	chr3_4:62603814-62603833	Msa0512710:CDS	40.0%
	ATACTCAAACCACAAACCTC+AGG	+	chr3_4:62603826-62603845	None:intergenic	40.0%
	TGAGGTTTGTGGTTTGAGTA+TGG	-	chr3_4:62603825-62603844	Msa0512710:CDS	40.0%
	GAGGTTTGTGGTTTGAGTAT+GGG	-	chr3_4:62603826-62603845	Msa0512710:CDS	40.0%
	AGGTTTGTGGTTTGAGTATG+GGG	-	chr3_4:62603827-62603846	Msa0512710:CDS	40.0%
!	TTTTAGGCCCTTGACATGTA+TGG	-	chr3_4:62603942-62603961	Msa0512710:intron	40.0%
!!	AATGGTGTTGCTGAACATGT+TGG	-	chr3_4:62603978-62603997	Msa0512710:intron	40.0%
!!	ATGGTGTTGCTGAACATGTT+GGG	-	chr3_4:62603979-62603998	Msa0512710:intron	40.0%
!!!	ACAAATAAATATATTTTTAT+AGG	-	chr3_4:62603742-62603761	Msa0512710:CDS	5.0%
!	CTTACAGGAAGAGGAGCACA+TGG	+	chr3_4:62604059-62604078	None:intergenic	50.0%

Chromosome	Type	Strat	End	Strand	Name
chr3_4	gene	62603709	62604127	62603709	ID=Msa0512710;Name=Msa0512710
chr3_4	mRNA	62603709	62604127	62603709	ID=Msa0512710-mRNA-1;Parent=Msa0512710;Name=Msa0512710-mRNA-1;_AED=0.66;_eAED=0.66;_QI=0\|0\|0\|1\|1\|0.5\|2\|0\|99
chr3_4	exon	62604008	62604127	62604008	ID=Msa0512710-mRNA-1:exon:15548;Parent=Msa0512710-mRNA-1
chr3_4	exon	62603709	62603888	62603709	ID=Msa0512710-mRNA-1:exon:15547;Parent=Msa0512710-mRNA-1
chr3_4	CDS	62604008	62604127	62604008	ID=Msa0512710-mRNA-1:cds;Parent=Msa0512710-mRNA-1
chr3_4	CDS	62603709	62603888	62603709	ID=Msa0512710-mRNA-1:cds;Parent=Msa0512710-mRNA-1

Gene Sequence	>Msa0512710 TTGATACATGAGGTATACTTACTTGTTACAAACACAAATAAATATATTTTTATAGGAAGATCTATCTTTCTGCTTACATGTCCATATTGGAGTGTGCATGAAGAGTTGTTACTTCCTGAGGCCCTTGACATGTATGGATTTGAGAATTGGAATGGTGTTGCTGAACATGTTGGGACGAAAAGCAAACCTGAGTGTATTGACCACTATAATGTTGTATATCTGAATTCGCCATGTGCTCCTCTTCCTGTAAGTCTATTTGACAACGTTGTTATTGATAGCATACATGCAACCTCTGTTTGA
Protein sequence	>Msa0512710 LIHEVYLLVTNTNKYIFIGRSIFLLTCPYWSVHEELLLPEALDMYGFENWNGVAEHVGTKSKPECIDHYNVVYLNSPCAPLPVSLFDNVVIDSIHATSV*