AlfalfaGEDB | Msa0919980

M. sativa cultivar zhongmu-4 / Msa0919980

KEGG: K02950
GO: GO:0003674 GO:0003735 GO:0005198 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464
PFAM: PF00164.28

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0919980	YP_009237637.1	100.000	125	0	0	1	125	1	125	1.89e-84	252

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0919980	sp\|P27070\|RT12_PANGI	94.400	125	7	0	1	125	1	125	1.35e-80	235

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0069510	Msa0919980	0.906497	1.393777e-80	-8.615850e-47
Msa0069520	Msa0919980	0.952876	9.386348e-111	-8.615850e-47
Msa0919980	Msa0919990	0.863323	2.702885e-64	-8.615850e-47
Msa0919980	Msa0983360	0.893685	4.992386e-75	-8.615850e-47
Msa0919980	Msa0983370	0.915532	5.263992e-85	-8.615850e-47
Msa0919980	Msa1391950	0.963613	2.669579e-122	-8.615850e-47
Msa0919980	Msa1391960	0.900020	1.111461e-77	-8.615850e-47
Msa0919980	Msa1453850	0.920432	1.288884e-87	-8.615850e-47

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
Msa0919980	MtrunA17_MTg0491661	100.000	125	0	0	1	125	1	125	1.74e-88	252
Msa0919980	MtrunA17_Chr7g0234981	66.667	81	27	0	43	123	13	93	9.76e-35	115

Query id	Subject id	identity %	alignment length	mismatches	q. start	q. end	s. start	s. end	e-value	bit score
Msa0919980	AT2G07675.1	91.200	125	11	1	125	1	125	1.97e-78	227
Msa0919980	ATMG00980.1	91.200	125	11	1	125	1	125	1.97e-78	227
Msa0919980	ATCG00905.1	66.265	83	28	41	123	3	85	8.53e-36	118
Msa0919980	ATCG01230.1	66.265	83	28	41	123	3	85	8.53e-36	118

Find 32 sgRNAs with CRISPR-Local

Find 35 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
GCGGGCGTACTCCTTGCTTC+TGG	0.225224	6_2:+53396334	None:intergenic
CAAGGATTTGTTGGGAATTC+CGG	0.244708	6_2:-53396115	Msa0919980:CDS
ATCTTACGTTGAGCTGAATT+TGG	0.247376	6_2:+53396285	None:intergenic
TGATATATTTGCTCACATTC+CGG	0.302524	6_2:-53396235	Msa0919980:CDS
ATCCTCCATTCATATCGATT+TGG	0.306818	6_2:+53396053	None:intergenic
TCCTCCATTCATATCGATTT+GGG	0.309921	6_2:+53396054	None:intergenic
CGGGCGTACTCCTTGCTTCT+GGG	0.326117	6_2:+53396335	None:intergenic
GATATATTTGCTCACATTCC+GGG	0.354563	6_2:-53396234	Msa0919980:CDS
CGAGGAGTCAAGGATTTGTT+GGG	0.416175	6_2:-53396123	Msa0919980:CDS
TCGAGGAGTCAAGGATTTGT+TGG	0.418048	6_2:-53396124	Msa0919980:CDS
AGAAGAGGCAGATCAAAATA+TGG	0.430997	6_2:-53396087	Msa0919980:CDS
CGAATCAATTGATTTAATGT+AGG	0.458996	6_2:+53396414	None:intergenic
CACGGACCGTACTCGAGCTT+CGG	0.459749	6_2:-53396367	Msa0919980:CDS
TCGATTGCTCAATCGTACTT+TGG	0.467988	6_2:+53396260	None:intergenic
GATCTGCCTCTTCTTCGATC+CGG	0.495631	6_2:+53396096	None:intergenic
CTTGACTCCTCGAATACAAT+GGG	0.496906	6_2:+53396134	None:intergenic
CATTCTACGGTCTTAATAAG+AGG	0.509133	6_2:-53396189	Msa0919980:CDS
GGTAGAGTTAAAGATTTGCC+AGG	0.536394	6_2:-53396165	Msa0919980:CDS
TTTGCTCACATTCCGGGCGA+AGG	0.538531	6_2:-53396228	Msa0919980:CDS
ATTGATCCGAAGCTCGAGTA+CGG	0.542451	6_2:+53396361	None:intergenic
GTGAAATCCCATTGTATTCG+AGG	0.549831	6_2:-53396141	Msa0919980:CDS
CCTTGACTCCTCGAATACAA+TGG	0.552314	6_2:+53396133	None:intergenic
CCATTGTATTCGAGGAGTCA+AGG	0.553703	6_2:-53396133	Msa0919980:CDS
GGGCGAAGGTCATAATTCGC+AGG	0.554524	6_2:-53396214	Msa0919980:CDS
TGCGAATTATGACCTTCGCC+CGG	0.559329	6_2:+53396216	None:intergenic
TAATTCGCAGGAACATTCTA+CGG	0.570921	6_2:-53396202	Msa0919980:CDS
TTAAATCAATTGATTCGTCA+TGG	0.572229	6_2:-53396408	Msa0919980:CDS
ATACAATGGGATTTCACACC+TGG	0.575815	6_2:+53396147	None:intergenic
GGGCGTACTCCTTGCTTCTG+GGG	0.603634	6_2:+53396336	None:intergenic
GATCAATGTCCCCAGAAGCA+AGG	0.611270	6_2:-53396345	Msa0919980:CDS
GGAATTCCGGATCGAAGAAG+AGG	0.614106	6_2:-53396102	Msa0919980:CDS
TCTACGGTCTTAATAAGAGG+AGG	0.670870	6_2:-53396186	Msa0919980:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	CGAATCAATTGATTTAATGT+AGG	+	chr6_2:53396068-53396087	None:intergenic	25.0%
!!!	TTAAATCAATTGATTCGTCA+TGG	-	chr6_2:53396071-53396090	Msa0919980:CDS	25.0%
!!!	TGAGCTGAATTTGGTTTTTT+CGG	+	chr6_2:53396188-53396207	None:intergenic	30.0%
	TGATATATTTGCTCACATTC+CGG	-	chr6_2:53396244-53396263	Msa0919980:CDS	30.0%
	GTCATGGTAGAGAAGAAAAA+CGG	-	chr6_2:53396087-53396106	Msa0919980:CDS	35.0%
	ATCTTACGTTGAGCTGAATT+TGG	+	chr6_2:53396197-53396216	None:intergenic	35.0%
	GATATATTTGCTCACATTCC+GGG	-	chr6_2:53396245-53396264	Msa0919980:CDS	35.0%
	TAATTCGCAGGAACATTCTA+CGG	-	chr6_2:53396277-53396296	Msa0919980:CDS	35.0%
	CATTCTACGGTCTTAATAAG+AGG	-	chr6_2:53396290-53396309	Msa0919980:CDS	35.0%
	AGAAGAGGCAGATCAAAATA+TGG	-	chr6_2:53396392-53396411	Msa0919980:CDS	35.0%
	GTGTTCTCTTAAAAACACGC+GGG	+	chr6_2:53396166-53396185	None:intergenic	40.0%
	GGTGTTCTCTTAAAAACACG+CGG	+	chr6_2:53396167-53396186	None:intergenic	40.0%
	TCGATTGCTCAATCGTACTT+TGG	+	chr6_2:53396222-53396241	None:intergenic	40.0%
	TCTACGGTCTTAATAAGAGG+AGG	-	chr6_2:53396293-53396312	Msa0919980:CDS	40.0%
	GGTAGAGTTAAAGATTTGCC+AGG	-	chr6_2:53396314-53396333	Msa0919980:CDS	40.0%
	ATACAATGGGATTTCACACC+TGG	+	chr6_2:53396335-53396354	None:intergenic	40.0%
	GTGAAATCCCATTGTATTCG+AGG	-	chr6_2:53396338-53396357	Msa0919980:CDS	40.0%
	CTTGACTCCTCGAATACAAT+GGG	+	chr6_2:53396348-53396367	None:intergenic	40.0%
!!	CAAGGATTTGTTGGGAATTC+CGG	-	chr6_2:53396364-53396383	Msa0919980:CDS	40.0%
	TAGAGAAGAAAAACGGCGCA+CGG	-	chr6_2:53396094-53396113	Msa0919980:CDS	45.0%
	ATTGATCCGAAGCTCGAGTA+CGG	+	chr6_2:53396121-53396140	None:intergenic	45.0%
	CCTTGACTCCTCGAATACAA+TGG	+	chr6_2:53396349-53396368	None:intergenic	45.0%
	CCATTGTATTCGAGGAGTCA+AGG	-	chr6_2:53396346-53396365	Msa0919980:CDS	45.0%
	TCGAGGAGTCAAGGATTTGT+TGG	-	chr6_2:53396355-53396374	Msa0919980:CDS	45.0%
!	CGAGGAGTCAAGGATTTGTT+GGG	-	chr6_2:53396356-53396375	Msa0919980:CDS	45.0%
	GATCAATGTCCCCAGAAGCA+AGG	-	chr6_2:53396134-53396153	Msa0919980:CDS	50.0%
	TGCGAATTATGACCTTCGCC+CGG	+	chr6_2:53396266-53396285	None:intergenic	50.0%
	GGAATTCCGGATCGAAGAAG+AGG	-	chr6_2:53396377-53396396	Msa0919980:CDS	50.0%
	GATCTGCCTCTTCTTCGATC+CGG	+	chr6_2:53396386-53396405	None:intergenic	50.0%
	TTTGCTCACATTCCGGGCGA+AGG	-	chr6_2:53396251-53396270	Msa0919980:CDS	55.0%
	GGGCGAAGGTCATAATTCGC+AGG	-	chr6_2:53396265-53396284	Msa0919980:CDS	55.0%
	CACGGACCGTACTCGAGCTT+CGG	-	chr6_2:53396112-53396131	Msa0919980:CDS	60.0%
	GGGCGTACTCCTTGCTTCTG+GGG	+	chr6_2:53396146-53396165	None:intergenic	60.0%
	CGGGCGTACTCCTTGCTTCT+GGG	+	chr6_2:53396147-53396166	None:intergenic	60.0%
	GCGGGCGTACTCCTTGCTTC+TGG	+	chr6_2:53396148-53396167	None:intergenic	65.0%

Chromosome	Type	Strat	End	Strand	Name
chr6_2	gene	53396062	53396439	53396062	ID=Msa0919980;Name=Msa0919980
chr6_2	mRNA	53396062	53396439	53396062	ID=Msa0919980-mRNA-1;Parent=Msa0919980;Name=Msa0919980-mRNA-1;_AED=0.34;_eAED=0.34;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|125
chr6_2	exon	53396062	53396439	53396062	ID=Msa0919980-mRNA-1:exon:7984;Parent=Msa0919980-mRNA-1
chr6_2	CDS	53396062	53396439	53396062	ID=Msa0919980-mRNA-1:cds;Parent=Msa0919980-mRNA-1

Gene Sequence	>Msa0919980 ATGCCTACATTAAATCAATTGATTCGTCATGGTAGAGAAGAAAAACGGCGCACGGACCGTACTCGAGCTTCGGATCAATGTCCCCAGAAGCAAGGAGTACGCCCGCGTGTTTTTAAGAGAACACCGAAAAAACCAAATTCAGCTCAACGTAAGATAGCCAAAGTACGATTGAGCAATCGACATGATATATTTGCTCACATTCCGGGCGAAGGTCATAATTCGCAGGAACATTCTACGGTCTTAATAAGAGGAGGTAGAGTTAAAGATTTGCCAGGTGTGAAATCCCATTGTATTCGAGGAGTCAAGGATTTGTTGGGAATTCCGGATCGAAGAAGAGGCAGATCAAAATATGGTGCAGAAAAACCCAAATCGATATGA
Protein sequence	>Msa0919980 MPTLNQLIRHGREEKRRTDRTRASDQCPQKQGVRPRVFKRTPKKPNSAQRKIAKVRLSNRHDIFAHIPGEGHNSQEHSTVLIRGGRVKDLPGVKSHCIRGVKDLLGIPDRRRGRSKYGAEKPKSI*