AlfalfaGEDB | Msa1203460

M. sativa cultivar zhongmu-4 / Msa1203460

KEGG: -
GO: GO:0000075 GO:0000077 GO:0000278 GO:0000288 GO:0000289 GO:0000956 GO:0002682 GO:0003674 GO:0003824 GO:0004842 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006139 GO:0006401 GO:0006402 GO:0006464 GO:0006508 GO:0006511 GO:0006725 GO:0006807 GO:0006950 GO:0006974 GO:0006977 GO:0007049 GO:0007093 GO:0007154 GO:0007165 GO:0007346 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009892 GO:0009987 GO:0010468 GO:0010564 GO:0010605 GO:0010629 GO:0010948 GO:0016070 GO:0016071 GO:0016567 GO:0016740 GO:0019222 GO:0019439 GO:0019538 GO:0019787 GO:0019941 GO:0022402 GO:0023052 GO:0030163 GO:0030330 GO:0031570 GO:0031571 GO:0032446 GO:0033554 GO:0034641 GO:0034655 GO:0035556 GO:0036211 GO:0042770 GO:0043170 GO:0043412 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044270 GO:0044424 GO:0044444 GO:0044464 GO:0044773 GO:0044774 GO:0044783 GO:0044819 GO:0045595 GO:0045637 GO:0045652 GO:0045786 GO:0045787 GO:0045930 GO:0046483 GO:0046700 GO:0048518 GO:0048519 GO:0048522 GO:0048523 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051239 GO:0051603 GO:0051716 GO:0051726 GO:0051865 GO:0060255 GO:0065007 GO:0070647 GO:0071156 GO:0071158 GO:0071704 GO:0072331 GO:0072395 GO:0072401 GO:0072413 GO:0072422 GO:0072431 GO:0090068 GO:0090304 GO:0140096 GO:1901360 GO:1901361 GO:1901564 GO:1901565 GO:1901575 GO:1901987 GO:1901988 GO:1901990 GO:1901991 GO:1902400 GO:1902402 GO:1902403 GO:1902806 GO:1902807 GO:1903047 GO:1903706 GO:2000026 GO:2000045 GO:2000134
PFAM: -

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1203460	AFK43697.1	91.200	125	11	0	1	125	1	125	1.96e-63	202

Swissprot:

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

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
Msa1203460	Msa1276440	0.804085	2.558369e-49	-8.615850e-47
Msa0548580	Msa1203460	0.839559	1.473555e-57	-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
Msa1203460	MtrunA17_Chr4g0059601	91.200	125	11	0	1	125	1	125	3.94e-64	199

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1203460	AT3G48070.2	40.000	125	65	3	1	124	1	116	2.32e-13	66.6
Msa1203460	AT3G48070.1	40.000	125	65	3	1	124	1	116	3.14e-13	66.2
Msa1203460	AT5G62910.1	40.323	124	59	5	1	124	1	109	4.52e-11	60.1
Msa1203460	AT5G62910.2	40.323	124	59	5	1	124	1	109	4.52e-11	60.1

Find 39 sgRNAs with CRISPR-Local

Find 64 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAATTGGAATTCGGCGAAAT+TGG	0.267088	8_1:-57716433	Msa1203460:CDS
AAGAAGAAGGGTTGCAAGGA+TGG	0.391810	8_1:-57716784	Msa1203460:CDS
GAAACAGAGCAAACGTGAAT+TGG	0.411752	8_1:-57716722	Msa1203460:CDS
CTTCAATTTCGCGGACCTAC+TGG	0.425734	8_1:+57716933	None:intergenic
TTTAGGTGCGGTGAAGAAGA+AGG	0.445600	8_1:-57716797	Msa1203460:intron
CGTTTGCTCTGTTTCCCCAC+CGG	0.450401	8_1:+57716730	None:intergenic
GTGTTAGCGGCGGAAGGAAT+CGG	0.452634	8_1:+57717071	None:intergenic
GCCAGGGTTCTTGGTGTTAG+CGG	0.468562	8_1:+57717058	None:intergenic
GAAGGGTTGCAAGGATGGAT+TGG	0.469248	8_1:-57716779	Msa1203460:CDS
AGCTAGAATTCTTAGTGAAA+CGG	0.484159	8_1:-57716482	Msa1203460:CDS
CTTATACTGCTTCAATTTCG+CGG	0.494651	8_1:+57716924	None:intergenic
TTAGGTGCGGTGAAGAAGAA+GGG	0.496495	8_1:-57716796	Msa1203460:intron
GTGGAGATGAGGTGTAGAGG+TGG	0.498602	8_1:-57716694	Msa1203460:CDS
GATTCATCAAGACAGTGATT+CGG	0.504730	8_1:-57716656	Msa1203460:CDS
CGGAACGGCGGCGATTGAAT+CGG	0.509579	8_1:+57717091	None:intergenic
CAAACGTGAATTGGAGAAAG+TGG	0.511530	8_1:-57716713	Msa1203460:CDS
GAACTGACAGGACTGTTTGA+CGG	0.534940	8_1:+57716628	None:intergenic
AAAGTGGAGATGAGGTGTAG+AGG	0.536203	8_1:-57716697	Msa1203460:CDS
TTCTTGGTGTTAGCGGCGGA+AGG	0.545412	8_1:+57717065	None:intergenic
CCACCGGTGACGACAACACA+TGG	0.546610	8_1:+57716746	None:intergenic
ACTACCTGTGAAATTCGTCC+CGG	0.546798	8_1:+57716576	None:intergenic
TTGATGCGCGTCGTGAACAA+TGG	0.554675	8_1:-57716900	Msa1203460:CDS
CCATGTGTTGTCGTCACCGG+TGG	0.563934	8_1:-57716746	Msa1203460:CDS
GCCGCTAACACCAAGAACCC+TGG	0.580532	8_1:-57717059	Msa1203460:CDS
AGGGTTCTTGGTGTTAGCGG+CGG	0.581566	8_1:+57717061	None:intergenic
ACACTACTATTAGAACTGAC+AGG	0.583802	8_1:+57716616	None:intergenic
TGTCCATGTGTTGTCGTCAC+CGG	0.586000	8_1:-57716749	Msa1203460:CDS
GATTCCGGGACGAATTTCAC+AGG	0.588413	8_1:-57716580	Msa1203460:intron
CATGTGTTGTCGTCACCGGT+GGG	0.591044	8_1:-57716745	Msa1203460:CDS
TGAAACGGCACGGTCGCCGA+AGG	0.595550	8_1:-57716467	Msa1203460:CDS
GATGAGGTGTAGAGGTGGAG+AGG	0.598802	8_1:-57716689	Msa1203460:CDS
CGTGAACAATGGCTATCTCA+AGG	0.607296	8_1:-57716889	Msa1203460:intron
GGCGATTGAATCGGAAACCA+TGG	0.614198	8_1:+57717100	None:intergenic
GGTGAAGAAGAAGGGTTGCA+AGG	0.653357	8_1:-57716788	Msa1203460:CDS
GGCGGAAGGAATCGGAACGG+CGG	0.658597	8_1:+57717079	None:intergenic
ATGTGTTGTCGTCACCGGTG+GGG	0.665901	8_1:-57716744	Msa1203460:CDS
AGCGGCGGAAGGAATCGGAA+CGG	0.682697	8_1:+57717076	None:intergenic
AATTGGAGAAAGTGGAGATG+AGG	0.686415	8_1:-57716705	Msa1203460:CDS
GAATTCTTAGTGAAACGGCA+CGG	0.697231	8_1:-57716477	Msa1203460:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	AACAAAAAAATTATATCGAA+CGG	+	chr8_1:57716522-57716541	None:intergenic	15.0%
!!!	TCTTAATTTTATTATCTTTG+TGG	-	chr8_1:57716698-57716717	Msa1203460:CDS	15.0%
!!!	TATTATCTTTGTGGTTTTTT+AGG	-	chr8_1:57716707-57716726	Msa1203460:CDS	20.0%
!!!	ATTGATTTTTTCGATTTGAT+AGG	-	chr8_1:57717001-57717020	Msa1203460:intron	20.0%
!!	CGATTTTTCTTTTGATCTAT+TGG	-	chr8_1:57716673-57716692	Msa1203460:CDS	25.0%
!	AAAATCAATCAAAACAACAG+CGG	+	chr8_1:57716990-57717009	None:intergenic	25.0%
!!!	TTTTTTCGATTTGATAGGAA+AGG	-	chr8_1:57717006-57717025	Msa1203460:intron	25.0%
!	AATTCTATTTTCAGACCAGT+AGG	-	chr8_1:57716573-57716592	Msa1203460:intron	30.0%
!	TCTAATAGTAGTGTGTTTTG+TGG	-	chr8_1:57716914-57716933	Msa1203460:CDS	30.0%
	AGCTAGAATTCTTAGTGAAA+CGG	-	chr8_1:57717039-57717058	Msa1203460:intron	30.0%
	CTTATACTGCTTCAATTTCG+CGG	+	chr8_1:57716600-57716619	None:intergenic	35.0%
!!!	TCTTTGTGGTTTTTTAGGTG+CGG	-	chr8_1:57716712-57716731	Msa1203460:CDS	35.0%
	GATTCATCAAGACAGTGATT+CGG	-	chr8_1:57716865-57716884	Msa1203460:intron	35.0%
	ACACTACTATTAGAACTGAC+AGG	+	chr8_1:57716908-57716927	None:intergenic	35.0%
!!	GTGTTTTGTGGTAATGATTC+CGG	-	chr8_1:57716926-57716945	Msa1203460:CDS	35.0%
!!	TGTTTTGTGGTAATGATTCC+GGG	-	chr8_1:57716927-57716946	Msa1203460:CDS	35.0%
	AATTTCCCCCAAAAATCCTT+CGG	+	chr8_1:57717073-57717092	None:intergenic	35.0%
!!	TTTTGGGGGAAATTGGAATT+CGG	-	chr8_1:57717079-57717098	Msa1203460:CDS	35.0%
	AAATTGGAATTCGGCGAAAT+TGG	-	chr8_1:57717088-57717107	Msa1203460:CDS	35.0%
!	TTACCCTCTTCTTTTTGCCA+GGG	+	chr8_1:57716482-57716501	None:intergenic	40.0%
	TGCGTGAGTTCGAATTAGAA+CGG	+	chr8_1:57716547-57716566	None:intergenic	40.0%
	GAAACAGAGCAAACGTGAAT+TGG	-	chr8_1:57716799-57716818	Msa1203460:intron	40.0%
	CAAACGTGAATTGGAGAAAG+TGG	-	chr8_1:57716808-57716827	Msa1203460:intron	40.0%
	AATTGGAGAAAGTGGAGATG+AGG	-	chr8_1:57716816-57716835	Msa1203460:intron	40.0%
	AATTTCACAGGTAGTAGCAG+TGG	-	chr8_1:57716953-57716972	Msa1203460:intron	40.0%
	GAATTCTTAGTGAAACGGCA+CGG	-	chr8_1:57717044-57717063	Msa1203460:intron	40.0%
!!	GAAGGATTTTTGGGGGAAAT+TGG	-	chr8_1:57717072-57717091	Msa1203460:CDS	40.0%
!	CTTCTTTTTGCCAGGGTTCT+TGG	+	chr8_1:57716475-57716494	None:intergenic	45.0%
	AGAACCCTGGCAAAAAGAAG+AGG	-	chr8_1:57716475-57716494	Msa1203460:CDS	45.0%
	GAACCCTGGCAAAAAGAAGA+GGG	-	chr8_1:57716476-57716495	Msa1203460:CDS	45.0%
!	GTTACCCTCTTCTTTTTGCC+AGG	+	chr8_1:57716483-57716502	None:intergenic	45.0%
	CGTGAACAATGGCTATCTCA+AGG	-	chr8_1:57716632-57716651	Msa1203460:CDS	45.0%
	TTTAGGTGCGGTGAAGAAGA+AGG	-	chr8_1:57716724-57716743	Msa1203460:CDS	45.0%
	TTAGGTGCGGTGAAGAAGAA+GGG	-	chr8_1:57716725-57716744	Msa1203460:CDS	45.0%
	AAGAAGAAGGGTTGCAAGGA+TGG	-	chr8_1:57716737-57716756	Msa1203460:CDS	45.0%
	AAAGTGGAGATGAGGTGTAG+AGG	-	chr8_1:57716824-57716843	Msa1203460:intron	45.0%
	GAACTGACAGGACTGTTTGA+CGG	+	chr8_1:57716896-57716915	None:intergenic	45.0%
	ACTACCTGTGAAATTCGTCC+CGG	+	chr8_1:57716948-57716967	None:intergenic	45.0%
	CTTCAATTTCGCGGACCTAC+TGG	+	chr8_1:57716591-57716610	None:intergenic	50.0%
	TTGATGCGCGTCGTGAACAA+TGG	-	chr8_1:57716621-57716640	Msa1203460:CDS	50.0%
	GGTGAAGAAGAAGGGTTGCA+AGG	-	chr8_1:57716733-57716752	Msa1203460:CDS	50.0%
	GAAGGGTTGCAAGGATGGAT+TGG	-	chr8_1:57716742-57716761	Msa1203460:CDS	50.0%
	TGTCCATGTGTTGTCGTCAC+CGG	-	chr8_1:57716772-57716791	Msa1203460:CDS	50.0%
	GATTCCGGGACGAATTTCAC+AGG	-	chr8_1:57716941-57716960	Msa1203460:intron	50.0%
!	ACGGTCGCCGAAGGATTTTT+GGG	-	chr8_1:57717063-57717082	Msa1203460:CDS	50.0%
	GTGTTAGCGGCGGAAGGAAT+CGG	+	chr8_1:57716453-57716472	None:intergenic	55.0%
!!	TTCTTGGTGTTAGCGGCGGA+AGG	+	chr8_1:57716459-57716478	None:intergenic	55.0%
!!	AGGGTTCTTGGTGTTAGCGG+CGG	+	chr8_1:57716463-57716482	None:intergenic	55.0%
!!	GCCAGGGTTCTTGGTGTTAG+CGG	+	chr8_1:57716466-57716485	None:intergenic	55.0%
	CATGTGTTGTCGTCACCGGT+GGG	-	chr8_1:57716776-57716795	Msa1203460:CDS	55.0%
	ATGTGTTGTCGTCACCGGTG+GGG	-	chr8_1:57716777-57716796	Msa1203460:CDS	55.0%
	CGTTTGCTCTGTTTCCCCAC+CGG	+	chr8_1:57716794-57716813	None:intergenic	55.0%
	GTGGAGATGAGGTGTAGAGG+TGG	-	chr8_1:57716827-57716846	Msa1203460:intron	55.0%
	GATGAGGTGTAGAGGTGGAG+AGG	-	chr8_1:57716832-57716851	Msa1203460:intron	55.0%
!	CACGGTCGCCGAAGGATTTT+TGG	-	chr8_1:57717062-57717081	Msa1203460:CDS	55.0%
!	CGGTCGCCGAAGGATTTTTG+GGG	-	chr8_1:57717064-57717083	Msa1203460:CDS	55.0%
!!	GGTCGCCGAAGGATTTTTGG+GGG	-	chr8_1:57717065-57717084	Msa1203460:CDS	55.0%
	CGGAACGGCGGCGATTGAAT+CGG	+	chr8_1:57716433-57716452	None:intergenic	60.0%
	AGCGGCGGAAGGAATCGGAA+CGG	+	chr8_1:57716448-57716467	None:intergenic	60.0%
	GCCGCTAACACCAAGAACCC+TGG	-	chr8_1:57716462-57716481	Msa1203460:CDS	60.0%
	CCACCGGTGACGACAACACA+TGG	+	chr8_1:57716778-57716797	None:intergenic	60.0%
	CCATGTGTTGTCGTCACCGG+TGG	-	chr8_1:57716775-57716794	Msa1203460:CDS	60.0%
	GGCGGAAGGAATCGGAACGG+CGG	+	chr8_1:57716445-57716464	None:intergenic	65.0%
	TGAAACGGCACGGTCGCCGA+AGG	-	chr8_1:57717054-57717073	Msa1203460:CDS	65.0%

Chromosome	Type	Strat	End	Strand	Name
chr8_1	gene	57716423	57717120	57716423	ID=Msa1203460;Name=Msa1203460
chr8_1	mRNA	57716423	57717120	57716423	ID=Msa1203460-mRNA-1;Parent=Msa1203460;Name=Msa1203460-mRNA-1;_AED=0.23;_eAED=0.23;_QI=0\|0\|0\|0.75\|1\|1\|4\|0\|157
chr8_1	exon	57717046	57717120	57717046	ID=Msa1203460-mRNA-1:exon:18890;Parent=Msa1203460-mRNA-1
chr8_1	exon	57716890	57716956	57716890	ID=Msa1203460-mRNA-1:exon:18889;Parent=Msa1203460-mRNA-1
chr8_1	exon	57716581	57716814	57716581	ID=Msa1203460-mRNA-1:exon:18888;Parent=Msa1203460-mRNA-1
chr8_1	exon	57716423	57716520	57716423	ID=Msa1203460-mRNA-1:exon:18887;Parent=Msa1203460-mRNA-1
chr8_1	CDS	57717046	57717120	57717046	ID=Msa1203460-mRNA-1:cds;Parent=Msa1203460-mRNA-1
chr8_1	CDS	57716890	57716956	57716890	ID=Msa1203460-mRNA-1:cds;Parent=Msa1203460-mRNA-1
chr8_1	CDS	57716581	57716814	57716581	ID=Msa1203460-mRNA-1:cds;Parent=Msa1203460-mRNA-1
chr8_1	CDS	57716423	57716520	57716423	ID=Msa1203460-mRNA-1:cds;Parent=Msa1203460-mRNA-1

Gene Sequence

>Msa1203460

ATGGTTTCCGATTCAATCGCCGCCGTTCCGATTCCTTCCGCCGCTAACACCAAGAACCCTGGCAAAAAGAAGAGGACCAGTAGGTCCGCGAAATTGAAGCAGTATAAGATTGATGCGCGTCGTGAACAATGGCTATCTCAAGGTGCGGTGAAGAAGAAGGGTTGCAAGGATGGATTGGACGATGATGTCCATGTGTTGTCGTCACCGGTGGGGAAACAGAGCAAACGTGAATTGGAGAAAGTGGAGATGAGGTGTAGAGGTGGAGAGGTTGATGTGTTGATTCATCAAGACAGTGATTCGGAGTCGCCGTCAAACAGTCCTGTCAGTTCTAATAGTAGTGTGTTTTGTGGTAATGATTCCGGGACGAATTTCACAGGAAAGGAGCTTGAAGAAGCTAGAATTCTTAGTGAAACGGCACGGTCGCCGAAGGATTTTTGGGGGAAATTGGAATTCGGCGAAATTGGAATTATTTGA

Protein sequence

>Msa1203460

MVSDSIAAVPIPSAANTKNPGKKKRTSRSAKLKQYKIDARREQWLSQGAVKKKGCKDGLDDDVHVLSSPVGKQSKRELEKVEMRCRGGEVDVLIHQDSDSESPSNSPVSSNSSVFCGNDSGTNFTGKELEEARILSETARSPKDFWGKLEFGEIGII*