AlfalfaGEDB | Msa0548580

M. sativa cultivar zhongmu-4 / Msa0548580

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
Msa0548580	AFK43697.1	91.200	125	11	0	1	125	1	125	4.13e-64	203

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
Msa0548580	I3STV5	91.200	125	11	0	1	125	1	125	1.97e-64	203

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0048000	Msa0548580	0.804152	2.478121e-49	-8.615850e-47
Msa0379640	Msa0548580	0.805264	1.451774e-49	-8.615850e-47
Msa0409200	Msa0548580	0.810460	1.140106e-50	-8.615850e-47
Msa0458440	Msa0548580	0.825766	3.919086e-54	-8.615850e-47
Msa0249100	Msa0548580	0.800378	1.482447e-48	-8.615850e-47
Msa0260810	Msa0548580	0.801682	8.025479e-49	-8.615850e-47
Msa0276920	Msa0548580	0.805640	1.210843e-49	-8.615850e-47
Msa0284520	Msa0548580	0.804919	1.714696e-49	-8.615850e-47
Msa0316800	Msa0548580	0.810765	9.796068e-51	-8.615850e-47
Msa0484780	Msa0548580	0.831010	2.126969e-55	-8.615850e-47
Msa0512900	Msa0548580	0.811098	8.296007e-51	-8.615850e-47
Msa0548580	Msa0580000	0.815800	7.679651e-52	-8.615850e-47
Msa0548580	Msa0587190	0.805337	1.401686e-49	-8.615850e-47
Msa0548580	Msa0626220	0.813684	2.260056e-51	-8.615850e-47
Msa0548580	Msa0644840	0.802849	4.614417e-49	-8.615850e-47
Msa0548580	Msa0682550	0.822857	1.892208e-53	-8.615850e-47
Msa0548580	Msa0688070	0.809880	1.520355e-50	-8.615850e-47
Msa0548580	Msa0693380	0.826553	2.546577e-54	-8.615850e-47
Msa0548580	Msa0731180	0.802634	5.111473e-49	-8.615850e-47
Msa0548580	Msa0960160	0.800995	1.109122e-48	-8.615850e-47
Msa0548580	Msa1068200	-0.804615	1.984120e-49	-8.615850e-47
Msa0548580	Msa1082500	0.820367	7.120909e-53	-8.615850e-47
Msa0548580	Msa1203460	0.839559	1.473555e-57	-8.615850e-47
Msa0548580	Msa1220150	0.809453	1.878544e-50	-8.615850e-47
Msa0548580	Msa1224480	0.808443	3.090102e-50	-8.615850e-47
Msa0548580	Msa1233500	0.800596	1.337920e-48	-8.615850e-47
Msa0548580	Msa1276440	0.822638	2.127990e-53	-8.615850e-47
Msa0548580	Msa1333730	0.813975	1.949976e-51	-8.615850e-47
Msa0548580	Msa1424680	0.808183	3.510185e-50	-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
Msa0548580	MtrunA17_Chr4g0059601	91.200	125	11	0	1	125	1	125	3.03e-65	202

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0548580	AT3G48070.2	39.200	125	66	3	1	124	1	116	1.25e-12	64.7
Msa0548580	AT3G48070.1	39.200	125	66	3	1	124	1	116	1.57e-12	64.3
Msa0548580	AT5G62910.1	40.708	113	49	4	1	108	1	100	7.50e-11	59.3
Msa0548580	AT5G62910.2	40.708	113	49	4	1	108	1	100	7.50e-11	59.3

Find 39 sgRNAs with CRISPR-Local

Find 63 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAATTGGAATTCGGCGAAAT+TGG	0.267088	4_1:-42744714	Msa0548580:CDS
AAGAAGAAGGGTTGCAAGGA+TGG	0.391810	4_1:-42745065	Msa0548580:CDS
GAAACAGAGCAAACGAGAAT+TGG	0.406552	4_1:-42745003	Msa0548580:CDS
CTTCAATTTCGCGGACCTAC+TGG	0.425734	4_1:+42745214	None:intergenic
CGTTTGCTCTGTTTCCCCAC+CGG	0.425859	4_1:+42745011	None:intergenic
TTTAGGTGCGGTGAAGAAGA+AGG	0.445600	4_1:-42745078	Msa0548580:intron
GTGTTAGCGGCGGAAGGAAT+CGG	0.452634	4_1:+42745352	None:intergenic
GCCAGGGTTCTTGGTGTTAG+CGG	0.468562	4_1:+42745339	None:intergenic
GAAGGGTTGCAAGGATGGAT+TGG	0.469248	4_1:-42745060	Msa0548580:CDS
GTGGAGATGAGGCGTAGAGG+TGG	0.475597	4_1:-42744975	Msa0548580:CDS
CAAACGAGAATTGGAGAAAG+TGG	0.479170	4_1:-42744994	Msa0548580:CDS
AGCTAGAATTCTTAGTGAAA+CGG	0.484159	4_1:-42744763	Msa0548580:CDS
CTTATACTGCTTCAATTTCG+CGG	0.494651	4_1:+42745205	None:intergenic
TTAGGTGCGGTGAAGAAGAA+GGG	0.496495	4_1:-42745077	Msa0548580:intron
GATTCATCAAGACAGTGATT+CGG	0.504730	4_1:-42744937	Msa0548580:CDS
CGGAACGGCGGCGATTGAAT+CGG	0.509579	4_1:+42745372	None:intergenic
CACGTGTTGTCGTCACCGGT+GGG	0.527965	4_1:-42745026	Msa0548580:CDS
GAACTGACAGGACTGTTTGA+CGG	0.534940	4_1:+42744909	None:intergenic
CCACGTGTTGTCGTCACCGG+TGG	0.541239	4_1:-42745027	Msa0548580:CDS
GATGAGGCGTAGAGGTGGAG+AGG	0.541487	4_1:-42744970	Msa0548580:CDS
TTCTTGGTGTTAGCGGCGGA+AGG	0.545412	4_1:+42745346	None:intergenic
TTGATGCGCGTCGTGAACAA+TGG	0.554675	4_1:-42745181	Msa0548580:CDS
AAAGTGGAGATGAGGCGTAG+AGG	0.556659	4_1:-42744978	Msa0548580:CDS
ACTACCTGTGAAATTCGTCC+CGG	0.567310	4_1:+42744857	None:intergenic
GCCGCTAACACCAAGAACCC+TGG	0.580532	4_1:-42745340	Msa0548580:CDS
AGGGTTCTTGGTGTTAGCGG+CGG	0.581566	4_1:+42745342	None:intergenic
CCACCGGTGACGACAACACG+TGG	0.583743	4_1:+42745027	None:intergenic
ACACTACTATTAGAACTGAC+AGG	0.583802	4_1:+42744897	None:intergenic
GATTCCGGGACGAATTTCAC+AGG	0.588413	4_1:-42744861	Msa0548580:intron
TGAAACGGCACGGTCGCCGA+AGG	0.595550	4_1:-42744748	Msa0548580:CDS
TGTCCACGTGTTGTCGTCAC+CGG	0.606974	4_1:-42745030	Msa0548580:CDS
CGTGAACAATGGCTATCTCA+AGG	0.607296	4_1:-42745170	Msa0548580:intron
AATTGGAGAAAGTGGAGATG+AGG	0.611999	4_1:-42744986	Msa0548580:CDS
GGCGATTGAATCGGAAACCA+TGG	0.614198	4_1:+42745381	None:intergenic
GGTGAAGAAGAAGGGTTGCA+AGG	0.653357	4_1:-42745069	Msa0548580:CDS
GGCGGAAGGAATCGGAACGG+CGG	0.658597	4_1:+42745360	None:intergenic
ACGTGTTGTCGTCACCGGTG+GGG	0.664994	4_1:-42745025	Msa0548580:CDS
AGCGGCGGAAGGAATCGGAA+CGG	0.682697	4_1:+42745357	None:intergenic
GAATTCTTAGTGAAACGGCA+CGG	0.697231	4_1:-42744758	Msa0548580:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	TCTTAATTTTGTTATCTTTG+TGG	-	chr4_1:42744979-42744998	Msa0548580:CDS	20.0%
!!!	ATTGATTTTTTCGATTTGAT+AGG	-	chr4_1:42745282-42745301	Msa0548580:intron	20.0%
!!	CGATTTTTCTTTTGATCTAT+TGG	-	chr4_1:42744954-42744973	Msa0548580:CDS	25.0%
!!!	TGTTATCTTTGTGGTTTTTT+AGG	-	chr4_1:42744988-42745007	Msa0548580:CDS	25.0%
!	AAAATCAATCAAAACAACAG+CGG	+	chr4_1:42745271-42745290	None:intergenic	25.0%
!!!	TTTTTTCGATTTGATAGGAA+AGG	-	chr4_1:42745287-42745306	Msa0548580:intron	25.0%
!	AATTCTATTTTCAGACCAGT+AGG	-	chr4_1:42744854-42744873	Msa0548580:intron	30.0%
!!	GTGTTTTGTTCTAATGATTC+CGG	-	chr4_1:42745207-42745226	Msa0548580:CDS	30.0%
!!	TGTTTTGTTCTAATGATTCC+GGG	-	chr4_1:42745208-42745227	Msa0548580:CDS	30.0%
	AGCTAGAATTCTTAGTGAAA+CGG	-	chr4_1:42745320-42745339	Msa0548580:intron	30.0%
	CTTATACTGCTTCAATTTCG+CGG	+	chr4_1:42744881-42744900	None:intergenic	35.0%
!!!	TCTTTGTGGTTTTTTAGGTG+CGG	-	chr4_1:42744993-42745012	Msa0548580:CDS	35.0%
	GATTCATCAAGACAGTGATT+CGG	-	chr4_1:42745146-42745165	Msa0548580:intron	35.0%
	ACACTACTATTAGAACTGAC+AGG	+	chr4_1:42745189-42745208	None:intergenic	35.0%
	AATTTCACAGGTAGTAGTAG+TGG	-	chr4_1:42745234-42745253	Msa0548580:intron	35.0%
	AATTTCCCCCAAAAATCCTT+CGG	+	chr4_1:42745354-42745373	None:intergenic	35.0%
!!	TTTTGGGGGAAATTGGAATT+CGG	-	chr4_1:42745360-42745379	Msa0548580:CDS	35.0%
	AAATTGGAATTCGGCGAAAT+TGG	-	chr4_1:42745369-42745388	Msa0548580:CDS	35.0%
!	TTACCCTCTTCTTTTTGCCA+GGG	+	chr4_1:42744763-42744782	None:intergenic	40.0%
	GAAACAGAGCAAACGAGAAT+TGG	-	chr4_1:42745080-42745099	Msa0548580:intron	40.0%
	CAAACGAGAATTGGAGAAAG+TGG	-	chr4_1:42745089-42745108	Msa0548580:intron	40.0%
	AATTGGAGAAAGTGGAGATG+AGG	-	chr4_1:42745097-42745116	Msa0548580:intron	40.0%
	GAATTCTTAGTGAAACGGCA+CGG	-	chr4_1:42745325-42745344	Msa0548580:intron	40.0%
!!	GAAGGATTTTTGGGGGAAAT+TGG	-	chr4_1:42745353-42745372	Msa0548580:CDS	40.0%
!	CTTCTTTTTGCCAGGGTTCT+TGG	+	chr4_1:42744756-42744775	None:intergenic	45.0%
	AGAACCCTGGCAAAAAGAAG+AGG	-	chr4_1:42744756-42744775	Msa0548580:CDS	45.0%
	GAACCCTGGCAAAAAGAAGA+GGG	-	chr4_1:42744757-42744776	Msa0548580:CDS	45.0%
!	GTTACCCTCTTCTTTTTGCC+AGG	+	chr4_1:42744764-42744783	None:intergenic	45.0%
	CGCGTGAGTTCGAATTAGAA+CGG	+	chr4_1:42744828-42744847	None:intergenic	45.0%
	CGTGAACAATGGCTATCTCA+AGG	-	chr4_1:42744913-42744932	Msa0548580:CDS	45.0%
	TTTAGGTGCGGTGAAGAAGA+AGG	-	chr4_1:42745005-42745024	Msa0548580:CDS	45.0%
	TTAGGTGCGGTGAAGAAGAA+GGG	-	chr4_1:42745006-42745025	Msa0548580:CDS	45.0%
	AAGAAGAAGGGTTGCAAGGA+TGG	-	chr4_1:42745018-42745037	Msa0548580:CDS	45.0%
	GAACTGACAGGACTGTTTGA+CGG	+	chr4_1:42745177-42745196	None:intergenic	45.0%
	ACTACCTGTGAAATTCGTCC+CGG	+	chr4_1:42745229-42745248	None:intergenic	45.0%
!!	AACAAAAAAAATTATATAAT+CGG	+	chr4_1:42744803-42744822	None:intergenic	5.0%
	CTTCAATTTCGCGGACCTAC+TGG	+	chr4_1:42744872-42744891	None:intergenic	50.0%
	TTGATGCGCGTCGTGAACAA+TGG	-	chr4_1:42744902-42744921	Msa0548580:CDS	50.0%
	GGTGAAGAAGAAGGGTTGCA+AGG	-	chr4_1:42745014-42745033	Msa0548580:CDS	50.0%
	GAAGGGTTGCAAGGATGGAT+TGG	-	chr4_1:42745023-42745042	Msa0548580:CDS	50.0%
	AAAGTGGAGATGAGGCGTAG+AGG	-	chr4_1:42745105-42745124	Msa0548580:intron	50.0%
	GATTCCGGGACGAATTTCAC+AGG	-	chr4_1:42745222-42745241	Msa0548580:intron	50.0%
!	ACGGTCGCCGAAGGATTTTT+GGG	-	chr4_1:42745344-42745363	Msa0548580:CDS	50.0%
	GTGTTAGCGGCGGAAGGAAT+CGG	+	chr4_1:42744734-42744753	None:intergenic	55.0%
!!	TTCTTGGTGTTAGCGGCGGA+AGG	+	chr4_1:42744740-42744759	None:intergenic	55.0%
!!	AGGGTTCTTGGTGTTAGCGG+CGG	+	chr4_1:42744744-42744763	None:intergenic	55.0%
!!	GCCAGGGTTCTTGGTGTTAG+CGG	+	chr4_1:42744747-42744766	None:intergenic	55.0%
	TGTCCACGTGTTGTCGTCAC+CGG	-	chr4_1:42745053-42745072	Msa0548580:CDS	55.0%
	CGTTTGCTCTGTTTCCCCAC+CGG	+	chr4_1:42745075-42745094	None:intergenic	55.0%
!	CACGGTCGCCGAAGGATTTT+TGG	-	chr4_1:42745343-42745362	Msa0548580:CDS	55.0%
!	CGGTCGCCGAAGGATTTTTG+GGG	-	chr4_1:42745345-42745364	Msa0548580:CDS	55.0%
!!	GGTCGCCGAAGGATTTTTGG+GGG	-	chr4_1:42745346-42745365	Msa0548580:CDS	55.0%
	CGGAACGGCGGCGATTGAAT+CGG	+	chr4_1:42744714-42744733	None:intergenic	60.0%
	AGCGGCGGAAGGAATCGGAA+CGG	+	chr4_1:42744729-42744748	None:intergenic	60.0%
	GCCGCTAACACCAAGAACCC+TGG	-	chr4_1:42744743-42744762	Msa0548580:CDS	60.0%
	CACGTGTTGTCGTCACCGGT+GGG	-	chr4_1:42745057-42745076	Msa0548580:CDS	60.0%
	ACGTGTTGTCGTCACCGGTG+GGG	-	chr4_1:42745058-42745077	Msa0548580:CDS	60.0%
	GTGGAGATGAGGCGTAGAGG+TGG	-	chr4_1:42745108-42745127	Msa0548580:intron	60.0%
	GATGAGGCGTAGAGGTGGAG+AGG	-	chr4_1:42745113-42745132	Msa0548580:intron	60.0%
	GGCGGAAGGAATCGGAACGG+CGG	+	chr4_1:42744726-42744745	None:intergenic	65.0%
	CCACCGGTGACGACAACACG+TGG	+	chr4_1:42745059-42745078	None:intergenic	65.0%
	CCACGTGTTGTCGTCACCGG+TGG	-	chr4_1:42745056-42745075	Msa0548580:CDS	65.0%
	TGAAACGGCACGGTCGCCGA+AGG	-	chr4_1:42745335-42745354	Msa0548580:CDS	65.0%

Chromosome	Type	Strat	End	Strand	Name
chr4_1	gene	42744704	42745401	42744704	ID=Msa0548580;Name=Msa0548580
chr4_1	mRNA	42744704	42745401	42744704	ID=Msa0548580-mRNA-1;Parent=Msa0548580;Name=Msa0548580-mRNA-1;_AED=0.26;_eAED=0.26;_QI=0\|0\|0\|0.75\|1\|1\|4\|0\|157
chr4_1	exon	42745327	42745401	42745327	ID=Msa0548580-mRNA-1:exon:11054;Parent=Msa0548580-mRNA-1
chr4_1	exon	42745171	42745237	42745171	ID=Msa0548580-mRNA-1:exon:11053;Parent=Msa0548580-mRNA-1
chr4_1	exon	42744862	42745095	42744862	ID=Msa0548580-mRNA-1:exon:11052;Parent=Msa0548580-mRNA-1
chr4_1	exon	42744704	42744801	42744704	ID=Msa0548580-mRNA-1:exon:11051;Parent=Msa0548580-mRNA-1
chr4_1	CDS	42745327	42745401	42745327	ID=Msa0548580-mRNA-1:cds;Parent=Msa0548580-mRNA-1
chr4_1	CDS	42745171	42745237	42745171	ID=Msa0548580-mRNA-1:cds;Parent=Msa0548580-mRNA-1
chr4_1	CDS	42744862	42745095	42744862	ID=Msa0548580-mRNA-1:cds;Parent=Msa0548580-mRNA-1
chr4_1	CDS	42744704	42744801	42744704	ID=Msa0548580-mRNA-1:cds;Parent=Msa0548580-mRNA-1

Gene Sequence

>Msa0548580

ATGGTTTCCGATTCAATCGCCGCCGTTCCGATTCCTTCCGCCGCTAACACCAAGAACCCTGGCAAAAAGAAGAGGACCAGTAGGTCCGCGAAATTGAAGCAGTATAAGATTGATGCGCGTCGTGAACAATGGCTATCTCAAGGTGCGGTGAAGAAGAAGGGTTGCAAGGATGGATTGGACGATGATGTCCACGTGTTGTCGTCACCGGTGGGGAAACAGAGCAAACGAGAATTGGAGAAAGTGGAGATGAGGCGTAGAGGTGGAGAGGTTGATGTGTTGATTCATCAAGACAGTGATTCGGAGTCGCCGTCAAACAGTCCTGTCAGTTCTAATAGTAGTGTGTTTTGTTCTAATGATTCCGGGACGAATTTCACAGGAAAGGAGCTTGAAGAAGCTAGAATTCTTAGTGAAACGGCACGGTCGCCGAAGGATTTTTGGGGGAAATTGGAATTCGGCGAAATTGGAATTATTTGA

Protein sequence

>Msa0548580

MVSDSIAAVPIPSAANTKNPGKKKRTSRSAKLKQYKIDARREQWLSQGAVKKKGCKDGLDDDVHVLSSPVGKQSKRELEKVEMRRRGGEVDVLIHQDSDSESPSNSPVSSNSSVFCSNDSGTNFTGKELEEARILSETARSPKDFWGKLEFGEIGII*