AlfalfaGEDB | Msa0052840

M. sativa cultivar zhongmu-4 / Msa0052840

KEGG: -
GO: GO:0000003 GO:0001101 GO:0003006 GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006950 GO:0006970 GO:0007154 GO:0007165 GO:0007275 GO:0008150 GO:0009414 GO:0009415 GO:0009628 GO:0009651 GO:0009719 GO:0009725 GO:0009737 GO:0009739 GO:0009743 GO:0009756 GO:0009791 GO:0009845 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010029 GO:0010033 GO:0010035 GO:0010154 GO:0010182 GO:0010187 GO:0010200 GO:0010243 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0019219 GO:0019222 GO:0022414 GO:0023052 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032501 GO:0032502 GO:0033993 GO:0042221 GO:0042493 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0045893 GO:0045935 GO:0048316 GO:0048518 GO:0048519 GO:0048522 GO:0048580 GO:0048581 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051093 GO:0051171 GO:0051173 GO:0051239 GO:0051241 GO:0051252 GO:0051254 GO:0051716 GO:0060255 GO:0061458 GO:0065007 GO:0070887 GO:0071310 GO:0071322 GO:0080090 GO:0090351 GO:0097305 GO:0140110 GO:1900140 GO:1901698 GO:1901700 GO:1901701 GO:1902680 GO:1903506 GO:1903508 GO:2000026 GO:2000112 GO:2001141
PFAM: PF00170.24

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0052840	KEH40004.1	97.241	145	4	0	1	145	1	145	1.10e-97	287

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0052840	sp\|Q9SI15\|BZIP2_ARATH	43.750	80	45	0	45	124	16	95	5.76e-13	65.9

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0052840	A0A072VDB1	97.241	145	4	0	1	145	1	145	5.25e-98	287

TFs/TRs:

Gene ID	Type	Classification
Msa0052840	TF	bZIP

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0052840	Msa0097660	0.898876	3.449878e-77	-8.615850e-47
Msa0052840	Msa0097880	0.964445	2.458322e-123	-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
Msa0052840	MtrunA17_Chr1g0152241	97.241	145	4	0	1	145	1	145	1.01e-101	287
Msa0052840	MtrunA17_Chr3g0135061	58.333	144	56	2	1	144	1	140	6.13e-50	156
Msa0052840	MtrunA17_Chr4g0054291	47.154	123	47	3	22	128	23	143	6.61e-20	80.9
Msa0052840	MtrunA17_Chr5g0400901	45.082	122	51	3	31	139	22	140	4.62e-18	75.9
Msa0052840	MtrunA17_Chr8g0378901	41.584	101	53	2	45	143	18	114	8.68e-15	67.4
Msa0052840	MtrunA17_Chr1g0194681	37.273	110	62	2	34	143	4	106	1.28e-13	63.9
Msa0052840	MtrunA17_Chr1g0155551	41.111	90	51	1	35	124	7	94	1.85e-12	61.2
Msa0052840	MtrunA17_Chr3g0144941	43.902	82	44	1	43	124	15	94	2.03e-12	60.8
Msa0052840	MtrunA17_Chr4g0035414	43.750	80	43	1	45	124	17	94	2.43e-12	60.8
Msa0052840	MtrunA17_Chr7g0225661	44.156	77	43	0	59	135	83	159	1.18e-11	59.7
Msa0052840	MtrunA17_Chr8g0341311	42.857	77	44	0	59	135	73	149	1.76e-11	58.9

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0052840	AT3G49760.1	38.849	139	77	2	9	139	13	151	1.30e-20	82.8
Msa0052840	AT2G22850.1	45.783	83	45	0	57	139	126	208	2.32e-15	70.5
Msa0052840	AT2G22850.2	45.783	83	45	0	57	139	126	208	2.32e-15	70.5
Msa0052840	AT2G18160.1	43.750	80	45	0	45	124	16	95	5.86e-14	65.9
Msa0052840	AT1G75390.1	41.667	84	49	0	45	128	26	109	3.30e-13	63.9
Msa0052840	AT4G37730.1	51.471	68	33	0	57	124	194	261	3.94e-13	65.5
Msa0052840	AT1G75390.2	41.463	82	48	0	43	124	24	105	1.01e-12	61.2
Msa0052840	AT1G59530.1	39.344	122	68	2	18	139	14	129	1.02e-11	59.3
Msa0052840	AT5G15830.1	38.835	103	59	2	26	128	44	142	1.02e-11	60.1

Find 45 sgRNAs with CRISPR-Local

Find 53 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
GTCCCTCATGGCAACACTTT+TGG	0.232653	1_2:+7196790	Msa0052840:CDS
CGATTTGAACCGGTTGAGAA+TGG	0.382249	1_2:+7196676	Msa0052840:CDS
TTGTGAACCGGACCCTGGAC+TGG	0.414459	1_2:-7196534	None:intergenic
ACCGGTTGAGAATGGAAAAC+CGG	0.420192	1_2:+7196684	Msa0052840:CDS
GGTCCGGCTCACGTGTGTTC+CGG	0.430584	1_2:+7196439	Msa0052840:CDS
TAAGGAGAATGCAATCAAAC+CGG	0.448119	1_2:+7196597	Msa0052840:CDS
ACCTCACGAACGATTTGAAC+CGG	0.459693	1_2:+7196666	Msa0052840:CDS
ATTGCATGGTTAACCCTAGC+TGG	0.474346	1_2:-7196718	None:intergenic
GGACCGGATACTCCTCTTCA+TGG	0.477097	1_2:-7196421	None:intergenic
ACGACTTGATCCTTGTGAAC+CGG	0.478619	1_2:-7196546	None:intergenic
GTGAACATGGTTTCATGAAC+CGG	0.479700	1_2:-7196458	None:intergenic
CCTGGACTGGATGGATCAAC+CGG	0.484260	1_2:-7196521	None:intergenic
CCGGTTGATCCATCCAGTCC+AGG	0.489171	1_2:+7196521	Msa0052840:CDS
GATCCTTGTGAACCGGACCC+TGG	0.490890	1_2:-7196539	None:intergenic
GATCAACCGGTTGGTTAATG+AGG	0.507162	1_2:-7196508	None:intergenic
GAACCGGAACACACGTGAGC+CGG	0.519769	1_2:-7196442	None:intergenic
GATCCATCCAGTCCAGGGTC+CGG	0.524687	1_2:+7196527	Msa0052840:CDS
CTTCCATGAAGAGGAGTATC+CGG	0.526400	1_2:+7196418	Msa0052840:CDS
GGAACACACGTGAGCCGGAC+CGG	0.528631	1_2:-7196437	None:intergenic
GTTCACACAAGGCGAAATAG+AGG	0.540753	1_2:+7196475	Msa0052840:CDS
ATCCAAAAGTGTTGCCATGA+GGG	0.543780	1_2:-7196792	None:intergenic
TATTTCGCCTTGTGTGAACA+TGG	0.548387	1_2:-7196471	None:intergenic
CCGGTTGAGAATGGAAAACC+GGG	0.557045	1_2:+7196685	Msa0052840:CDS
AATCAAACCGGGAGTCGGCT+AGG	0.560261	1_2:+7196609	Msa0052840:CDS
ATCAGAATCAATGTCCCTCA+TGG	0.566320	1_2:+7196778	Msa0052840:CDS
AGCAATGTCCTTCCATGAAG+AGG	0.576455	1_2:+7196409	None:intergenic
GAACCGGACCCTGGACTGGA+TGG	0.582397	1_2:-7196530	None:intergenic
ATGAAGAGGAGTATCCGGTC+CGG	0.588642	1_2:+7196423	Msa0052840:CDS
AGTCCAGGGTCCGGTTCACA+AGG	0.591544	1_2:+7196536	Msa0052840:CDS
ACCGGTTCAAATCGTTCGTG+AGG	0.594738	1_2:-7196667	None:intergenic
CGGATACTCCTCTTCATGGA+AGG	0.596073	1_2:-7196417	None:intergenic
CGGTTGATCCATCCAGTCCA+GGG	0.598027	1_2:+7196522	Msa0052840:CDS
GACTGGATGGATCAACCGGT+TGG	0.601414	1_2:-7196517	None:intergenic
GTGACCGCCTAGCCGACTCC+CGG	0.602249	1_2:-7196616	None:intergenic
TAATATGAGATTGTATTGCA+TGG	0.609971	1_2:-7196732	None:intergenic
ATCAACCGGTTGGTTAATGA+GGG	0.611428	1_2:-7196507	None:intergenic
AATGCAATCAAACCGGGAGT+CGG	0.621410	1_2:+7196604	Msa0052840:CDS
ATACAATCTCATATTATCAA+CGG	0.623568	1_2:+7196739	Msa0052840:CDS
AAGGAGAATGCAATCAAACC+GGG	0.631263	1_2:+7196598	Msa0052840:CDS
CATGAAACCATGTTCACACA+AGG	0.636957	1_2:+7196464	Msa0052840:CDS
GATCCAAAAGTGTTGCCATG+AGG	0.664933	1_2:-7196793	None:intergenic
TTCACAAGGATCAAGTCGTG+CGG	0.675020	1_2:+7196550	Msa0052840:CDS
AGTCGGCTAGGCGGTCACGT+TGG	0.676204	1_2:+7196621	Msa0052840:CDS
GGTCACGTTGGAGAAAGAAG+CGG	0.707696	1_2:+7196633	Msa0052840:CDS
CAAACCGGGAGTCGGCTAGG+CGG	0.728540	1_2:+7196612	Msa0052840:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	ATACAATCTCATATTATCAA+CGG	+	chr1_2:7196739-7196758	Msa0052840:CDS	20.0%
!	TAATATGAGATTGTATTGCA+TGG	-	chr1_2:7196735-7196754	None:intergenic	25.0%
!!!	TTCTCCTTATTTTTCTCTCA+CGG	-	chr1_2:7196586-7196605	None:intergenic	30.0%
!	CAACACTTTTGGATCTATAT+CGG	+	chr1_2:7196801-7196820	Msa0052840:CDS	30.0%
!	ATTTTCCCTCATTAACCAAC+CGG	+	chr1_2:7196502-7196521	Msa0052840:CDS	35.0%
!!!	TCTCCTTATTTTTCTCTCAC+GGG	-	chr1_2:7196585-7196604	None:intergenic	35.0%
	TAAGGAGAATGCAATCAAAC+CGG	+	chr1_2:7196597-7196616	Msa0052840:CDS	35.0%
	GTGAACATGGTTTCATGAAC+CGG	-	chr1_2:7196461-7196480	None:intergenic	40.0%
	CATGAAACCATGTTCACACA+AGG	+	chr1_2:7196464-7196483	Msa0052840:CDS	40.0%
	TATTTCGCCTTGTGTGAACA+TGG	-	chr1_2:7196474-7196493	None:intergenic	40.0%
!	ATCAACCGGTTGGTTAATGA+GGG	-	chr1_2:7196510-7196529	None:intergenic	40.0%
	AAGGAGAATGCAATCAAACC+GGG	+	chr1_2:7196598-7196617	Msa0052840:CDS	40.0%
!!!	CTAGCTGGTTTTTTAGTTCC+CGG	-	chr1_2:7196706-7196725	None:intergenic	40.0%
	GGGAACTAAAAAACCAGCTA+GGG	+	chr1_2:7196705-7196724	Msa0052840:CDS	40.0%
	ATCAGAATCAATGTCCCTCA+TGG	+	chr1_2:7196778-7196797	Msa0052840:CDS	40.0%
!!	ATCCAAAAGTGTTGCCATGA+GGG	-	chr1_2:7196795-7196814	None:intergenic	40.0%
!!	CTTCCATGAAGAGGAGTATC+CGG	+	chr1_2:7196418-7196437	Msa0052840:CDS	45.0%
	GTTCACACAAGGCGAAATAG+AGG	+	chr1_2:7196475-7196494	Msa0052840:CDS	45.0%
!	GATCAACCGGTTGGTTAATG+AGG	-	chr1_2:7196511-7196530	None:intergenic	45.0%
	ACGACTTGATCCTTGTGAAC+CGG	-	chr1_2:7196549-7196568	None:intergenic	45.0%
	TTCACAAGGATCAAGTCGTG+CGG	+	chr1_2:7196550-7196569	Msa0052840:CDS	45.0%
	CGACCCGTGAGAGAAAAATA+AGG	+	chr1_2:7196579-7196598	Msa0052840:CDS	45.0%
	AATGCAATCAAACCGGGAGT+CGG	+	chr1_2:7196604-7196623	Msa0052840:CDS	45.0%
	ACCTCACGAACGATTTGAAC+CGG	+	chr1_2:7196666-7196685	Msa0052840:CDS	45.0%
	CGATTTGAACCGGTTGAGAA+TGG	+	chr1_2:7196676-7196695	Msa0052840:CDS	45.0%
	ACCGGTTGAGAATGGAAAAC+CGG	+	chr1_2:7196684-7196703	Msa0052840:CDS	45.0%
	CGGGAACTAAAAAACCAGCT+AGG	+	chr1_2:7196704-7196723	Msa0052840:CDS	45.0%
	ATTGCATGGTTAACCCTAGC+TGG	-	chr1_2:7196721-7196740	None:intergenic	45.0%
!!	GATCCAAAAGTGTTGCCATG+AGG	-	chr1_2:7196796-7196815	None:intergenic	45.0%
	CGGATACTCCTCTTCATGGA+AGG	-	chr1_2:7196420-7196439	None:intergenic	50.0%
!!	ATGAAGAGGAGTATCCGGTC+CGG	+	chr1_2:7196423-7196442	Msa0052840:CDS	50.0%
	GGTCACGTTGGAGAAAGAAG+CGG	+	chr1_2:7196633-7196652	Msa0052840:CDS	50.0%
!	ACCGGTTCAAATCGTTCGTG+AGG	-	chr1_2:7196670-7196689	None:intergenic	50.0%
!	CCCGGTTTTCCATTCTCAAC+CGG	-	chr1_2:7196688-7196707	None:intergenic	50.0%
	CCGGTTGAGAATGGAAAACC+GGG	+	chr1_2:7196685-7196704	Msa0052840:CDS	50.0%
!	GTCCCTCATGGCAACACTTT+TGG	+	chr1_2:7196790-7196809	Msa0052840:CDS	50.0%
	GGACCGGATACTCCTCTTCA+TGG	-	chr1_2:7196424-7196443	None:intergenic	55.0%
	GACTGGATGGATCAACCGGT+TGG	-	chr1_2:7196520-7196539	None:intergenic	55.0%
!	CCTGGACTGGATGGATCAAC+CGG	-	chr1_2:7196524-7196543	None:intergenic	55.0%
	CGGTTGATCCATCCAGTCCA+GGG	+	chr1_2:7196522-7196541	Msa0052840:CDS	55.0%
	AATCAAACCGGGAGTCGGCT+AGG	+	chr1_2:7196609-7196628	Msa0052840:CDS	55.0%
	GAACCGGAACACACGTGAGC+CGG	-	chr1_2:7196445-7196464	None:intergenic	60.0%
	CCGGTTGATCCATCCAGTCC+AGG	+	chr1_2:7196521-7196540	Msa0052840:CDS	60.0%
	GATCCATCCAGTCCAGGGTC+CGG	+	chr1_2:7196527-7196546	Msa0052840:CDS	60.0%
	TTGTGAACCGGACCCTGGAC+TGG	-	chr1_2:7196537-7196556	None:intergenic	60.0%
	AGTCCAGGGTCCGGTTCACA+AGG	+	chr1_2:7196536-7196555	Msa0052840:CDS	60.0%
	GATCCTTGTGAACCGGACCC+TGG	-	chr1_2:7196542-7196561	None:intergenic	60.0%
	GGAACACACGTGAGCCGGAC+CGG	-	chr1_2:7196440-7196459	None:intergenic	65.0%
	GGTCCGGCTCACGTGTGTTC+CGG	+	chr1_2:7196439-7196458	Msa0052840:CDS	65.0%
!	GAACCGGACCCTGGACTGGA+TGG	-	chr1_2:7196533-7196552	None:intergenic	65.0%
	CAAACCGGGAGTCGGCTAGG+CGG	+	chr1_2:7196612-7196631	Msa0052840:CDS	65.0%
	AGTCGGCTAGGCGGTCACGT+TGG	+	chr1_2:7196621-7196640	Msa0052840:CDS	65.0%
!	GTGACCGCCTAGCCGACTCC+CGG	-	chr1_2:7196619-7196638	None:intergenic	70.0%

Chromosome	Type	Strat	End	Strand	Name
chr1_2	gene	7196413	7196850	7196413	ID=Msa0052840;Name=Msa0052840
chr1_2	mRNA	7196413	7196850	7196413	ID=Msa0052840-mRNA-1;Parent=Msa0052840;Name=Msa0052840-mRNA-1;_AED=0.00;_eAED=0.00;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|145
chr1_2	exon	7196413	7196850	7196413	ID=Msa0052840-mRNA-1:exon:2428;Parent=Msa0052840-mRNA-1
chr1_2	CDS	7196413	7196850	7196413	ID=Msa0052840-mRNA-1:cds;Parent=Msa0052840-mRNA-1

Gene Sequence

>Msa0052840

ATGTCCTTCCATGAAGAGGAGTATCCGGTCCGGCTCACGTGTGTTCCGGTTCATGAAACCATGTTCACACAAGGCGAAATAGAGGAGTTATTTTCCCTCATTAACCAACCGGTTGATCCATCCAGTCCAGGGTCCGGTTCACAAGGATCAAGTCGTGCGGTTTACTCGACCCGTGAGAGAAAAATAAGGAGAATGCAATCAAACCGGGAGTCGGCTAGGCGGTCACGTTGGAGAAAGAAGCGGCACGTAGAGAACCTCACGAACGATTTGAACCGGTTGAGAATGGAAAACCGGGAACTAAAAAACCAGCTAGGGTTAACCATGCAATACAATCTCATATTATCAACGGAGAATGAACGTCTAAGATCAGAATCAATGTCCCTCATGGCAACACTTTTGGATCTATATCGGACTTTAGAGACAATAATTTCACAATAG

Protein sequence

>Msa0052840

MSFHEEEYPVRLTCVPVHETMFTQGEIEELFSLINQPVDPSSPGSGSQGSSRAVYSTRERKIRRMQSNRESARRSRWRKKRHVENLTNDLNRLRMENRELKNQLGLTMQYNLILSTENERLRSESMSLMATLLDLYRTLETIISQ*