AlfalfaGEDB | Msa0998680

M. sativa cultivar zhongmu-4 / Msa0998680

KEGG: -
GO: -
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
Msa0998680	GAU47905.1	90.476	42	4	0	1	42	407	448	1.47e-14	77.0

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
Msa0998680	A0A2Z6PEI7	90.476	42	4	0	1	42	407	448	7.03e-15	77.0

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0009420	Msa0998680	0.816051	6.747917e-52	-8.615850e-47
Msa0015390	Msa0998680	0.807828	4.177880e-50	-8.615850e-47
Msa0064970	Msa0998680	0.810730	9.967347e-51	-8.615850e-47
Msa0117710	Msa0998680	0.812828	3.483924e-51	-8.615850e-47
Msa0626820	Msa0998680	0.802673	5.018964e-49	-8.615850e-47
Msa0675690	Msa0998680	0.807125	5.888355e-50	-8.615850e-47
Msa0686270	Msa0998680	0.867133	1.712832e-65	-8.615850e-47
Msa0766630	Msa0998680	0.818394	2.005962e-52	-8.615850e-47
Msa0800210	Msa0998680	0.806718	7.177660e-50	-8.615850e-47
Msa0824390	Msa0998680	0.818424	1.974256e-52	-8.615850e-47
Msa0191840	Msa0998680	0.803419	3.517619e-49	-8.615850e-47
Msa0201070	Msa0998680	0.817523	3.155139e-52	-8.615850e-47
Msa0220740	Msa0998680	0.808915	2.449389e-50	-8.615850e-47
Msa0237750	Msa0998680	0.876084	1.848994e-68	-8.615850e-47
Msa0402290	Msa0998680	0.840637	7.714565e-58	-8.615850e-47
Msa0434000	Msa0998680	0.804489	2.108010e-49	-8.615850e-47
Msa0459260	Msa0998680	0.802590	5.220634e-49	-8.615850e-47
Msa0998680	Msa0998690	0.820444	6.838421e-53	-8.615850e-47
Msa0998680	Msa1073240	0.912475	1.866432e-83	-8.615850e-47
Msa0998680	Msa1241130	-0.832375	9.798538e-56	-8.615850e-47
Msa0998680	Msa1248300	0.813037	3.134121e-51	-8.615850e-47
Msa0998680	Msa1397860	0.846584	1.981030e-59	-8.615850e-47
Msa0998680	Msa1424150	0.913477	5.881867e-84	-8.615850e-47
Msa0342750	Msa0998680	0.802920	4.461468e-49	-8.615850e-47
Msa0355220	Msa0998680	0.837932	3.882130e-57	-8.615850e-47
Msa0362450	Msa0998680	0.827545	1.475028e-54	-8.615850e-47
Msa0493000	Msa0998680	0.846340	2.310005e-59	-8.615850e-47
Msa0597040	Msa0998680	0.819994	8.668361e-53	-8.615850e-47
Msa0598780	Msa0998680	0.816745	4.719121e-52	-8.615850e-47
Msa0598790	Msa0998680	0.939611	9.507517e-100	-8.615850e-47
Msa0598880	Msa0998680	-0.812067	5.107718e-51	-8.615850e-47
Msa0842710	Msa0998680	0.804664	1.937521e-49	-8.615850e-47
Msa0900980	Msa0998680	0.809172	2.157972e-50	-8.615850e-47
Msa0907260	Msa0998680	0.808270	3.364166e-50	-8.615850e-47
Msa0913060	Msa0998680	0.833961	3.946587e-56	-8.615850e-47
Msa0916690	Msa0998680	0.800906	1.156867e-48	-8.615850e-47
Msa0925290	Msa0998680	0.810222	1.283112e-50	-8.615850e-47
Msa0925870	Msa0998680	0.808645	2.796988e-50	-8.615850e-47
Msa0967280	Msa0998680	0.848079	7.700738e-60	-8.615850e-47
Msa0976670	Msa0998680	0.823018	1.736166e-53	-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
Msa0998680	MtrunA17_Chr1g0186411	97.143	35	1	0	1	35	402	436	4.95e-16	69.7
Msa0998680	MtrunA17_Chr1g0168221	80.000	35	7	0	1	35	406	440	3.54e-11	56.2

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

Find 17 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
ATGGCTAAATTATTCGTATA+AGG	0.295433	6_4:+79857603	Msa0998680:three_prime_UTR
AGTTAGTACCATCTTGGAAT+TGG	0.364864	6_4:-79857679	None:intergenic
GCCATGATGCCTCTTCTTCA+CGG	0.372818	6_4:-79857323	None:intergenic
TTCCCAGCTGATTAGAGTTA+TGG	0.402928	6_4:+79857584	Msa0998680:exon
TAGCCATAACTCTAATCAGC+TGG	0.446311	6_4:-79857587	None:intergenic
ACCATCTTGGAATTGGACTT+AGG	0.515604	6_4:-79857672	None:intergenic
GGGTAGAGTTAGTACCATCT+TGG	0.533104	6_4:-79857685	None:intergenic
CAAAACGTGGAGTCAATGAG+AGG	0.543462	6_4:+79857367	Msa0998680:CDS
AAAACTAGTTTAAGAGGTGA+AGG	0.552582	6_4:-79857634	None:intergenic
AGAACTCATCCGTGAAGAAG+AGG	0.564259	6_4:+79857314	Msa0998680:CDS
AGTCAATGAGAGGGAAAAGA+AGG	0.577856	6_4:+79857377	Msa0998680:CDS
TCCGTGAAGAAGAGGCATCA+TGG	0.580342	6_4:+79857322	Msa0998680:CDS
GAGGCATCATGGCAAGCTGA+AGG	0.593174	6_4:+79857333	Msa0998680:CDS
AGCCATAACTCTAATCAGCT+GGG	0.594139	6_4:-79857586	None:intergenic
ACCTAAGTCCAATTCCAAGA+TGG	0.606889	6_4:+79857671	Msa0998680:three_prime_UTR
AAAACGTGGAGTCAATGAGA+GGG	0.644020	6_4:+79857368	Msa0998680:CDS
GGTGATCAGAAAACAAAACG+TGG	0.704649	6_4:+79857354	Msa0998680:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!	AGATTGAAATTGCATCATTA+AGG	+	chr6_4:79857424-79857443	Msa0998680:intron	25.0%
!	ATGGCTAAATTATTCGTATA+AGG	+	chr6_4:79857603-79857622	Msa0998680:three_prime_UTR	25.0%
!	AAAACTAGTTTAAGAGGTGA+AGG	-	chr6_4:79857637-79857656	None:intergenic	30.0%
!!!	TCACCTCTTAAACTAGTTTT+TGG	+	chr6_4:79857637-79857656	Msa0998680:three_prime_UTR	30.0%
!	ACTCCAAAAACTAGTTTAAG+AGG	-	chr6_4:79857643-79857662	None:intergenic	30.0%
!!!	TAAACTAGTTTTTGGAGTTG+AGG	+	chr6_4:79857645-79857664	Msa0998680:three_prime_UTR	30.0%
!!!	TCTACCCTAGTTTTGTTTTT+GGG	+	chr6_4:79857701-79857720	Msa0998680:three_prime_UTR	30.0%
	AAAGAAGGCAAAGAAAAAGC+AGG	+	chr6_4:79857392-79857411	Msa0998680:CDS	35.0%
	ATTGACTATTTGTCACAGAC+TGG	+	chr6_4:79857523-79857542	Msa0998680:intron	35.0%
	AGTTAGTACCATCTTGGAAT+TGG	-	chr6_4:79857682-79857701	None:intergenic	35.0%
!!!	CTCTACCCTAGTTTTGTTTT+TGG	+	chr6_4:79857700-79857719	Msa0998680:three_prime_UTR	35.0%
	TTGGCCCAAAAACAAAACTA+GGG	-	chr6_4:79857708-79857727	None:intergenic	35.0%
	GGTGATCAGAAAACAAAACG+TGG	+	chr6_4:79857354-79857373	Msa0998680:CDS	40.0%
	AAAACGTGGAGTCAATGAGA+GGG	+	chr6_4:79857368-79857387	Msa0998680:CDS	40.0%
	AGTCAATGAGAGGGAAAAGA+AGG	+	chr6_4:79857377-79857396	Msa0998680:CDS	40.0%
	TTCCCAGCTGATTAGAGTTA+TGG	+	chr6_4:79857584-79857603	Msa0998680:exon	40.0%
	AGCCATAACTCTAATCAGCT+GGG	-	chr6_4:79857589-79857608	None:intergenic	40.0%
	TAGCCATAACTCTAATCAGC+TGG	-	chr6_4:79857590-79857609	None:intergenic	40.0%
	ACCTAAGTCCAATTCCAAGA+TGG	+	chr6_4:79857671-79857690	Msa0998680:three_prime_UTR	40.0%
	ACCATCTTGGAATTGGACTT+AGG	-	chr6_4:79857675-79857694	None:intergenic	40.0%
	CTTGGCCCAAAAACAAAACT+AGG	-	chr6_4:79857709-79857728	None:intergenic	40.0%
	AGAACTCATCCGTGAAGAAG+AGG	+	chr6_4:79857314-79857333	Msa0998680:CDS	45.0%
	CAAAACGTGGAGTCAATGAG+AGG	+	chr6_4:79857367-79857386	Msa0998680:CDS	45.0%
	GGGTAGAGTTAGTACCATCT+TGG	-	chr6_4:79857688-79857707	None:intergenic	45.0%
!!	TCCGTGAAGAAGAGGCATCA+TGG	+	chr6_4:79857322-79857341	Msa0998680:CDS	50.0%
	GCCATGATGCCTCTTCTTCA+CGG	-	chr6_4:79857326-79857345	None:intergenic	50.0%
!	GAGGCATCATGGCAAGCTGA+AGG	+	chr6_4:79857333-79857352	Msa0998680:CDS	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr6_4	gene	79857288	79857728	79857288	ID=Msa0998680;Name=Msa0998680
chr6_4	mRNA	79857288	79857728	79857288	ID=Msa0998680-mRNA-1;Parent=Msa0998680;Name=Msa0998680-mRNA-1;_AED=0.28;_eAED=0.42;_QI=0\|1\|0.5\|1\|1\|1\|2\|134\|59
chr6_4	exon	79857288	79857413	79857288	ID=Msa0998680-mRNA-1:exon:15146;Parent=Msa0998680-mRNA-1
chr6_4	exon	79857541	79857728	79857541	ID=Msa0998680-mRNA-1:exon:15147;Parent=Msa0998680-mRNA-1
chr6_4	CDS	79857288	79857413	79857288	ID=Msa0998680-mRNA-1:cds;Parent=Msa0998680-mRNA-1
chr6_4	CDS	79857541	79857594	79857541	ID=Msa0998680-mRNA-1:cds;Parent=Msa0998680-mRNA-1
chr6_4	three_prime_UTR	79857595	79857728	79857595	ID=Msa0998680-mRNA-1:three_prime_utr;Parent=Msa0998680-mRNA-1

Gene Sequence	>Msa0998680 GAAGTTGTTGCTCTAAAGAGACAAGAAGAACTCATCCGTGAAGAAGAGGCATCATGGCAAGCTGAAGGTGATCAGAAAACAAAACGTGGAGTCAATGAGAGGGAAAAGAAGGCAAAGAAAAAGCAGACTGGAATGCAATTGTCTGACAATTATATGAGATCTGTCGAGATTCCCAGCTGA
Protein sequence	>Msa0998680 EVVALKRQEELIREEEASWQAEGDQKTKRGVNEREKKAKKKQTGMQLSDNYMRSVEIPS*