AlfalfaGEDB | Msa0277560

M. sativa cultivar zhongmu-4 / Msa0277560

KEGG: -
GO: GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0005488 GO:0097159 GO:1901363
PFAM: PF00642.27

Nr:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0277560	XP_003593956.1	98.133	482	5	1	1	478	1	482	0.0	939

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Swissprot:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0277560	sp\|Q6NPN3\|C3H58_ARATH	51.277	470	199	13	11	469	15	465	2.54e-136	404

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Trembl:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0277560	G7IPY9	98.133	482	5	1	1	478	1	482	0.0	939

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TFs/TRs:

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Gene ID	Type	Classification
Msa0277560	TF	C3H

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Protein Kinases:

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Gene ID	Type	Classification
No data available in table

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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0048150	Msa0277560	-0.800692	1.279103e-48	-8.615850e-47
Msa0194950	Msa0277560	0.806958	6.387909e-50	-8.615850e-47
Msa0277560	Msa0315440	0.820247	7.588679e-53	-8.615850e-47
Msa0277560	Msa0429030	-0.812979	3.227150e-51	-8.615850e-47
Msa0277560	Msa0666270	-0.805749	1.148680e-49	-8.615850e-47

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PPI

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Gene1	Gene2	Type
No data available in table

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Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0277560	MtrunA17_Chr2g0286151	98.133	482	5	1	1	478	1	482	0.0	939
Msa0277560	MtrunA17_Chr4g0066941	67.012	482	119	6	11	460	18	491	0.0	545
Msa0277560	MtrunA17_Chr1g0195891	49.862	363	148	10	1	349	1	343	1.46e-97	297
Msa0277560	MtrunA17_Chr7g0249221	42.079	404	195	12	26	413	8	388	2.85e-93	289
Msa0277560	MtrunA17_Chr7g0249221	29.193	161	57	3	12	115	190	350	3.08e-12	68.2
Msa0277560	MtrunA17_Chr5g0438891	38.012	342	173	13	40	379	36	340	9.47e-61	204
Msa0277560	MtrunA17_Chr5g0438891	44.578	83	45	1	38	120	76	157	2.82e-18	86.7
Msa0277560	MtrunA17_Chr5g0438891	40.964	83	47	1	33	115	255	335	3.40e-13	71.2
Msa0277560	MtrunA17_Chr3g0116431	34.659	352	178	10	35	375	166	476	1.87e-55	192
Msa0277560	MtrunA17_Chr4g0058011	34.085	355	178	11	36	378	227	537	1.72e-52	186

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Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0277560	AT5G18550.1	51.277	470	199	13	11	469	15	465	2.58e-137	404
Msa0277560	AT5G18550.4	53.258	445	178	13	11	444	15	440	1.03e-136	402
Msa0277560	AT3G06410.1	56.391	399	154	8	8	395	12	401	2.00e-132	391
Msa0277560	AT5G18550.3	51.936	439	185	12	38	469	14	433	1.89e-131	387
Msa0277560	AT2G47850.1	50.805	435	196	10	15	449	18	434	2.85e-131	388
Msa0277560	AT2G47850.3	50.805	435	196	10	15	449	18	434	2.85e-131	388
Msa0277560	AT5G18550.2	49.574	470	194	13	11	469	15	452	1.13e-129	384
Msa0277560	AT2G47850.2	46.437	435	189	11	15	449	18	408	2.40e-108	329
Msa0277560	AT3G02830.1	41.316	380	173	10	26	390	18	362	2.46e-87	273
Msa0277560	AT3G02830.2	41.645	377	170	10	29	390	1	342	7.62e-87	271

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Find 218 sgRNAs with CRISPR-Local

Find 448 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAACGGGACAATGCAAGTT+TGG	0.420191	2_3:-10146491	Msa0277560:CDS
AAAAGGAAGCTCCTCTGGTT+TGG	0.424409	2_3:+10145905	None:intergenic
AAAGGTGAAACCGAGGGAAC+CGG	0.523526	2_3:+10146410	None:intergenic
AAAGTGTGTCTATGTCCGCG+TGG	0.698000	2_3:-10147690	Msa0277560:five_prime_UTR
AAATGGAAAGGAAGGGTGGT+TGG	0.531666	2_3:+10147563	None:intergenic
AAATTGATAAGGTCCAGTAT+AGG	0.563165	2_3:+10146016	None:intergenic
AAATTGGGGTACTGGTCGCA+AGG	0.614330	2_3:-10146322	Msa0277560:CDS
AACCTGATCCGTCTTCTCAA+TGG	0.496083	2_3:-10147476	Msa0277560:CDS
AACCTGTATTTAATATTTAT+AGG	0.308915	2_3:-10142076	Msa0277560:three_prime_UTR
AACGAACCATGTAGTAGAGG+TGG	0.645568	2_3:+10146299	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
GAAGATAGATTACTCTTCAA+TGG	-	chr2_3:10142154-10142173	Msa0277560:three_prime_UTR	30.0%
TGTTTGTTTACCTTCTAAAC+CGG	+	chr2_3:10142243-10142262	None:intergenic	30.0%
AAGGAAAAATAGAAAGAACC+TGG	+	chr2_3:10142625-10142644	None:intergenic	30.0%
CTGAAAAAGTAGTATGTGTT+TGG	-	chr2_3:10142792-10142811	Msa0277560:CDS	30.0%
AAATTGATAAGGTCCAGTAT+AGG	+	chr2_3:10143661-10143680	None:intergenic	30.0%
TAATGATACTCTGGTTGATT+AGG	+	chr2_3:10143744-10143763	None:intergenic	30.0%
TTGGAGTAATAATGATACTC+TGG	+	chr2_3:10143753-10143772	None:intergenic	30.0%
AGTTGTGAAATATATCTCCA+CGG	-	chr2_3:10143928-10143947	Msa0277560:intron	30.0%
AATTATGCATAAATGCCCAT+TGG	-	chr2_3:10144268-10144287	Msa0277560:intron	30.0%
GATTAAAATACTCGTCCAAT+GGG	+	chr2_3:10144286-10144305	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr2_3	gene	10141892	10147804	10141892	ID=Msa0277560;Name=Msa0277560
chr2_3	mRNA	10141892	10147804	10141892	ID=Msa0277560-mRNA-1;Parent=Msa0277560;Name=Msa0277560-mRNA-1;_AED=0.05;_eAED=0.05;_QI=261\|1\|1\|1\|0.85\|0.75\|8\|687\|478
chr2_3	exon	10141892	10142968	10141892	ID=Msa0277560-mRNA-1:exon:4521;Parent=Msa0277560-mRNA-1
chr2_3	exon	10145815	10146135	10145815	ID=Msa0277560-mRNA-1:exon:4520;Parent=Msa0277560-mRNA-1
chr2_3	exon	10146226	10146540	10146226	ID=Msa0277560-mRNA-1:exon:4519;Parent=Msa0277560-mRNA-1
chr2_3	exon	10146671	10146793	10146671	ID=Msa0277560-mRNA-1:exon:4518;Parent=Msa0277560-mRNA-1
chr2_3	exon	10147071	10147136	10147071	ID=Msa0277560-mRNA-1:exon:4517;Parent=Msa0277560-mRNA-1
chr2_3	exon	10147228	10147370	10147228	ID=Msa0277560-mRNA-1:exon:4516;Parent=Msa0277560-mRNA-1
chr2_3	exon	10147445	10147589	10147445	ID=Msa0277560-mRNA-1:exon:4515;Parent=Msa0277560-mRNA-1
chr2_3	exon	10147610	10147804	10147610	ID=Msa0277560-mRNA-1:exon:4514;Parent=Msa0277560-mRNA-1
chr2_3	five_prime_UTR	10147610	10147804	10147610	ID=Msa0277560-mRNA-1:five_prime_utr;Parent=Msa0277560-mRNA-1
chr2_3	five_prime_UTR	10147524	10147589	10147524	ID=Msa0277560-mRNA-1:five_prime_utr;Parent=Msa0277560-mRNA-1
chr2_3	CDS	10147445	10147523	10147445	ID=Msa0277560-mRNA-1:cds;Parent=Msa0277560-mRNA-1
chr2_3	CDS	10147228	10147370	10147228	ID=Msa0277560-mRNA-1:cds;Parent=Msa0277560-mRNA-1
chr2_3	CDS	10147071	10147136	10147071	ID=Msa0277560-mRNA-1:cds;Parent=Msa0277560-mRNA-1
chr2_3	CDS	10146671	10146793	10146671	ID=Msa0277560-mRNA-1:cds;Parent=Msa0277560-mRNA-1
chr2_3	CDS	10146226	10146540	10146226	ID=Msa0277560-mRNA-1:cds;Parent=Msa0277560-mRNA-1
chr2_3	CDS	10145815	10146135	10145815	ID=Msa0277560-mRNA-1:cds;Parent=Msa0277560-mRNA-1
chr2_3	CDS	10142579	10142968	10142579	ID=Msa0277560-mRNA-1:cds;Parent=Msa0277560-mRNA-1
chr2_3	three_prime_UTR	10141892	10142578	10141892	ID=Msa0277560-mRNA-1:three_prime_utr;Parent=Msa0277560-mRNA-1

Gene Sequence

>Msa0277560

ATGGACCACTTTCCTCGCTCCACTCAACCTGATCCGTCTTCTCAATGGACCGGACCGGATTCTCAAACCGGTTTAGAAGAACCTATGTGGCAATTGGGGTTAGGTGGTGAAGATTCCTATCCACAACGACCTGATGAGGTTGATTGCACTTACTATTTGAGAACTGGTTTTTGTGGCTTTGGTTCTAGGTGTCGGTTCAATCATCCTCGTGACCGTGCCGCGGTTATTGGAGCTGCTTCTAGGACTGTTGGGGAGTATCCTGAACGTGTTGGACAGCCTGTGTGCCAGTATTATATGAGGACAAGATCTTGCAAATTTGGTGCGTCTTGCAAGTATCATCATCCGAAACAGACAGGAGCTACTGATGCTAGCCCTGTTTCACTAAATTATTATGGATATCCGTTACGTCCGGGTGAAAAGGAATGTTCATATTTTGTGAAAACGGGACAATGCAAGTTTGGTGCAACTTGTAAATTTGATCATCCAGTTCCTGCTAGTGTACAAATTCCAGCTCCATCGCCGGTTCCCTCGGTTTCACCTTTACATGTACCAGTACCTTCCCCATTGTATCCAACCGTACAGACTCCATCTGGACCTTCTTCACAACAAATTGGGGTACTGGTCGCAAGGCCACCTCTACTACATGGTTCGTTTGTCCAGAGCCCCTATGGACCTATGGTATTGTCCCCAACCATGGTTCCTTTTTCTGGCTGGGGTCCTTATCAGGCTACTGCAACAAGCCCTGTACTTCCTTCTGGTTCTCCAGCTAATGTTGGCTCCACACAGCTTTATGGGATAACCCAGCTACCTTCACCGGGTAATGCCTATACTGGACCTTATCAATTTTCTGGTTCCTCAGTCGGTCCTTCAAGCAGAAATCAGAACGAGCAATCATTTCCAGCAAGTCCTAATCAACCAGAGTATCATTATTACTCCAAACCAGAGGAGCTTCCTTTTGCTCCATCTTATAGGTATCACAAACCACCAGACATGAGTGCACCAAAAGTGAATGCCGTCCTTAGCCCTGCAGGGCTTCCGTTACGTCCGGGAGCAGCACTCTGCACTCATTACGCACAGCGTGGTATATGCAAGTTTGGTCCTGCATGCAAATTTGATCATCCTATTGCACCACTGAGTTACAGTCCATCTGCCTCTTCCCTGACAGATGTACCAGTTGCACCCTACTTTGTGGGTTCATCCGTTGGTACTCTTGTTCCTTCATCTTCTTCACCAGAGTTGCAGCCAGAACTTACTGCAGGATCCAACAGGGAGTCTGTTCCTTCTAGAATATCGTCATCAGTAAGCACATCAACTGGATCAGTTGGCTTGACTTTGCCAACTGGTGGCCCTGTTTCTCAATCAAGCACTCGAAGTTCTAGTCCTTTAGCACCTGCCAATACCACGACAAGTAGCAATGTTTCTCACCCCTCAAATTAA

Protein sequence

>Msa0277560

MDHFPRSTQPDPSSQWTGPDSQTGLEEPMWQLGLGGEDSYPQRPDEVDCTYYLRTGFCGFGSRCRFNHPRDRAAVIGAASRTVGEYPERVGQPVCQYYMRTRSCKFGASCKYHHPKQTGATDASPVSLNYYGYPLRPGEKECSYFVKTGQCKFGATCKFDHPVPASVQIPAPSPVPSVSPLHVPVPSPLYPTVQTPSGPSSQQIGVLVARPPLLHGSFVQSPYGPMVLSPTMVPFSGWGPYQATATSPVLPSGSPANVGSTQLYGITQLPSPGNAYTGPYQFSGSSVGPSSRNQNEQSFPASPNQPEYHYYSKPEELPFAPSYRYHKPPDMSAPKVNAVLSPAGLPLRPGAALCTHYAQRGICKFGPACKFDHPIAPLSYSPSASSLTDVPVAPYFVGSSVGTLVPSSSSPELQPELTAGSNRESVPSRISSSVSTSTGSVGLTLPTGGPVSQSSTRSSSPLAPANTTTSSNVSHPSN*