AlfalfaGEDB | Msa0013250

M. sativa cultivar zhongmu-4 / Msa0013250

KEGG: -
GO: GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005886 GO:0006950 GO:0008104 GO:0008150 GO:0009266 GO:0009409 GO:0009628 GO:0009909 GO:0010048 GO:0016020 GO:0031974 GO:0031981 GO:0033036 GO:0034613 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043565 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0048580 GO:0048831 GO:0050789 GO:0050793 GO:0050896 GO:0051179 GO:0051239 GO:0051641 GO:0065007 GO:0070013 GO:0070727 GO:0071944 GO:0097159 GO:1901363 GO:2000026 GO:2000241
PFAM: PF02362.24

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
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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
Msa0013250	sp\|Q8L3W1\|VRN1_ARATH	42.353	340	118	9	5	270	4	339	4.13e-76	238

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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
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TFs/TRs:

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Gene ID	Type	Classification
Msa0013250	TF	B3

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Protein Kinases:

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Gene ID	Type	Classification
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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0013250	Msa0064920	0.804165	2.462593e-49	-8.615850e-47
Msa0013250	Msa0106470	0.927934	5.871514e-92	-8.615850e-47

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PPI

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Gene1	Gene2	Type
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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
Msa0013250	MtrunA17_Chr1g0162411	87.261	157	20	0	1	157	1	157	4.76e-99	297
Msa0013250	MtrunA17_Chr1g0162411	73.958	96	11	1	154	235	296	391	3.45e-40	144
Msa0013250	MtrunA17_Chr1g0162441	68.824	170	50	2	1	167	1	170	7.61e-76	237
Msa0013250	MtrunA17_Chr1g0162441	63.971	136	32	4	155	275	267	400	3.69e-46	160
Msa0013250	MtrunA17_Chr4g0033961	48.077	156	78	2	5	157	4	159	4.73e-46	160
Msa0013250	MtrunA17_Chr4g0033961	56.204	137	43	4	155	276	263	397	2.26e-40	145
Msa0013250	MtrunA17_Chr5g0429931	35.769	260	126	9	22	267	10	242	2.51e-37	132
Msa0013250	MtrunA17_Chr3g0077451	32.830	265	120	8	21	267	10	234	1.16e-33	122
Msa0013250	MtrunA17_Chr3g0077411	30.000	280	151	5	7	266	262	516	5.74e-33	126
Msa0013250	MtrunA17_Chr3g0077411	30.466	279	133	9	7	272	25	255	5.16e-27	109

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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
Msa0013250	AT3G18990.1	42.353	340	118	9	5	270	4	339	4.20e-77	238
Msa0013250	AT3G18990.2	42.059	340	119	9	5	270	4	339	8.76e-76	236
Msa0013250	AT1G49480.3	54.795	146	48	4	140	270	82	224	4.88e-41	142
Msa0013250	AT1G49480.1	54.795	146	48	4	140	270	82	224	4.88e-41	142
Msa0013250	AT1G49480.2	54.795	146	48	4	140	270	82	224	4.88e-41	142
Msa0013250	AT4G01580.1	40.196	102	59	1	4	103	27	128	2.76e-20	86.3
Msa0013250	AT3G18960.1	38.542	96	59	0	4	99	27	122	1.15e-18	82.4
Msa0013250	AT3G18960.2	38.542	96	59	0	4	99	27	122	1.61e-18	81.6
Msa0013250	AT1G49475.1	30.534	131	88	2	2	130	29	158	4.24e-13	67.0
Msa0013250	AT3G18960.3	36.905	84	53	0	16	99	2	85	1.02e-12	65.5

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Find 91 sgRNAs with CRISPR-Local

Find 384 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAATTTGCTCCAAATCTGGT+AGG	0.596789	1_1:-20519805	None:intergenic
AACCCTTCAATCTAAGCAAT+TGG	0.424880	1_1:+20514575	Msa0013250:CDS
AACTTGCAACACTACATCTC+TGG	0.504545	1_1:-20519998	None:intergenic
AAGAGAAAGGGCAATGAATG+AGG	0.560927	1_1:+20519609	Msa0013250:CDS
AAGAGAACGGTTTAGGGGAA+GGG	0.530709	1_1:+20519947	Msa0013250:CDS
AAGCTATGTTGCATAGGTAT+GGG	0.564739	1_1:-20520504	None:intergenic
AATGCACCAGTAGGGTTTGA+AGG	0.471364	1_1:-20517520	None:intergenic
ACAAGACAGTAAGGATTAGT+TGG	0.522215	1_1:-20519646	None:intergenic
ACGAGTACCGTACGCGTACC+CGG	0.614617	1_1:-20520209	None:intergenic
ACGCCACTGTTTCTCACCAT+CGG	0.581074	1_1:-20519863	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TACCAATTGCTTAGATTGAA+GGG	-	chr1_1:20514580-20514599	None:intergenic	30.0%
TTACCAATTGCTTAGATTGA+AGG	-	chr1_1:20514581-20514600	None:intergenic	30.0%
GAAACAAAAAAACATGGAAG+GGG	-	chr1_1:20514647-20514666	None:intergenic	30.0%
CAGAAACAAAAAAACATGGA+AGG	-	chr1_1:20514649-20514668	None:intergenic	30.0%
CTTTATGAAAAGGGGAATTA+GGG	-	chr1_1:20514716-20514735	None:intergenic	30.0%
ACTTTATGAAAAGGGGAATT+AGG	-	chr1_1:20514717-20514736	None:intergenic	30.0%
GATCAAAAGAGTCAAATTCT+AGG	-	chr1_1:20514981-20515000	None:intergenic	30.0%
CATGTGGCAAAAAAACATTA+AGG	+	chr1_1:20515276-20515295	Msa0013250:intron	30.0%
AAGTCAAATACCATCTCATT+TGG	-	chr1_1:20516438-20516457	None:intergenic	30.0%
TGTTTCCTCAGAAAATTATC+CGG	-	chr1_1:20517178-20517197	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr1_1	gene	20514399	20520519	20514399	ID=Msa0013250;Name=Msa0013250
chr1_1	mRNA	20514399	20520519	20514399	ID=Msa0013250-mRNA-1;Parent=Msa0013250;Name=Msa0013250-mRNA-1;_AED=0.30;_eAED=0.30;_QI=135\|0.33\|0.5\|1\|0.66\|0.75\|4\|448\|279
chr1_1	exon	20514399	20514596	20514399	ID=Msa0013250-mRNA-1:exon:7304;Parent=Msa0013250-mRNA-1
chr1_1	exon	20517169	20517565	20517169	ID=Msa0013250-mRNA-1:exon:7305;Parent=Msa0013250-mRNA-1
chr1_1	exon	20519560	20519666	20519560	ID=Msa0013250-mRNA-1:exon:7306;Parent=Msa0013250-mRNA-1
chr1_1	exon	20519799	20520519	20519799	ID=Msa0013250-mRNA-1:exon:7307;Parent=Msa0013250-mRNA-1
chr1_1	five_prime_UTR	20514399	20514533	20514399	ID=Msa0013250-mRNA-1:five_prime_utr;Parent=Msa0013250-mRNA-1
chr1_1	CDS	20514534	20514596	20514534	ID=Msa0013250-mRNA-1:cds;Parent=Msa0013250-mRNA-1
chr1_1	CDS	20517169	20517565	20517169	ID=Msa0013250-mRNA-1:cds;Parent=Msa0013250-mRNA-1
chr1_1	CDS	20519560	20519666	20519560	ID=Msa0013250-mRNA-1:cds;Parent=Msa0013250-mRNA-1
chr1_1	CDS	20519799	20520071	20519799	ID=Msa0013250-mRNA-1:cds;Parent=Msa0013250-mRNA-1
chr1_1	three_prime_UTR	20520072	20520519	20520072	ID=Msa0013250-mRNA-1:three_prime_utr;Parent=Msa0013250-mRNA-1

Gene Sequence

>Msa0013250

ATGCCTCTTCTTCCTTCTTTCCACAAGCTCATTCTTCCAACAACCCTTCAATCTAAGCAATTGAGGATTCCGGATAATTTTCTGAGGAAACACGGGGACCAACTTTCGACTGTCGCAACTGTCACTATTCCTGGCGGCACCGTCTGGCGTCTAGGATTGAAAAAGGTTGGCAACCGTATTTGTTTTGTGGATGGCTGGCAAGATTTTATTCAACGCTACTCAATTGGCATTGGATACTTACTACTATTCACATACGAAGGAAGGTCAAATTTCATCGTTTATATCTTCCGTACTACTGAGTTAAACTATGATTCAACAATGAGAAGCCGGACTGAAGAGCCTTTCTATGAAGACTATAATTATGTTTTTGAAGGCATTGAAGATATCGACTCCTTTGATTTCCTGGATTCGGCACCTTCAAACCCTACTGGTGCATTGCAAAGCAAGGATTCTGCTGGATCCTATGAACGTGCGTCTGCAAGAGTAAGACACAATGTGTCAGATGAAGAAAGAGAAAGGGCAATGAATGAGGCAAAAGCATTTGTACCAACTAATCCTTACTGTCTTTATTTGCCTACCAGATTTGGAGCAAATTTGAAGGGTGTTTCAGGTTTTATTCCGCTTCAGACATCCGATGGTGAGAAACAGTGGCGTGTTCGCTGCCTTGATGACAAAGGCCGGAAAAAGTTAAGCCAAGGATGGTACGAATTTACACAAGAGAACGGTTTAGGGGAAGGGGATATCTGTGTTTTTGAGCTGCTTAATACCAGAGATGTAGTGTTGCAAGTTACTTTGTTTCGTCTAAAAGAGGATGAACCCTCACTTGCAGCACTGCGTTAG

Protein sequence

>Msa0013250

MPLLPSFHKLILPTTLQSKQLRIPDNFLRKHGDQLSTVATVTIPGGTVWRLGLKKVGNRICFVDGWQDFIQRYSIGIGYLLLFTYEGRSNFIVYIFRTTELNYDSTMRSRTEEPFYEDYNYVFEGIEDIDSFDFLDSAPSNPTGALQSKDSAGSYERASARVRHNVSDEERERAMNEAKAFVPTNPYCLYLPTRFGANLKGVSGFIPLQTSDGEKQWRVRCLDDKGRKKLSQGWYEFTQENGLGEGDICVFELLNTRDVVLQVTLFRLKEDEPSLAALR*