AlfalfaGEDB | Msa1102970

M. sativa cultivar zhongmu-4 / Msa1102970

KEGG: K09422
GO: GO:0000981 GO:0000988 GO:0000989 GO:0001067 GO:0001076 GO:0001101 GO:0001134 GO:0001135 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006357 GO:0006950 GO:0006952 GO:0006970 GO:0008150 GO:0009414 GO:0009415 GO:0009605 GO:0009607 GO:0009617 GO:0009620 GO:0009628 GO:0009651 GO:0009719 GO:0009723 GO:0009725 GO:0009733 GO:0009737 GO:0009739 GO:0009751 GO:0009753 GO:0009889 GO:0009966 GO:0009967 GO:0009987 GO:0010033 GO:0010035 GO:0010038 GO:0010200 GO:0010243 GO:0010468 GO:0010556 GO:0010646 GO:0010647 GO:0010928 GO:0010929 GO:0014070 GO:0019219 GO:0019222 GO:0023051 GO:0023056 GO:0030154 GO:0031323 GO:0031326 GO:0032502 GO:0033993 GO:0042221 GO:0042493 GO:0042742 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044212 GO:0044424 GO:0044464 GO:0046677 GO:0046686 GO:0048518 GO:0048522 GO:0048583 GO:0048584 GO:0048869 GO:0050789 GO:0050794 GO:0050832 GO:0050896 GO:0051171 GO:0051252 GO:0051704 GO:0051707 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0097305 GO:0098542 GO:0140110 GO:1901363 GO:1901698 GO:1901700 GO:1903506 GO:2000022 GO:2000031 GO:2000112 GO:2001023 GO:2001038 GO:2001141
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
Msa1102970	XP_013461367.1	63.750	80	11	3	1	68	1	74	1.91e-17	85.9

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1102970	sp\|Q6R0C4\|MYB52_ARATH	51.562	64	21	2	17	75	13	71	2.84e-12	63.9

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1102970	A0A072V0T7	63.750	80	11	3	1	68	1	74	9.13e-18	85.9

TFs/TRs:

Gene ID	Type	Classification
Msa1102970	TF	MYB-related

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR

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
Msa1102970	MtrunA17_Chr3g0125801	63.750	80	11	3	1	68	1	74	1.76e-21	85.9
Msa1102970	MtrunA17_Chr6g0480581	53.125	64	19	2	17	75	12	69	3.04e-13	63.2
Msa1102970	MtrunA17_Chr5g0417621	53.226	62	18	2	17	73	142	197	5.51e-11	57.8

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1102970	AT1G17950.1	51.562	64	21	2	17	75	13	71	2.89e-13	63.9
Msa1102970	AT1G26780.2	54.839	62	17	2	17	73	106	161	7.39e-12	60.5
Msa1102970	AT1G69560.2	54.839	62	17	2	17	73	131	186	8.29e-12	60.5
Msa1102970	AT1G69560.1	54.839	62	17	2	17	73	115	170	8.91e-12	60.1
Msa1102970	AT1G26780.1	54.839	62	17	2	17	73	106	161	1.84e-11	58.9
Msa1102970	AT4G33450.1	45.122	82	27	3	4	73	7	82	1.92e-11	58.9
Msa1102970	AT5G17800.1	48.529	68	23	2	10	65	87	154	3.25e-11	58.5

Find 21 sgRNAs with CRISPR-Local

Find 31 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AACAATATGGTGCTCAAAAT+TGG	0.232647	7_3:-37600040	Msa1102970:CDS
AAAGGTCTCTTGTTAATTCT+TGG	0.233590	7_3:+37599715	None:intergenic
TATTAGTGCCCATTTGTTTC+CGG	0.254397	7_3:+37599626	None:intergenic
CGTCAACTTGTTGAACAATA+TGG	0.317875	7_3:-37600053	Msa1102970:CDS
GAAACATTGGCATGTTATAA+TGG	0.342971	7_3:-37599567	None:intergenic
ATTAGTGCCCATTTGTTTCC+GGG	0.361564	7_3:+37599627	None:intergenic
TCAATTGTTGTAAAACTTCA+AGG	0.392373	7_3:-37600014	Msa1102970:CDS
ATCGAATTCCCGGAAACAAA+TGG	0.425550	7_3:-37599635	Msa1102970:CDS
CTTGCGGCACATCGAATTCC+CGG	0.437646	7_3:-37599645	Msa1102970:CDS
GTAAAACTTCAAGGAAGATC+AGG	0.472386	7_3:-37600005	Msa1102970:intron
CAAGAGACCTTTCATAGAAG+AGG	0.504837	7_3:-37599704	Msa1102970:CDS
TCGAATTCCCGGAAACAAAT+GGG	0.509445	7_3:-37599634	Msa1102970:CDS
CACTAATAGCATGACTTCCC+TGG	0.528729	7_3:-37599611	Msa1102970:CDS
GTGACCACGTCGACAACTCT+TGG	0.531497	7_3:+37600103	None:intergenic
ACAGCATTATCAGTTCTACC+AGG	0.558772	7_3:+37599593	None:intergenic
AAAGCTTCCTCTTCTATGAA+AGG	0.561018	7_3:+37599697	None:intergenic
AGAGGAAGCTTTCACAGAAG+AGG	0.567837	7_3:-37599686	Msa1102970:CDS
ATAATGCTGTCAAGAAACAT+TGG	0.575757	7_3:-37599580	Msa1102970:CDS
GAAGAGATACTTACTACTTG+CGG	0.609034	7_3:-37599661	Msa1102970:CDS
CAGCATTATCAGTTCTACCA+GGG	0.641252	7_3:+37599594	None:intergenic
GATACCAAGAGTTGTCGACG+TGG	0.732914	7_3:-37600107	Msa1102970:intron

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	ATGAATTTGAAAATTAAATA+AGG	+	chr7_3:37599778-37599797	None:intergenic	10.0%
!!	AATTTGAAAATTAAATAAGG+AGG	+	chr7_3:37599775-37599794	None:intergenic	15.0%
!!	CATATACTTCTGTATATAAA+AGG	-	chr7_3:37599888-37599907	Msa1102970:intron	20.0%
!!!	TTTTTTTCCTTTTAACTTGT+AGG	-	chr7_3:37599931-37599950	Msa1102970:intron	20.0%
!!!	TTTTTTCCTTTTAACTTGTA+GGG	-	chr7_3:37599932-37599951	Msa1102970:intron	20.0%
!	TCAATTGTTGTAAAACTTCA+AGG	-	chr7_3:37599690-37599709	Msa1102970:CDS	25.0%
	AACAATATGGTGCTCAAAAT+TGG	-	chr7_3:37599664-37599683	Msa1102970:CDS	30.0%
	AAAGGTCTCTTGTTAATTCT+TGG	+	chr7_3:37599992-37600011	None:intergenic	30.0%
	ATAATGCTGTCAAGAAACAT+TGG	-	chr7_3:37600124-37600143	Msa1102970:CDS	30.0%
!	ACGAAGTTTTTCATCTTCAG+CGG	+	chr7_3:37599634-37599653	None:intergenic	35.0%
!!	CGTCAACTTGTTGAACAATA+TGG	-	chr7_3:37599651-37599670	Msa1102970:CDS	35.0%
	GTAAAACTTCAAGGAAGATC+AGG	-	chr7_3:37599699-37599718	Msa1102970:CDS	35.0%
	ACGTTTCCCTACAAGTTAAA+AGG	+	chr7_3:37599941-37599960	None:intergenic	35.0%
	AAAGCTTCCTCTTCTATGAA+AGG	+	chr7_3:37600010-37600029	None:intergenic	35.0%
	GAAGAGATACTTACTACTTG+CGG	-	chr7_3:37600043-37600062	Msa1102970:CDS	35.0%
	TATTAGTGCCCATTTGTTTC+CGG	+	chr7_3:37600081-37600100	None:intergenic	35.0%
!	CGAAGTTTTTCATCTTCAGC+GGG	+	chr7_3:37599633-37599652	None:intergenic	40.0%
	AACTTGTAGGGAAACGTTGT+AGG	-	chr7_3:37599944-37599963	Msa1102970:intron	40.0%
	CAAGAGACCTTTCATAGAAG+AGG	-	chr7_3:37600000-37600019	Msa1102970:intron	40.0%
	ATCGAATTCCCGGAAACAAA+TGG	-	chr7_3:37600069-37600088	Msa1102970:intron	40.0%
	TCGAATTCCCGGAAACAAAT+GGG	-	chr7_3:37600070-37600089	Msa1102970:intron	40.0%
	ATTAGTGCCCATTTGTTTCC+GGG	+	chr7_3:37600080-37600099	None:intergenic	40.0%
	CAGCATTATCAGTTCTACCA+GGG	+	chr7_3:37600113-37600132	None:intergenic	40.0%
	ACAGCATTATCAGTTCTACC+AGG	+	chr7_3:37600114-37600133	None:intergenic	40.0%
	TAGGGAAACGTTGTAGGTTG+AGG	-	chr7_3:37599950-37599969	Msa1102970:intron	45.0%
	AGAGGAAGCTTTCACAGAAG+AGG	-	chr7_3:37600018-37600037	Msa1102970:CDS	45.0%
	CACTAATAGCATGACTTCCC+TGG	-	chr7_3:37600093-37600112	Msa1102970:intron	45.0%
	GATACCAAGAGTTGTCGACG+TGG	-	chr7_3:37599597-37599616	Msa1102970:CDS	50.0%
!	GGAAACGTTGTAGGTTGAGG+TGG	-	chr7_3:37599953-37599972	Msa1102970:intron	50.0%
	GTGACCACGTCGACAACTCT+TGG	+	chr7_3:37599604-37599623	None:intergenic	55.0%
	CTTGCGGCACATCGAATTCC+CGG	-	chr7_3:37600059-37600078	Msa1102970:CDS	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr7_3	gene	37599570	37600156	37599570	ID=Msa1102970;Name=Msa1102970
chr7_3	mRNA	37599570	37600156	37599570	ID=Msa1102970-mRNA-1;Parent=Msa1102970;Name=Msa1102970-mRNA-1;_AED=0.27;_eAED=0.28;_QI=0\|0\|0\|1\|0.66\|0.75\|4\|0\|106
chr7_3	exon	37600108	37600156	37600108	ID=Msa1102970-mRNA-1:exon:7734;Parent=Msa1102970-mRNA-1
chr7_3	exon	37600006	37600086	37600006	ID=Msa1102970-mRNA-1:exon:7733;Parent=Msa1102970-mRNA-1
chr7_3	exon	37599768	37599773	37599768	ID=Msa1102970-mRNA-1:exon:7732;Parent=Msa1102970-mRNA-1
chr7_3	exon	37599570	37599754	37599570	ID=Msa1102970-mRNA-1:exon:7731;Parent=Msa1102970-mRNA-1
chr7_3	CDS	37600108	37600156	37600108	ID=Msa1102970-mRNA-1:cds;Parent=Msa1102970-mRNA-1
chr7_3	CDS	37600006	37600086	37600006	ID=Msa1102970-mRNA-1:cds;Parent=Msa1102970-mRNA-1
chr7_3	CDS	37599768	37599773	37599768	ID=Msa1102970-mRNA-1:cds;Parent=Msa1102970-mRNA-1
chr7_3	CDS	37599570	37599754	37599570	ID=Msa1102970-mRNA-1:cds;Parent=Msa1102970-mRNA-1

Gene Sequence	>Msa1102970 ATGGAGGATTCTTCTTCTGCAGCTGAAGATACCAAGAGTTGTCGACGTGATGAAAAACTTCGTCAACTTGTTGAACAATATGGTGCTCAAAATTGGAATTCAATTGTTGTAAAACTTCAAGGAAGATCAGGGAAACGTGGTTCAATCAGCTATCCAAGAATTAACAAGAGACCTTTCATAGAAGAGGAAGCTTTCACAGAAGAGGAAGAAGAGATACTTACTACTTGCGGCACATCGAATTCCCGGAAACAAATGGGCACTAATAGCATGACTTCCCTGGTAGAACTGATAATGCTGTCAAGAAACATTGGCATGTTATAA
Protein sequence	>Msa1102970 MEDSSSAAEDTKSCRRDEKLRQLVEQYGAQNWNSIVVKLQGRSGKRGSISYPRINKRPFIEEEAFTEEEEEILTTCGTSNSRKQMGTNSMTSLVELIMLSRNIGML*