AlfalfaGEDB | Msa0951000

M. sativa cultivar zhongmu-4 / Msa0951000

KEGG: -
GO: GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003712 GO:0003714 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0006950 GO:0006970 GO:0008150 GO:0009414 GO:0009415 GO:0009628 GO:0009651 GO:0009889 GO:0009890 GO:0009892 GO:0010035 GO:0010556 GO:0010558 GO:0010605 GO:0019219 GO:0019222 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0035064 GO:0042221 GO:0042393 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0045934 GO:0048519 GO:0048523 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0140030 GO:0140034 GO:0140110 GO:1901363 GO:1901700 GO:1902679 GO:1903506 GO:1903507 GO:2001141
PFAM: PF00628.32

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0951000	XP_024035918.1	69.091	55	17	0	5	59	196	250	9.94e-21	91.7

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0951000	sp\|Q9M2B4\|ALFL3_ARATH	62.963	54	19	1	5	58	197	249	2.39e-19	80.5

Trembl:

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

TFs/TRs:

Gene ID	Type	Classification
Msa0951000	TR	PHD

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
Msa0951000	MtrunA17_Chr8g0343441	69.091	55	17	0	5	59	202	256	5.02e-23	87.4
Msa0951000	MtrunA17_Chr2g0329821	63.636	55	20	0	4	58	196	250	2.78e-22	85.1
Msa0951000	MtrunA17_Chr1g0150821	65.455	55	18	1	5	59	210	263	1.21e-20	81.3
Msa0951000	MtrunA17_Chr4g0006381	61.818	55	20	1	5	59	189	242	3.58e-19	77.0
Msa0951000	MtrunA17_Chr4g0076771	61.224	49	19	0	4	52	201	249	1.16e-18	75.9
Msa0951000	MtrunA17_Chr2g0300241	63.158	57	18	2	5	59	198	253	1.20e-18	75.9
Msa0951000	MtrunA17_Chr7g0242511	58.182	55	22	1	5	59	189	242	1.53e-18	75.1

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0951000	AT3G42790.1	62.963	54	19	1	5	58	197	249	2.43e-20	80.5
Msa0951000	AT5G20510.2	61.818	55	20	1	5	59	166	219	4.93e-20	79.0
Msa0951000	AT5G26210.1	64.286	56	19	1	3	58	200	254	9.88e-20	79.0
Msa0951000	AT5G20510.1	61.818	55	20	1	5	59	207	260	1.05e-19	79.0
Msa0951000	AT2G02470.1	61.818	55	20	1	5	59	203	256	2.35e-19	78.2
Msa0951000	AT2G02470.2	61.818	55	20	1	5	59	194	247	2.49e-19	77.8
Msa0951000	AT1G14510.1	61.538	52	20	0	5	56	198	249	1.40e-18	75.9
Msa0951000	AT5G05610.2	61.702	47	18	0	5	51	188	234	9.45e-17	70.9
Msa0951000	AT5G05610.1	61.702	47	18	0	5	51	188	234	9.45e-17	70.9
Msa0951000	AT3G11200.1	57.447	47	20	0	5	51	193	239	2.40e-15	67.4
Msa0951000	AT3G11200.2	57.447	47	20	0	5	51	180	226	2.91e-15	67.0

Find 14 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
CAGAAAATCCAGAATTTATC+AGG	0.245351	6_3:+40384507	None:intergenic
AATATGACCCTGATAAATTC+TGG	0.489252	6_3:-40384515	Msa0951000:CDS
TGATATTCACACATTTCTCA+TGG	0.508375	6_3:+40384463	None:intergenic
TCGATATGCTTAACCCTACC+AGG	0.508444	6_3:+40384438	None:intergenic
TCTGTGACATTTGTGAGAGG+TGG	0.541786	6_3:-40384488	Msa0951000:CDS
CTCTTGTAGTCATTGCATGA+TGG	0.544814	6_3:+40384402	None:intergenic
GTGTGAATATCACCCCTGGT+AGG	0.570139	6_3:-40384452	Msa0951000:CDS
TGTGAATATCACCCCTGGTA+GGG	0.574077	6_3:-40384451	Msa0951000:CDS
AGAAAATCCAGAATTTATCA+GGG	0.630317	6_3:+40384508	None:intergenic
CGCCCATCAGAGATTTCATG+TGG	0.644929	6_3:-40384552	Msa0951000:intron
CGATATGCTTAACCCTACCA+GGG	0.644955	6_3:+40384439	None:intergenic
AAATGTGTGAATATCACCCC+TGG	0.671275	6_3:-40384456	Msa0951000:CDS
GAGATTTCATGTGGTGCATG+CGG	0.697071	6_3:-40384543	Msa0951000:CDS
GATATGCTTAACCCTACCAG+GGG	0.729993	6_3:+40384440	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	AATAATTTTCTTTATGCTAT+TGG	+	chr6_3:40384554-40384573	None:intergenic	15.0%
!!	ATAGCATAAAGAAAATTATT+AGG	-	chr6_3:40384554-40384573	Msa0951000:intron	15.0%
!	CTTCTTTGATAAAAATCTCA+AGG	+	chr6_3:40384603-40384622	None:intergenic	25.0%
!	AATTTATGTTATACGACAGA+AGG	+	chr6_3:40384661-40384680	None:intergenic	25.0%
!	AGAAAATCCAGAATTTATCA+GGG	+	chr6_3:40384737-40384756	None:intergenic	25.0%
	TGATGACTAATATGTCTGTT+AGG	-	chr6_3:40384503-40384522	Msa0951000:CDS	30.0%
	AGAAATTGAGAGAGAGAAAA+GGG	+	chr6_3:40384631-40384650	None:intergenic	30.0%
	AAGAAATTGAGAGAGAGAAA+AGG	+	chr6_3:40384632-40384651	None:intergenic	30.0%
	AATATGACCCTGATAAATTC+TGG	-	chr6_3:40384727-40384746	Msa0951000:intron	30.0%
	CAGAAAATCCAGAATTTATC+AGG	+	chr6_3:40384738-40384757	None:intergenic	30.0%
	TGATATTCACACATTTCTCA+TGG	+	chr6_3:40384782-40384801	None:intergenic	30.0%
	AGCGCACTTACAAATAAAAC+AGG	+	chr6_3:40384415-40384434	None:intergenic	35.0%
	CTAATATGTCTGTTAGGAGT+TGG	-	chr6_3:40384509-40384528	Msa0951000:CDS	35.0%
!	TTTTCTGTGACATTTGTGAG+AGG	-	chr6_3:40384751-40384770	Msa0951000:intron	35.0%
!!	TCTGTTAGGAGTTGGTAGAA+AGG	-	chr6_3:40384517-40384536	Msa0951000:CDS	40.0%
	CTCTCTCTCAATTTCTTGTG+AGG	-	chr6_3:40384635-40384654	Msa0951000:intron	40.0%
	CACCACATGAAATCTCTGAT+GGG	+	chr6_3:40384695-40384714	None:intergenic	40.0%
	AAATGTGTGAATATCACCCC+TGG	-	chr6_3:40384786-40384805	Msa0951000:intron	40.0%
	CTCTTGTAGTCATTGCATGA+TGG	+	chr6_3:40384843-40384862	None:intergenic	40.0%
	GCACCACATGAAATCTCTGA+TGG	+	chr6_3:40384696-40384715	None:intergenic	45.0%
	GAGATTTCATGTGGTGCATG+CGG	-	chr6_3:40384699-40384718	Msa0951000:intron	45.0%
	TCTGTGACATTTGTGAGAGG+TGG	-	chr6_3:40384754-40384773	Msa0951000:intron	45.0%
	TGTGAATATCACCCCTGGTA+GGG	-	chr6_3:40384791-40384810	Msa0951000:intron	45.0%
	GATATGCTTAACCCTACCAG+GGG	+	chr6_3:40384805-40384824	None:intergenic	45.0%
	CGATATGCTTAACCCTACCA+GGG	+	chr6_3:40384806-40384825	None:intergenic	45.0%
	TCGATATGCTTAACCCTACC+AGG	+	chr6_3:40384807-40384826	None:intergenic	45.0%
!	AAATCTCTGATGGGCGTGTG+TGG	+	chr6_3:40384686-40384705	None:intergenic	50.0%
	CGCCCATCAGAGATTTCATG+TGG	-	chr6_3:40384690-40384709	Msa0951000:intron	50.0%
	GTGTGAATATCACCCCTGGT+AGG	-	chr6_3:40384790-40384809	Msa0951000:intron	50.0%

Chromosome	Type	Strat	End	Strand	Name
chr6_3	gene	40384389	40384875	40384389	ID=Msa0951000;Name=Msa0951000
chr6_3	mRNA	40384389	40384875	40384389	ID=Msa0951000-mRNA-1;Parent=Msa0951000;Name=Msa0951000-mRNA-1;_AED=0.34;_eAED=0.34;_QI=0\|0\|0\|0.5\|0\|0\|2\|0\|59
chr6_3	exon	40384870	40384875	40384870	ID=Msa0951000-mRNA-1:exon:9697;Parent=Msa0951000-mRNA-1
chr6_3	exon	40384389	40384562	40384389	ID=Msa0951000-mRNA-1:exon:9696;Parent=Msa0951000-mRNA-1
chr6_3	CDS	40384870	40384875	40384870	ID=Msa0951000-mRNA-1:cds;Parent=Msa0951000-mRNA-1
chr6_3	CDS	40384389	40384562	40384389	ID=Msa0951000-mRNA-1:cds;Parent=Msa0951000-mRNA-1

Gene Sequence	>Msa0951000 ATGTATATTTCATGTGGTGCATGCGGTGAGCAATATGACCCTGATAAATTCTGGATTTTCTGTGACATTTGTGAGAGGTGGTTCCATGAGAAATGTGTGAATATCACCCCTGGTAGGGTTAAGCATATCGATATATACAAGTGTCCATCATGCAATGACTACAAGAGAGATCGCCCTTGA
Protein sequence	>Msa0951000 MYISCGACGEQYDPDKFWIFCDICERWFHEKCVNITPGRVKHIDIYKCPSCNDYKRDRP*