AlfalfaGEDB | Msa1290960

M. sativa cultivar zhongmu-4 / Msa1290960

KEGG: K11430
GO: GO:0000003 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0003723 GO:0003727 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005654 GO:0005677 GO:0005911 GO:0006139 GO:0006349 GO:0006355 GO:0006725 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0009314 GO:0009416 GO:0009506 GO:0009628 GO:0009642 GO:0009646 GO:0009653 GO:0009791 GO:0009889 GO:0009890 GO:0009892 GO:0009987 GO:0010154 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0017053 GO:0019219 GO:0019222 GO:0022414 GO:0030054 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0031974 GO:0031981 GO:0032501 GO:0032502 GO:0032991 GO:0034641 GO:0040029 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043233 GO:0043565 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044451 GO:0044464 GO:0045892 GO:0045934 GO:0046483 GO:0048316 GO:0048317 GO:0048519 GO:0048523 GO:0048580 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051239 GO:0051252 GO:0051253 GO:0055044 GO:0060255 GO:0061458 GO:0065007 GO:0070013 GO:0071514 GO:0071704 GO:0080050 GO:0080090 GO:0090568 GO:0090698 GO:0097159 GO:0140110 GO:1901360 GO:1901363 GO:1902679 GO:1903506 GO:1903507 GO:2000014 GO:2000026 GO:2000112 GO:2000113 GO:2000241 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
Msa1290960	KEH19993.1	95.238	63	3	0	6	68	10	72	3.79e-36	128

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1290960	sp\|P93831\|CLF_ARATH	55.385	65	29	0	2	66	836	900	3.53e-16	75.5

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1290960	A0A072TT25	95.238	63	3	0	6	68	10	72	1.81e-36	128

TFs/TRs:

Gene ID	Type	Classification
Msa1290960	TR	SET

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
Msa1290960	MtrunA17_Chr7g0270001	84.848	66	10	0	4	69	234	299	4.95e-36	124
Msa1290960	MtrunA17_Chr1g0194631	57.971	69	26	2	2	70	694	759	5.07e-18	77.4
Msa1290960	MtrunA17_Chr5g0401921	53.846	65	29	1	2	66	798	861	1.22e-15	70.5
Msa1290960	MtrunA17_Chr7g0235081	53.226	62	27	2	6	66	284	344	1.66e-13	64.3

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1290960	AT2G23380.1	55.385	65	29	0	2	66	836	900	3.59e-17	75.5
Msa1290960	AT2G23380.2	55.385	65	29	0	2	66	609	673	4.28e-17	75.1
Msa1290960	AT4G02020.1	52.174	69	30	2	2	70	791	856	8.75e-15	68.6

Find 26 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TGCTCTCACTTGAGGAAATT+TGG	0.131738	8_3:+46195509	Msa1290960:CDS
CAAGTGAGAGCAATGTTTCT+TGG	0.232152	8_3:-46195498	Msa1290950:intron
TTGTAGGTTGTGCTTGTTAA+TGG	0.284481	8_3:+46195314	Msa1290960:intron
TGTAGGTTGTGCTTGTTAAT+GGG	0.345826	8_3:+46195315	Msa1290960:intron
CAAAGGAACGTATTGAAGTT+GGG	0.371751	8_3:+46195360	Msa1290960:CDS
GCAAAGGAACGTATTGAAGT+TGG	0.419225	8_3:+46195359	Msa1290960:CDS
CCTGTCTGTGGAACACCCTT+TGG	0.422322	8_3:+46195551	Msa1290960:CDS
CTTCATAAACTTATAGATGA+TGG	0.430748	8_3:+46195434	Msa1290960:CDS
TGTTTGATCATCATCTTCCT+TGG	0.431875	8_3:-46195459	Msa1290950:intron
CCTTTGGACAGAGTGATGTT+CGG	0.489650	8_3:+46195567	Msa1290960:CDS
GGATGACTTAATGCATGAAA+AGG	0.506801	8_3:+46194926	None:intergenic
TTCCACAGACAGGACATTTG+CGG	0.530952	8_3:-46195541	Msa1290950:intron
CCAAAGGGTGTTCCACAGAC+AGG	0.536944	8_3:-46195551	Msa1290950:intron
CGAACATCACTCTGTCCAAA+GGG	0.542541	8_3:-46195566	Msa1290950:intron
AGAAACATTGCTCTCACTTG+AGG	0.546978	8_3:+46195501	Msa1290960:CDS
GTAGGTTGTGCTTGTTAATG+GGG	0.554178	8_3:+46195316	Msa1290960:intron
CCGAACATCACTCTGTCCAA+AGG	0.571995	8_3:-46195567	Msa1290950:intron
ACTTATAGATGATGGTTCCA+AGG	0.573120	8_3:+46195442	Msa1290960:CDS
TCTATAAGTTTATGAAGCCA+TGG	0.576047	8_3:-46195428	Msa1290950:intron
AAAGGAACGTATTGAAGTTG+GGG	0.584434	8_3:+46195361	Msa1290960:CDS
CACCGCAAATGTCCTGTCTG+TGG	0.606304	8_3:+46195539	Msa1290960:CDS
GTTAATGGGGATCATCGAGT+AGG	0.622578	8_3:+46195329	Msa1290960:CDS
TCGAGTAGGAATATTTGCAA+AGG	0.624767	8_3:+46195343	Msa1290960:CDS
GGAACGTATTGAAGTTGGGG+AGG	0.649243	8_3:+46195364	Msa1290960:CDS
ATGAAAATAGTCGACCACCA+TGG	0.704208	8_3:+46195411	Msa1290960:CDS
ATAAGTTTATGAAGCCATGG+TGG	0.735249	8_3:-46195425	Msa1290950:intron

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	TAACATAATATATGTTTTTA+GGG	-	chr8_3:46195085-46195104	Msa1290950:intron	10.0%
!!!	TTAACATAATATATGTTTTT+AGG	-	chr8_3:46195086-46195105	Msa1290950:intron	10.0%
!!	TAGATAGTAAAAGACTATAT+AGG	-	chr8_3:46195011-46195030	Msa1290950:intron	20.0%
!!!	TATATGTTTTTAGGGATATA+AGG	-	chr8_3:46195077-46195096	Msa1290950:intron	20.0%
!	CTGAAGAAAAAATCATAGTA+AGG	-	chr8_3:46195110-46195129	Msa1290950:intron	25.0%
!	AAAAGCTAATTGATATGCAA+AGG	+	chr8_3:46195186-46195205	Msa1290960:intron	25.0%
!	CTTCATAAACTTATAGATGA+TGG	+	chr8_3:46195434-46195453	Msa1290960:CDS	25.0%
	AATAATGTGTGTCCTATTGT+AGG	+	chr8_3:46195298-46195317	Msa1290960:intron	30.0%
	TCTATAAGTTTATGAAGCCA+TGG	-	chr8_3:46195431-46195450	Msa1290950:intron	30.0%
!	GATGATCAAACATTTTCTCA+AGG	+	chr8_3:46195470-46195489	Msa1290960:CDS	30.0%
	GGATGACTTAATGCACAAAA+AGG	-	chr8_3:46195056-46195075	Msa1290950:intron	35.0%
	TAACAAGCACAACCTACAAT+AGG	-	chr8_3:46195313-46195332	Msa1290950:intron	35.0%
!	TTGTAGGTTGTGCTTGTTAA+TGG	+	chr8_3:46195314-46195333	Msa1290960:intron	35.0%
!	TGTAGGTTGTGCTTGTTAAT+GGG	+	chr8_3:46195315-46195334	Msa1290960:intron	35.0%
	TCGAGTAGGAATATTTGCAA+AGG	+	chr8_3:46195343-46195362	Msa1290960:CDS	35.0%
	CAAAGGAACGTATTGAAGTT+GGG	+	chr8_3:46195360-46195379	Msa1290960:CDS	35.0%
	AAAGGAACGTATTGAAGTTG+GGG	+	chr8_3:46195361-46195380	Msa1290960:CDS	35.0%
!	GAGGAGCTTTTCTTTGATTA+CGG	+	chr8_3:46195383-46195402	Msa1290960:CDS	35.0%
!	AGGAGCTTTTCTTTGATTAC+GGG	+	chr8_3:46195384-46195403	Msa1290960:CDS	35.0%
	ATAAGTTTATGAAGCCATGG+TGG	-	chr8_3:46195428-46195447	Msa1290950:intron	35.0%
!	ACTTATAGATGATGGTTCCA+AGG	+	chr8_3:46195442-46195461	Msa1290960:CDS	35.0%
	TGTTTGATCATCATCTTCCT+TGG	-	chr8_3:46195462-46195481	Msa1290950:intron	35.0%
	TGTCTTGATGCTTATCGCAA+AGG	+	chr8_3:46195133-46195152	Msa1290960:intron	40.0%
	GTCTTGATGCTTATCGCAAA+GGG	+	chr8_3:46195134-46195153	Msa1290960:intron	40.0%
!	GTAGGTTGTGCTTGTTAATG+GGG	+	chr8_3:46195316-46195335	Msa1290960:intron	40.0%
	GCAAAGGAACGTATTGAAGT+TGG	+	chr8_3:46195359-46195378	Msa1290960:CDS	40.0%
	ATGAAAATAGTCGACCACCA+TGG	+	chr8_3:46195411-46195430	Msa1290960:CDS	40.0%
	CAAGTGAGAGCAATGTTTCT+TGG	-	chr8_3:46195501-46195520	Msa1290950:intron	40.0%
	AGAAACATTGCTCTCACTTG+AGG	+	chr8_3:46195501-46195520	Msa1290960:CDS	40.0%
	TGCTCTCACTTGAGGAAATT+TGG	+	chr8_3:46195509-46195528	Msa1290960:CDS	40.0%
	GTTAATGGGGATCATCGAGT+AGG	+	chr8_3:46195329-46195348	Msa1290960:CDS	45.0%
	TTCCACAGACAGGACATTTG+CGG	-	chr8_3:46195544-46195563	Msa1290950:intron	45.0%
	CGAACATCACTCTGTCCAAA+GGG	-	chr8_3:46195569-46195588	Msa1290950:intron	45.0%
	CCTTTGGACAGAGTGATGTT+CGG	+	chr8_3:46195567-46195586	Msa1290960:CDS	45.0%
	GGAACGTATTGAAGTTGGGG+AGG	+	chr8_3:46195364-46195383	Msa1290960:CDS	50.0%
	CCGAACATCACTCTGTCCAA+AGG	-	chr8_3:46195570-46195589	Msa1290950:intron	50.0%
	CACCGCAAATGTCCTGTCTG+TGG	+	chr8_3:46195539-46195558	Msa1290960:CDS	55.0%
!!	CCAAAGGGTGTTCCACAGAC+AGG	-	chr8_3:46195554-46195573	Msa1290950:intron	55.0%
	CCTGTCTGTGGAACACCCTT+TGG	+	chr8_3:46195551-46195570	Msa1290960:CDS	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr8_3	gene	46194936	46195604	46194936	ID=Msa1290960;Name=Msa1290960
chr8_3	mRNA	46194936	46195604	46194936	ID=Msa1290960-mRNA-1;Parent=Msa1290960;Name=Msa1290960-mRNA-1;_AED=0.36;_eAED=0.36;_QI=0\|0\|0\|0.5\|1\|1\|2\|0\|98
chr8_3	exon	46194936	46194947	46194936	ID=Msa1290960-mRNA-1:exon:12751;Parent=Msa1290960-mRNA-1
chr8_3	exon	46195320	46195604	46195320	ID=Msa1290960-mRNA-1:exon:12752;Parent=Msa1290960-mRNA-1
chr8_3	CDS	46194936	46194947	46194936	ID=Msa1290960-mRNA-1:cds;Parent=Msa1290960-mRNA-1
chr8_3	CDS	46195320	46195604	46195320	ID=Msa1290960-mRNA-1:cds;Parent=Msa1290960-mRNA-1

Gene Sequence	>Msa1290960 ATGCATGAAAAGGTTGTGCTTGTTAATGGGGATCATCGAGTAGGAATATTTGCAAAGGAACGTATTGAAGTTGGGGAGGAGCTTTTCTTTGATTACGGGTATGATGAAAATAGTCGACCACCATGGCTTCATAAACTTATAGATGATGGTTCCAAGGAAGATGATGATCAAACATTTTCTCAAGGAAAAGCCAAGAAACATTGCTCTCACTTGAGGAAATTTGGACAGAGTCACCGCAAATGTCCTGTCTGTGGAACACCCTTTGGACAGAGTGATGTTCGGTTTGATAAAATATAA
Protein sequence	>Msa1290960 MHEKVVLVNGDHRVGIFAKERIEVGEELFFDYGYDENSRPPWLHKLIDDGSKEDDDQTFSQGKAKKHCSHLRKFGQSHRKCPVCGTPFGQSDVRFDKI*