AlfalfaGEDB | Msa0231920

M. sativa cultivar zhongmu-4 / Msa0231920

KEGG: -
GO: GO:0000041 GO:0000302 GO:0003674 GO:0005215 GO:0005381 GO:0005384 GO:0005575 GO:0006810 GO:0006811 GO:0006812 GO:0006826 GO:0006828 GO:0006873 GO:0006875 GO:0006879 GO:0006880 GO:0006950 GO:0006979 GO:0008150 GO:0008324 GO:0009719 GO:0009723 GO:0009725 GO:0009987 GO:0010033 GO:0010035 GO:0010038 GO:0010039 GO:0015075 GO:0015318 GO:0016020 GO:0019725 GO:0022857 GO:0022890 GO:0030001 GO:0030003 GO:0030026 GO:0032870 GO:0033554 GO:0034220 GO:0034599 GO:0034614 GO:0034755 GO:0035690 GO:0042221 GO:0042493 GO:0042592 GO:0046873 GO:0046915 GO:0046916 GO:0048878 GO:0050801 GO:0050896 GO:0051179 GO:0051234 GO:0051235 GO:0051238 GO:0051641 GO:0051651 GO:0051716 GO:0055065 GO:0055071 GO:0055072 GO:0055076 GO:0055080 GO:0055082 GO:0055085 GO:0065007 GO:0065008 GO:0070887 GO:0071241 GO:0071248 GO:0071281 GO:0071310 GO:0071369 GO:0071421 GO:0071495 GO:0071731 GO:0071732 GO:0097366 GO:0097577 GO:0098655 GO:0098660 GO:0098662 GO:0098771 GO:1901698 GO:1901699 GO:1901700 GO:1901701 GO:1902170
PFAM: PF01988.22

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0231920	XP_003593128.2	99.528	212	1	0	1	212	1	212	6.62e-151	427

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0231920	sp\|Q9M2C0\|VITH4_ARATH	68.718	195	57	2	14	207	2	193	1.11e-90	267

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0231920	G7IL91	99.528	212	1	0	1	212	1	212	3.16e-151	427

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0054920	Msa0231920	0.808134	3.595483e-50	-8.615850e-47
Msa0089730	Msa0231920	0.831569	1.549820e-55	-8.615850e-47
Msa0144530	Msa0231920	0.815901	7.290380e-52	-8.615850e-47
Msa0189400	Msa0231920	0.845049	5.174524e-59	-8.615850e-47
Msa0231920	Msa0240270	0.809852	1.541879e-50	-8.615850e-47
Msa0231920	Msa0269560	0.812253	4.652992e-51	-8.615850e-47
Msa0231920	Msa0271220	0.999113	6.920153e-291	-8.615850e-47
Msa0231920	Msa0309980	0.838285	3.149092e-57	-8.615850e-47
Msa0231920	Msa0388360	0.811271	7.609734e-51	-8.615850e-47
Msa0231920	Msa0545050	0.814675	1.365542e-51	-8.615850e-47
Msa0231920	Msa0600590	0.810057	1.392670e-50	-8.615850e-47
Msa0231920	Msa0611540	-0.841327	5.082058e-58	-8.615850e-47
Msa0231920	Msa0613340	0.804516	2.080592e-49	-8.615850e-47
Msa0231920	Msa0641130	0.815294	9.949654e-52	-8.615850e-47
Msa0231920	Msa0708310	0.802461	5.550088e-49	-8.615850e-47
Msa0231920	Msa0772280	0.817119	3.890426e-52	-8.615850e-47
Msa0231920	Msa0823540	0.807752	4.334667e-50	-8.615850e-47
Msa0231920	Msa1214170	0.800205	1.607661e-48	-8.615850e-47
Msa0231920	Msa1236440	0.801765	7.715596e-49	-8.615850e-47
Msa0231920	Msa1259860	0.808848	2.531509e-50	-8.615850e-47
Msa0231920	Msa1353890	0.800564	1.358742e-48	-8.615850e-47
Msa0231920	Msa1369920	-0.814176	1.760237e-51	-8.615850e-47
Msa0231920	Msa1424630	0.800030	1.745079e-48	-8.615850e-47
Msa0231920	Msa1430550	0.813701	2.240379e-51	-8.615850e-47

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
Msa0231920	MtrunA17_Chr2g0278621	99.528	212	1	0	1	212	1	212	6.09e-155	427
Msa0231920	MtrunA17_Chr6g0479471	99.057	212	2	0	1	212	1	212	5.01e-154	425
Msa0231920	MtrunA17_Chr1g0202031	70.652	184	49	1	29	207	29	212	4.85e-87	256
Msa0231920	MtrunA17_Chr6g0463641	66.667	195	55	2	23	207	11	205	8.49e-77	229
Msa0231920	MtrunA17_Chr4g0050831	60.938	192	66	1	27	209	30	221	1.37e-75	227
Msa0231920	MtrunA17_Chr4g0050821	60.938	192	66	1	27	209	30	221	1.40e-75	227
Msa0231920	MtrunA17_Chr4g0050841	61.579	190	64	1	27	207	30	219	1.78e-75	227
Msa0231920	MtrunA17_Chr4g0050811	56.279	215	83	3	1	209	27	236	9.47e-73	220
Msa0231920	MtrunA17_Chr4g0050851	50.463	216	95	1	7	210	13	228	1.46e-63	197

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0231920	AT3G43660.1	68.718	195	57	2	14	207	2	193	1.13e-91	267
Msa0231920	AT3G43630.1	71.277	188	50	2	21	207	8	192	3.22e-85	251
Msa0231920	AT1G21140.1	70.312	192	53	2	17	207	7	195	8.37e-84	247
Msa0231920	AT1G76800.1	68.984	187	54	1	21	207	9	191	1.53e-78	234
Msa0231920	AT3G25190.1	61.579	190	60	2	31	207	23	212	6.64e-64	197

Find 42 sgRNAs with CRISPR-Local

Find 50 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
CTTGCTATGTCTCTTACTTT+TGG	0.225220	2_2:+4259812	Msa0231920:CDS
AGCCTTGCTTTGTTTGCTTT+TGG	0.248729	2_2:+4259719	Msa0231920:CDS
GAAGCAAAGGCAGCATAATA+AGG	0.258027	2_2:-4259599	None:intergenic
GGCTCCAACACCCATCATTA+AGG	0.342144	2_2:-4259408	None:intergenic
TGTTCTTGGGAAAGCTCCTT+TGG	0.348881	2_2:+4259754	Msa0231920:CDS
TTTGGTGAAGTCTTCTTTGA+GGG	0.356177	2_2:+4259772	Msa0231920:CDS
GTTAAGACAATGATTCTAAC+TGG	0.372301	2_2:+4259443	Msa0231920:CDS
GGATTGTTGAGTGCTGTTCT+TGG	0.377078	2_2:+4259740	Msa0231920:CDS
CTCAAAGAGCACAATGGCTT+AGG	0.396117	2_2:+4259342	Msa0231920:CDS
TTATTATGCTGCCTTTGCTT+CGG	0.407157	2_2:+4259601	Msa0231920:CDS
CTTTGGTGAAGTCTTCTTTG+AGG	0.408112	2_2:+4259771	Msa0231920:CDS
ATGATTCTAACTGGAATTGC+TGG	0.418092	2_2:+4259452	Msa0231920:CDS
GATTGTTGAGTGCTGTTCTT+GGG	0.419290	2_2:+4259741	Msa0231920:CDS
GGCGTTTGTTAAAGACTATA+AGG	0.421985	2_2:+4259667	Msa0231920:CDS
GGCGCCTTTGTGCCGCTACT+CGG	0.427583	2_2:+4259641	Msa0231920:CDS
CTCAACAGCATCCTTAATGA+TGG	0.435656	2_2:+4259397	Msa0231920:CDS
TAAAGACTATAAGGTGAGGT+TGG	0.443344	2_2:+4259676	Msa0231920:CDS
GGAATTGCTGGTCTTGTAGC+TGG	0.462496	2_2:+4259464	Msa0231920:CDS
GTGAGGTTGGGAGTTGTGGT+TGG	0.470924	2_2:+4259689	Msa0231920:CDS
AAAAGCGATGGCCGAAGCAA+AGG	0.483514	2_2:-4259612	None:intergenic
TCAAAGAGCACAATGGCTTA+GGG	0.493819	2_2:+4259343	Msa0231920:CDS
TAAGGTGAGGTTGGGAGTTG+TGG	0.497331	2_2:+4259685	Msa0231920:CDS
AAAGACTATAAGGTGAGGTT+GGG	0.502612	2_2:+4259677	Msa0231920:CDS
AAGCAAAGGCAGCATAATAA+GGG	0.516802	2_2:-4259598	None:intergenic
GGCGCCGACCGCAAAAGCGA+TGG	0.528738	2_2:-4259624	None:intergenic
GCATCCTTAATGATGGGTGT+TGG	0.549500	2_2:+4259404	Msa0231920:CDS
ATCCAAAAGCAAACAAAGCA+AGG	0.566512	2_2:-4259721	None:intergenic
AAGGCAGCATAATAAGGGTT+AGG	0.567356	2_2:-4259593	None:intergenic
CGCGCCGAGTAGCGGCACAA+AGG	0.568749	2_2:-4259645	None:intergenic
GGTGCATGTAGCATGGCAAT+TGG	0.569674	2_2:+4259485	Msa0231920:CDS
TCAACAGCATCCTTAATGAT+GGG	0.587391	2_2:+4259398	Msa0231920:CDS
ACAAACGCCGCGCCGAGTAG+CGG	0.601438	2_2:-4259653	None:intergenic
CTCAAAGAAGACTTCACCAA+AGG	0.626739	2_2:-4259770	None:intergenic
TGTAGCTGGTGCATGTAGCA+TGG	0.629799	2_2:+4259478	Msa0231920:CDS
TTGTTAAAGACTATAAGGTG+AGG	0.635278	2_2:+4259672	Msa0231920:CDS
CTTTGTGCCGCTACTCGGCG+CGG	0.645709	2_2:+4259646	Msa0231920:CDS
TACGTGCTAGTGTAGCTGCA+TGG	0.662565	2_2:-4259250	None:intergenic
ATTATACTCAAAGAGCACAA+TGG	0.665811	2_2:+4259336	Msa0231920:CDS
TGAATCAAAAGTGTACAACA+TGG	0.690093	2_2:+4259274	Msa0231920:CDS
TTTGCACAAATGAAAAGACA+AGG	0.695742	2_2:+4259545	Msa0231920:CDS
AAAATGATCAAACTACAACA+TGG	0.718736	2_2:-4259853	None:intergenic
GTGCTAGTGTAGCTGCATGG+TGG	0.751494	2_2:-4259247	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!	AACATGGATGTTGAAAAAAA+AGG	+	chr2_2:4259290-4259309	Msa0231920:CDS	25.0%
!!	TGTCTTAACATCTTTTGTAA+CGG	-	chr2_2:4259432-4259451	None:intergenic	25.0%
!	TGAATCAAAAGTGTACAACA+TGG	+	chr2_2:4259274-4259293	Msa0231920:CDS	30.0%
!	ATTATACTCAAAGAGCACAA+TGG	+	chr2_2:4259336-4259355	Msa0231920:CDS	30.0%
	GTTAAGACAATGATTCTAAC+TGG	+	chr2_2:4259443-4259462	Msa0231920:CDS	30.0%
	TTTGCACAAATGAAAAGACA+AGG	+	chr2_2:4259545-4259564	Msa0231920:CDS	30.0%
	TTGTTAAAGACTATAAGGTG+AGG	+	chr2_2:4259672-4259691	Msa0231920:CDS	30.0%
	TCAACAGCATCCTTAATGAT+GGG	+	chr2_2:4259398-4259417	Msa0231920:CDS	35.0%
	ATGATTCTAACTGGAATTGC+TGG	+	chr2_2:4259452-4259471	Msa0231920:CDS	35.0%
	AAGCAAAGGCAGCATAATAA+GGG	-	chr2_2:4259601-4259620	None:intergenic	35.0%
	TTATTATGCTGCCTTTGCTT+CGG	+	chr2_2:4259601-4259620	Msa0231920:CDS	35.0%
!	GGCGTTTGTTAAAGACTATA+AGG	+	chr2_2:4259667-4259686	Msa0231920:CDS	35.0%
	TAAAGACTATAAGGTGAGGT+TGG	+	chr2_2:4259676-4259695	Msa0231920:CDS	35.0%
	AAAGACTATAAGGTGAGGTT+GGG	+	chr2_2:4259677-4259696	Msa0231920:CDS	35.0%
	ATCCAAAAGCAAACAAAGCA+AGG	-	chr2_2:4259724-4259743	None:intergenic	35.0%
	TTTGGTGAAGTCTTCTTTGA+GGG	+	chr2_2:4259772-4259791	Msa0231920:CDS	35.0%
!!	TCTTCTTTGAGGGTTTTGAT+TGG	+	chr2_2:4259782-4259801	Msa0231920:CDS	35.0%
!!	CTTGCTATGTCTCTTACTTT+TGG	+	chr2_2:4259812-4259831	Msa0231920:CDS	35.0%
!	TCAAAGAGCACAATGGCTTA+GGG	+	chr2_2:4259343-4259362	Msa0231920:CDS	40.0%
!!	GCTGTTTTAGGTGCTAATGA+TGG	+	chr2_2:4259368-4259387	Msa0231920:CDS	40.0%
	CTCAACAGCATCCTTAATGA+TGG	+	chr2_2:4259397-4259416	Msa0231920:CDS	40.0%
	AAGGCAGCATAATAAGGGTT+AGG	-	chr2_2:4259596-4259615	None:intergenic	40.0%
	GAAGCAAAGGCAGCATAATA+AGG	-	chr2_2:4259602-4259621	None:intergenic	40.0%
!!!	AGCCTTGCTTTGTTTGCTTT+TGG	+	chr2_2:4259719-4259738	Msa0231920:CDS	40.0%
!	GATTGTTGAGTGCTGTTCTT+GGG	+	chr2_2:4259741-4259760	Msa0231920:CDS	40.0%
	CTCAAAGAAGACTTCACCAA+AGG	-	chr2_2:4259773-4259792	None:intergenic	40.0%
	CTTTGGTGAAGTCTTCTTTG+AGG	+	chr2_2:4259771-4259790	Msa0231920:CDS	40.0%
!!!	TCTTTGAGGGTTTTGATTGG+TGG	+	chr2_2:4259785-4259804	Msa0231920:CDS	40.0%
!	CTCAAAGAGCACAATGGCTT+AGG	+	chr2_2:4259342-4259361	Msa0231920:CDS	45.0%
!!	GCATCCTTAATGATGGGTGT+TGG	+	chr2_2:4259404-4259423	Msa0231920:CDS	45.0%
!	GGATTGTTGAGTGCTGTTCT+TGG	+	chr2_2:4259740-4259759	Msa0231920:CDS	45.0%
	TGTTCTTGGGAAAGCTCCTT+TGG	+	chr2_2:4259754-4259773	Msa0231920:CDS	45.0%
!!!	TGAGGGTTTTGATTGGTGGA+TGG	+	chr2_2:4259789-4259808	Msa0231920:CDS	45.0%
	TACGTGCTAGTGTAGCTGCA+TGG	-	chr2_2:4259253-4259272	None:intergenic	50.0%
!!	TGGCTTAGGGCAGCTGTTTT+AGG	+	chr2_2:4259356-4259375	Msa0231920:CDS	50.0%
	GGCTCCAACACCCATCATTA+AGG	-	chr2_2:4259411-4259430	None:intergenic	50.0%
!!	GGAATTGCTGGTCTTGTAGC+TGG	+	chr2_2:4259464-4259483	Msa0231920:CDS	50.0%
	TGTAGCTGGTGCATGTAGCA+TGG	+	chr2_2:4259478-4259497	Msa0231920:CDS	50.0%
	GGTGCATGTAGCATGGCAAT+TGG	+	chr2_2:4259485-4259504	Msa0231920:CDS	50.0%
	AAAAGCGATGGCCGAAGCAA+AGG	-	chr2_2:4259615-4259634	None:intergenic	50.0%
	TAAGGTGAGGTTGGGAGTTG+TGG	+	chr2_2:4259685-4259704	Msa0231920:CDS	50.0%
	GTGCTAGTGTAGCTGCATGG+TGG	-	chr2_2:4259250-4259269	None:intergenic	55.0%
!!	TGCTTCGGCCATCGCTTTTG+CGG	+	chr2_2:4259616-4259635	Msa0231920:CDS	55.0%
	GTGAGGTTGGGAGTTGTGGT+TGG	+	chr2_2:4259689-4259708	Msa0231920:CDS	55.0%
!!	TCGGCCATCGCTTTTGCGGT+CGG	+	chr2_2:4259620-4259639	Msa0231920:CDS	60.0%
!	GGCGCCTTTGTGCCGCTACT+CGG	+	chr2_2:4259641-4259660	Msa0231920:CDS	65.0%
!	CTTTGTGCCGCTACTCGGCG+CGG	+	chr2_2:4259646-4259665	Msa0231920:CDS	65.0%
	ACAAACGCCGCGCCGAGTAG+CGG	-	chr2_2:4259656-4259675	None:intergenic	65.0%
!!	GGCGCCGACCGCAAAAGCGA+TGG	-	chr2_2:4259627-4259646	None:intergenic	70.0%
	CGCGCCGAGTAGCGGCACAA+AGG	-	chr2_2:4259648-4259667	None:intergenic	70.0%

Chromosome	Type	Strat	End	Strand	Name
chr2_2	gene	4259230	4259868	4259230	ID=Msa0231920;Name=Msa0231920
chr2_2	mRNA	4259230	4259868	4259230	ID=Msa0231920-mRNA-1;Parent=Msa0231920;Name=Msa0231920-mRNA-1;_AED=0.05;_eAED=0.05;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|212
chr2_2	exon	4259230	4259868	4259230	ID=Msa0231920-mRNA-1:exon:1729;Parent=Msa0231920-mRNA-1
chr2_2	CDS	4259230	4259868	4259230	ID=Msa0231920-mRNA-1:cds;Parent=Msa0231920-mRNA-1

Gene Sequence

>Msa0231920

ATGGCAGAAATTCAGCACCACCATGCAGCTACACTAGCACGTAGTGAATCAAAAGTGTACAACATGGATGTTGAAAAAAAAGGAGAAGAAGAAAATGATGAAAAAGATTATACTCAAAGAGCACAATGGCTTAGGGCAGCTGTTTTAGGTGCTAATGATGGTTTACTCTCAACAGCATCCTTAATGATGGGTGTTGGAGCCGTTACAAAAGATGTTAAGACAATGATTCTAACTGGAATTGCTGGTCTTGTAGCTGGTGCATGTAGCATGGCAATTGGTGAATTTGTGTCTGTTTATTCACAATATGATATTGAGTTTGCACAAATGAAAAGACAAGGAAACATTTCTCAAAAAGATAAATTGCCTAACCCTTATTATGCTGCCTTTGCTTCGGCCATCGCTTTTGCGGTCGGCGCCTTTGTGCCGCTACTCGGCGCGGCGTTTGTTAAAGACTATAAGGTGAGGTTGGGAGTTGTGGTTGGTGTTGTTAGCCTTGCTTTGTTTGCTTTTGGATTGTTGAGTGCTGTTCTTGGGAAAGCTCCTTTGGTGAAGTCTTCTTTGAGGGTTTTGATTGGTGGATGGCTTGCTATGTCTCTTACTTTTGGTTTAACTAAGCTTGTAAACCATGTTGTAGTTTGA

Protein sequence

>Msa0231920

MAEIQHHHAATLARSESKVYNMDVEKKGEEENDEKDYTQRAQWLRAAVLGANDGLLSTASLMMGVGAVTKDVKTMILTGIAGLVAGACSMAIGEFVSVYSQYDIEFAQMKRQGNISQKDKLPNPYYAAFASAIAFAVGAFVPLLGAAFVKDYKVRLGVVVGVVSLALFAFGLLSAVLGKAPLVKSSLRVLIGGWLAMSLTFGLTKLVNHVVV*