AlfalfaGEDB | Msa0271220

M. sativa cultivar zhongmu-4 / Msa0271220

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
Msa0271220	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
Msa0271220	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
Msa0271220	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	Msa0271220	0.807903	4.026318e-50	-8.615850e-47
Msa0089730	Msa0271220	0.834870	2.333466e-56	-8.615850e-47
Msa0144530	Msa0271220	0.814529	1.470731e-51	-8.615850e-47
Msa0189400	Msa0271220	0.845312	4.393965e-59	-8.615850e-47
Msa0231920	Msa0271220	0.999113	6.920153e-291	-8.615850e-47
Msa0240270	Msa0271220	0.808845	2.535276e-50	-8.615850e-47
Msa0269560	Msa0271220	0.810281	1.246456e-50	-8.615850e-47
Msa0271220	Msa0309980	0.835661	1.473689e-56	-8.615850e-47
Msa0271220	Msa0388360	0.814363	1.600674e-51	-8.615850e-47
Msa0271220	Msa0545050	0.811748	5.993766e-51	-8.615850e-47
Msa0271220	Msa0600590	0.807046	6.120805e-50	-8.615850e-47
Msa0271220	Msa0611540	-0.838336	3.054551e-57	-8.615850e-47
Msa0271220	Msa0613340	0.802981	4.333972e-49	-8.615850e-47
Msa0271220	Msa0641130	0.812177	4.833604e-51	-8.615850e-47
Msa0271220	Msa0708310	0.800940	1.138208e-48	-8.615850e-47
Msa0271220	Msa0772280	0.816917	4.317924e-52	-8.615850e-47
Msa0271220	Msa0823540	0.808455	3.070700e-50	-8.615850e-47
Msa0271220	Msa1259860	0.808079	3.694392e-50	-8.615850e-47
Msa0271220	Msa1369920	-0.813122	3.002963e-51	-8.615850e-47
Msa0271220	Msa1424630	0.800779	1.228207e-48	-8.615850e-47
Msa0271220	Msa1430550	0.812840	3.462872e-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
Msa0271220	MtrunA17_Chr2g0278621	99.528	212	1	0	1	212	1	212	6.09e-155	427
Msa0271220	MtrunA17_Chr6g0479471	99.057	212	2	0	1	212	1	212	5.01e-154	425
Msa0271220	MtrunA17_Chr1g0202031	70.652	184	49	1	29	207	29	212	4.85e-87	256
Msa0271220	MtrunA17_Chr6g0463641	66.667	195	55	2	23	207	11	205	8.49e-77	229
Msa0271220	MtrunA17_Chr4g0050831	60.938	192	66	1	27	209	30	221	1.37e-75	227
Msa0271220	MtrunA17_Chr4g0050821	60.938	192	66	1	27	209	30	221	1.40e-75	227
Msa0271220	MtrunA17_Chr4g0050841	61.579	190	64	1	27	207	30	219	1.78e-75	227
Msa0271220	MtrunA17_Chr4g0050811	56.279	215	83	3	1	209	27	236	9.47e-73	220
Msa0271220	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
Msa0271220	AT3G43660.1	68.718	195	57	2	14	207	2	193	1.13e-91	267
Msa0271220	AT3G43630.1	71.277	188	50	2	21	207	8	192	3.22e-85	251
Msa0271220	AT1G21140.1	70.312	192	53	2	17	207	7	195	8.37e-84	247
Msa0271220	AT1G76800.1	68.984	187	54	1	21	207	9	191	1.53e-78	234
Msa0271220	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_3:+2527873	Msa0271220:CDS
AGCCTTGCTTTGTTTGCTTT+TGG	0.248729	2_3:+2527780	Msa0271220:CDS
GAAGCAAAGGCAGCATAATA+AGG	0.258027	2_3:-2527660	None:intergenic
GGCTCCAACACCCATCATTA+AGG	0.342144	2_3:-2527469	None:intergenic
TGTTCTTGGGAAAGCTCCTT+TGG	0.348881	2_3:+2527815	Msa0271220:CDS
TTTGGTGAAGTCTTCTTTGA+GGG	0.356177	2_3:+2527833	Msa0271220:CDS
GTTAAGACAATGATTCTAAC+TGG	0.372301	2_3:+2527504	Msa0271220:CDS
GGATTGTTGAGTGCTGTTCT+TGG	0.377078	2_3:+2527801	Msa0271220:CDS
CTCAAAGAGCACAATGGCTT+AGG	0.396117	2_3:+2527403	Msa0271220:CDS
TTATTATGCTGCCTTTGCTT+CGG	0.407157	2_3:+2527662	Msa0271220:CDS
CTTTGGTGAAGTCTTCTTTG+AGG	0.408112	2_3:+2527832	Msa0271220:CDS
ATGATTCTAACTGGAATTGC+TGG	0.418092	2_3:+2527513	Msa0271220:CDS
GATTGTTGAGTGCTGTTCTT+GGG	0.419290	2_3:+2527802	Msa0271220:CDS
GGCGTTTGTTAAAGACTATA+AGG	0.421985	2_3:+2527728	Msa0271220:CDS
GGCGCCTTTGTGCCGCTACT+CGG	0.427583	2_3:+2527702	Msa0271220:CDS
CTCAACAGCATCCTTAATGA+TGG	0.435656	2_3:+2527458	Msa0271220:CDS
TAAAGACTATAAGGTGAGGT+TGG	0.443344	2_3:+2527737	Msa0271220:CDS
GGAATTGCTGGTCTTGTAGC+TGG	0.462496	2_3:+2527525	Msa0271220:CDS
GTGAGGTTGGGAGTTGTGGT+TGG	0.470924	2_3:+2527750	Msa0271220:CDS
AAAAGCGATGGCCGAAGCAA+AGG	0.483514	2_3:-2527673	None:intergenic
TCAAAGAGCACAATGGCTTA+GGG	0.493819	2_3:+2527404	Msa0271220:CDS
TAAGGTGAGGTTGGGAGTTG+TGG	0.497331	2_3:+2527746	Msa0271220:CDS
AAAGACTATAAGGTGAGGTT+GGG	0.502612	2_3:+2527738	Msa0271220:CDS
AAGCAAAGGCAGCATAATAA+GGG	0.516802	2_3:-2527659	None:intergenic
GGCGCCGACCGCAAAAGCGA+TGG	0.528738	2_3:-2527685	None:intergenic
GCATCCTTAATGATGGGTGT+TGG	0.549500	2_3:+2527465	Msa0271220:CDS
ATCCAAAAGCAAACAAAGCA+AGG	0.566512	2_3:-2527782	None:intergenic
AAGGCAGCATAATAAGGGTT+AGG	0.567356	2_3:-2527654	None:intergenic
CGCGCCGAGTAGCGGCACAA+AGG	0.568749	2_3:-2527706	None:intergenic
GGTGCATGTAGCATGGCAAT+TGG	0.569674	2_3:+2527546	Msa0271220:CDS
TCAACAGCATCCTTAATGAT+GGG	0.587391	2_3:+2527459	Msa0271220:CDS
ACAAACGCCGCGCCGAGTAG+CGG	0.601438	2_3:-2527714	None:intergenic
CTCAAAGAAGACTTCACCAA+AGG	0.626739	2_3:-2527831	None:intergenic
TGTAGCTGGTGCATGTAGCA+TGG	0.629799	2_3:+2527539	Msa0271220:CDS
TTGTTAAAGACTATAAGGTG+AGG	0.635278	2_3:+2527733	Msa0271220:CDS
CTTTGTGCCGCTACTCGGCG+CGG	0.645709	2_3:+2527707	Msa0271220:CDS
TACGTGCTAGTGTAGCTGCA+TGG	0.662565	2_3:-2527311	None:intergenic
ATTATACTCAAAGAGCACAA+TGG	0.665811	2_3:+2527397	Msa0271220:CDS
TGAATCAAAAGTGTACAACA+TGG	0.690093	2_3:+2527335	Msa0271220:CDS
TTTGCACAAATGAAAAGACA+AGG	0.695742	2_3:+2527606	Msa0271220:CDS
AAAATGATCAAACTACAACA+TGG	0.718736	2_3:-2527914	None:intergenic
GTGCTAGTGTAGCTGCATGG+TGG	0.751494	2_3:-2527308	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!	AACATGGATGTTGAAAAAAA+AGG	+	chr2_3:2527351-2527370	Msa0271220:CDS	25.0%
!!	TGTCTTAACATCTTTTGTAA+CGG	-	chr2_3:2527493-2527512	None:intergenic	25.0%
!	TGAATCAAAAGTGTACAACA+TGG	+	chr2_3:2527335-2527354	Msa0271220:CDS	30.0%
!	ATTATACTCAAAGAGCACAA+TGG	+	chr2_3:2527397-2527416	Msa0271220:CDS	30.0%
	GTTAAGACAATGATTCTAAC+TGG	+	chr2_3:2527504-2527523	Msa0271220:CDS	30.0%
	TTTGCACAAATGAAAAGACA+AGG	+	chr2_3:2527606-2527625	Msa0271220:CDS	30.0%
	TTGTTAAAGACTATAAGGTG+AGG	+	chr2_3:2527733-2527752	Msa0271220:CDS	30.0%
	TCAACAGCATCCTTAATGAT+GGG	+	chr2_3:2527459-2527478	Msa0271220:CDS	35.0%
	ATGATTCTAACTGGAATTGC+TGG	+	chr2_3:2527513-2527532	Msa0271220:CDS	35.0%
	AAGCAAAGGCAGCATAATAA+GGG	-	chr2_3:2527662-2527681	None:intergenic	35.0%
	TTATTATGCTGCCTTTGCTT+CGG	+	chr2_3:2527662-2527681	Msa0271220:CDS	35.0%
!	GGCGTTTGTTAAAGACTATA+AGG	+	chr2_3:2527728-2527747	Msa0271220:CDS	35.0%
	TAAAGACTATAAGGTGAGGT+TGG	+	chr2_3:2527737-2527756	Msa0271220:CDS	35.0%
	AAAGACTATAAGGTGAGGTT+GGG	+	chr2_3:2527738-2527757	Msa0271220:CDS	35.0%
	ATCCAAAAGCAAACAAAGCA+AGG	-	chr2_3:2527785-2527804	None:intergenic	35.0%
	TTTGGTGAAGTCTTCTTTGA+GGG	+	chr2_3:2527833-2527852	Msa0271220:CDS	35.0%
!!	TCTTCTTTGAGGGTTTTGAT+TGG	+	chr2_3:2527843-2527862	Msa0271220:CDS	35.0%
!!	CTTGCTATGTCTCTTACTTT+TGG	+	chr2_3:2527873-2527892	Msa0271220:CDS	35.0%
!	TCAAAGAGCACAATGGCTTA+GGG	+	chr2_3:2527404-2527423	Msa0271220:CDS	40.0%
!!	GCTGTTTTAGGTGCTAATGA+TGG	+	chr2_3:2527429-2527448	Msa0271220:CDS	40.0%
	CTCAACAGCATCCTTAATGA+TGG	+	chr2_3:2527458-2527477	Msa0271220:CDS	40.0%
	AAGGCAGCATAATAAGGGTT+AGG	-	chr2_3:2527657-2527676	None:intergenic	40.0%
	GAAGCAAAGGCAGCATAATA+AGG	-	chr2_3:2527663-2527682	None:intergenic	40.0%
!!!	AGCCTTGCTTTGTTTGCTTT+TGG	+	chr2_3:2527780-2527799	Msa0271220:CDS	40.0%
!	GATTGTTGAGTGCTGTTCTT+GGG	+	chr2_3:2527802-2527821	Msa0271220:CDS	40.0%
	CTCAAAGAAGACTTCACCAA+AGG	-	chr2_3:2527834-2527853	None:intergenic	40.0%
	CTTTGGTGAAGTCTTCTTTG+AGG	+	chr2_3:2527832-2527851	Msa0271220:CDS	40.0%
!!!	TCTTTGAGGGTTTTGATTGG+TGG	+	chr2_3:2527846-2527865	Msa0271220:CDS	40.0%
!	CTCAAAGAGCACAATGGCTT+AGG	+	chr2_3:2527403-2527422	Msa0271220:CDS	45.0%
!!	GCATCCTTAATGATGGGTGT+TGG	+	chr2_3:2527465-2527484	Msa0271220:CDS	45.0%
!	GGATTGTTGAGTGCTGTTCT+TGG	+	chr2_3:2527801-2527820	Msa0271220:CDS	45.0%
	TGTTCTTGGGAAAGCTCCTT+TGG	+	chr2_3:2527815-2527834	Msa0271220:CDS	45.0%
!!!	TGAGGGTTTTGATTGGTGGA+TGG	+	chr2_3:2527850-2527869	Msa0271220:CDS	45.0%
	TACGTGCTAGTGTAGCTGCA+TGG	-	chr2_3:2527314-2527333	None:intergenic	50.0%
!!	TGGCTTAGGGCAGCTGTTTT+AGG	+	chr2_3:2527417-2527436	Msa0271220:CDS	50.0%
	GGCTCCAACACCCATCATTA+AGG	-	chr2_3:2527472-2527491	None:intergenic	50.0%
!!	GGAATTGCTGGTCTTGTAGC+TGG	+	chr2_3:2527525-2527544	Msa0271220:CDS	50.0%
	TGTAGCTGGTGCATGTAGCA+TGG	+	chr2_3:2527539-2527558	Msa0271220:CDS	50.0%
	GGTGCATGTAGCATGGCAAT+TGG	+	chr2_3:2527546-2527565	Msa0271220:CDS	50.0%
	AAAAGCGATGGCCGAAGCAA+AGG	-	chr2_3:2527676-2527695	None:intergenic	50.0%
	TAAGGTGAGGTTGGGAGTTG+TGG	+	chr2_3:2527746-2527765	Msa0271220:CDS	50.0%
	GTGCTAGTGTAGCTGCATGG+TGG	-	chr2_3:2527311-2527330	None:intergenic	55.0%
!!	TGCTTCGGCCATCGCTTTTG+CGG	+	chr2_3:2527677-2527696	Msa0271220:CDS	55.0%
	GTGAGGTTGGGAGTTGTGGT+TGG	+	chr2_3:2527750-2527769	Msa0271220:CDS	55.0%
!!	TCGGCCATCGCTTTTGCGGT+CGG	+	chr2_3:2527681-2527700	Msa0271220:CDS	60.0%
!	GGCGCCTTTGTGCCGCTACT+CGG	+	chr2_3:2527702-2527721	Msa0271220:CDS	65.0%
!	CTTTGTGCCGCTACTCGGCG+CGG	+	chr2_3:2527707-2527726	Msa0271220:CDS	65.0%
	ACAAACGCCGCGCCGAGTAG+CGG	-	chr2_3:2527717-2527736	None:intergenic	65.0%
!!	GGCGCCGACCGCAAAAGCGA+TGG	-	chr2_3:2527688-2527707	None:intergenic	70.0%
	CGCGCCGAGTAGCGGCACAA+AGG	-	chr2_3:2527709-2527728	None:intergenic	70.0%

Chromosome	Type	Strat	End	Strand	Name
chr2_3	gene	2527291	2527929	2527291	ID=Msa0271220;Name=Msa0271220
chr2_3	mRNA	2527291	2527929	2527291	ID=Msa0271220-mRNA-1;Parent=Msa0271220;Name=Msa0271220-mRNA-1;_AED=0.05;_eAED=0.05;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|212
chr2_3	exon	2527291	2527929	2527291	ID=Msa0271220-mRNA-1:exon:1282;Parent=Msa0271220-mRNA-1
chr2_3	CDS	2527291	2527929	2527291	ID=Msa0271220-mRNA-1:cds;Parent=Msa0271220-mRNA-1

Gene Sequence

>Msa0271220

ATGGCAGAAATTCAGCACCACCATGCAGCTACACTAGCACGTAGTGAATCAAAAGTGTACAACATGGATGTTGAAAAAAAAGGAGAAGAAGAAAATGATGAAAAAGATTATACTCAAAGAGCACAATGGCTTAGGGCAGCTGTTTTAGGTGCTAATGATGGTTTACTCTCAACAGCATCCTTAATGATGGGTGTTGGAGCCGTTACAAAAGATGTTAAGACAATGATTCTAACTGGAATTGCTGGTCTTGTAGCTGGTGCATGTAGCATGGCAATTGGTGAATTTGTGTCTGTTTATTCACAATATGATATTGAGTTTGCACAAATGAAAAGACAAGGAAACATTTCTCAAAAAGATAAATTGCCTAACCCTTATTATGCTGCCTTTGCTTCGGCCATCGCTTTTGCGGTCGGCGCCTTTGTGCCGCTACTCGGCGCGGCGTTTGTTAAAGACTATAAGGTGAGGTTGGGAGTTGTGGTTGGTGTTGTTAGCCTTGCTTTGTTTGCTTTTGGATTGTTGAGTGCTGTTCTTGGGAAAGCTCCTTTGGTGAAGTCTTCTTTGAGGGTTTTGATTGGTGGATGGCTTGCTATGTCTCTTACTTTTGGTTTAACTAAGCTTGTAAACCATGTTGTAGTTTGA

Protein sequence

>Msa0271220

MAEIQHHHAATLARSESKVYNMDVEKKGEEENDEKDYTQRAQWLRAAVLGANDGLLSTASLMMGVGAVTKDVKTMILTGIAGLVAGACSMAIGEFVSVYSQYDIEFAQMKRQGNISQKDKLPNPYYAAFASAIAFAVGAFVPLLGAAFVKDYKVRLGVVVGVVSLALFAFGLLSAVLGKAPLVKSSLRVLIGGWLAMSLTFGLTKLVNHVVV*