AlfalfaGEDB | Msa0458450

M. sativa cultivar zhongmu-4 / Msa0458450

KEGG: K09260
GO: GO:0000003 GO:0003006 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0007275 GO:0008150 GO:0009790 GO:0009791 GO:0009793 GO:0009889 GO:0010154 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0042995 GO:0043076 GO:0043078 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044464 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0080090 GO:0090406 GO:0097159 GO:0120025 GO:0140110 GO:1901363 GO:1903506 GO:2000112 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
Msa0458450	KEH34370.1	93.706	143	9	0	1	143	1	143	4.38e-93	275

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0458450	sp\|Q9FJK3\|AGL80_ARATH	45.255	137	69	4	4	138	32	164	4.40e-30	113

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0458450	A0A072V8A1	93.706	143	9	0	1	143	1	143	2.09e-93	275

TFs/TRs:

Gene ID	Type	Classification
Msa0458450	TF	MADS-M-type

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0365500	Msa0458450	0.847022	1.504341e-59	-8.615850e-47
Msa0458450	Msa0505080	0.888730	4.557062e-73	-8.615850e-47
Msa0458450	Msa1016280	0.806850	6.731464e-50	-8.615850e-47
Msa0458450	Msa1092990	0.819399	1.185271e-52	-8.615850e-47
Msa0458450	Msa1187940	0.803069	4.157214e-49	-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
Msa0458450	MtrunA17_Chr3g0105791	93.706	143	9	0	1	143	1	143	4.03e-97	275
Msa0458450	MtrunA17_Chr4g0031421	90.909	143	13	0	1	143	1	143	1.97e-92	264
Msa0458450	MtrunA17_Chr3g0107461	77.444	133	30	0	1	133	29	161	6.03e-70	207
Msa0458450	MtrunA17_Chr3g0107381	49.306	144	70	2	1	142	29	171	2.87e-42	139
Msa0458450	MtrunA17_Chr3g0106501	47.407	135	71	0	1	135	1	135	5.57e-39	129
Msa0458450	MtrunA17_Chr2g0283941	43.262	141	80	0	1	141	29	169	1.47e-36	125
Msa0458450	MtrunA17_Chr3g0110131	47.244	127	66	1	4	130	32	157	1.76e-36	125
Msa0458450	MtrunA17_Chr3g0106421	42.553	141	81	0	1	141	1	141	1.27e-34	119
Msa0458450	MtrunA17_Chr5g0432691	40.909	132	71	2	1	129	29	156	3.26e-32	112
Msa0458450	MtrunA17_Chr4g0014321	39.416	137	83	0	1	137	29	165	7.23e-32	113
Msa0458450	MtrunA17_Chr4g0014131	39.552	134	81	0	4	137	32	165	1.22e-30	110
Msa0458450	MtrunA17_Chr2g0296861	47.200	125	65	1	2	126	30	153	7.63e-30	105
Msa0458450	MtrunA17_Chr4g0014031	38.806	134	82	0	4	137	32	165	4.11e-29	105
Msa0458450	MtrunA17_Chr4g0013041	36.620	142	89	1	2	142	28	169	9.19e-28	102
Msa0458450	MtrunA17_Chr4g0014121	35.938	128	82	0	4	131	60	187	2.35e-27	100
Msa0458450	MtrunA17_Chr8g0351751	38.849	139	83	1	1	137	29	167	3.36e-27	101
Msa0458450	MtrunA17_Chr2g0296831	46.512	86	46	0	4	89	32	117	2.24e-25	93.6
Msa0458450	MtrunA17_Chr5g0420351	38.095	126	76	2	1	126	29	152	4.83e-23	88.6
Msa0458450	MtrunA17_Chr1g0188661	36.719	128	79	2	4	131	32	157	1.48e-22	87.4
Msa0458450	MtrunA17_Chr1g0188651	35.385	130	80	2	4	133	32	157	1.69e-22	87.0
Msa0458450	MtrunA17_Chr4g0012761	35.938	128	80	2	4	131	32	157	1.70e-22	87.0
Msa0458450	MtrunA17_Chr3g0107331	36.434	129	81	1	1	129	28	155	4.37e-22	86.3
Msa0458450	MtrunA17_Chr1g0188681	36.641	131	81	2	1	131	29	157	5.30e-22	85.9
Msa0458450	MtrunA17_Chr7g0218151	35.156	128	81	2	4	131	32	157	8.46e-22	85.5
Msa0458450	MtrunA17_Chr1g0193311	34.127	126	81	2	4	129	32	155	1.18e-21	84.7
Msa0458450	MtrunA17_Chr3g0107361	35.156	128	82	1	2	129	29	155	4.42e-20	80.9
Msa0458450	MtrunA17_Chr1g0197461	34.921	126	80	2	1	126	28	151	8.61e-20	80.1
Msa0458450	MtrunA17_Chr3g0107351	33.594	128	84	1	2	129	29	155	2.62e-18	76.3
Msa0458450	MtrunA17_Chr3g0107341	33.594	128	84	1	2	129	29	155	1.95e-17	73.9
Msa0458450	MtrunA17_Chr1g0197321	31.746	126	85	1	1	126	29	153	2.95e-16	70.9
Msa0458450	MtrunA17_Chr1g0197261	32.812	128	80	4	1	126	29	152	5.79e-15	67.4
Msa0458450	MtrunA17_Chr4g0008701	32.727	110	64	2	1	107	32	134	2.12e-12	63.2
Msa0458450	MtrunA17_Chr7g0267601	31.579	114	63	3	1	111	32	133	3.75e-12	62.4

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0458450	AT5G48670.1	45.255	137	69	4	4	138	32	164	4.47e-31	113
Msa0458450	AT5G27810.1	52.809	89	42	0	1	89	1	89	2.40e-29	103
Msa0458450	AT1G65300.1	40.000	125	74	1	2	126	29	152	5.82e-23	91.7
Msa0458450	AT1G65330.1	39.370	127	76	1	1	127	28	153	1.50e-22	90.5
Msa0458450	AT3G05860.2	36.806	144	86	2	1	142	29	169	4.23e-21	85.1
Msa0458450	AT3G05860.3	36.806	144	86	2	1	142	29	169	5.88e-21	85.5
Msa0458450	AT3G05860.1	36.806	144	86	2	1	142	29	169	7.51e-21	85.5
Msa0458450	AT5G26650.1	34.586	133	78	2	1	129	27	154	5.36e-20	84.7
Msa0458450	AT5G26630.1	35.537	121	77	1	6	126	34	153	5.77e-20	82.4
Msa0458450	AT1G31640.1	37.037	135	71	4	2	130	29	155	2.10e-19	83.6
Msa0458450	AT5G27960.1	43.529	85	48	0	1	85	27	111	3.54e-18	79.3
Msa0458450	AT1G31630.1	33.333	129	82	3	3	130	30	155	5.64e-17	76.3
Msa0458450	AT1G22590.2	37.647	85	53	0	1	85	29	113	1.28e-15	69.7
Msa0458450	AT2G28700.1	31.081	148	91	4	1	143	29	170	1.08e-12	64.3
Msa0458450	AT5G06500.1	27.907	129	85	3	1	126	29	152	6.46e-12	61.2

Find 34 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
ATTGGTCATTTCCATCTTTC+TGG	0.077675	3_3:+54134166	None:intergenic
ATTCAAACCATAGAATTTAA+TGG	0.173791	3_3:-54134128	Msa0458450:CDS
CGAATTTCCATTAAATTCTA+TGG	0.218755	3_3:+54134121	None:intergenic
GAGGTTTGGCCATCAGATTC+AGG	0.258145	3_3:-54134323	Msa0458450:CDS
TCTTCTTGAGGCAAAACATT+AGG	0.355934	3_3:-54134226	Msa0458450:CDS
AATATAATGATCAATGATAT+TGG	0.368342	3_3:+54134148	None:intergenic
ATCAAGAGGAGGTTGGAAAT+GGG	0.388178	3_3:-54134007	Msa0458450:CDS
GATCAAGAGGAGGTTGGAAA+TGG	0.401299	3_3:-54134008	Msa0458450:CDS
GAAGTGTGATATCTAGGTTT+AGG	0.426765	3_3:-54134295	Msa0458450:CDS
GGGTCAGAAGTGTGATATCT+AGG	0.436600	3_3:-54134301	Msa0458450:CDS
TCTAGGTTTAGGAGTTTGCC+TGG	0.445921	3_3:-54134284	Msa0458450:CDS
AGAATTTGAAGGAGGTTGAT+CGG	0.478161	3_3:-54134055	Msa0458450:CDS
ACAACCCTCGAGTAGAGGTT+TGG	0.487846	3_3:-54134337	Msa0458450:CDS
TCAAGAGGAGGTTGGAAATG+GGG	0.500358	3_3:-54134006	Msa0458450:CDS
AGGTTTGGCCATCAGATTCA+GGG	0.511068	3_3:-54134322	Msa0458450:CDS
ACGAGCAGTTGAAGAAGCAA+AGG	0.512962	3_3:-54134196	Msa0458450:CDS
AAGGGAGGAAACCAGAAAGA+TGG	0.513695	3_3:-54134177	Msa0458450:CDS
ATGAAAGATCAAGAGGAGGT+TGG	0.519383	3_3:-54134014	Msa0458450:CDS
GAGGAGGTTGGAAATGGGGT+GGG	0.563227	3_3:-54134002	Msa0458450:CDS
AGAGGAGGTTGGAAATGGGG+TGG	0.565910	3_3:-54134003	Msa0458450:CDS
CGAGCAGTTGAAGAAGCAAA+GGG	0.580872	3_3:-54134195	Msa0458450:CDS
ACATGCTTCGACTCCACATA+GGG	0.581479	3_3:+54134379	None:intergenic
AATGACAATGAAAGATCAAG+AGG	0.583122	3_3:-54134021	Msa0458450:CDS
TATTGATGAGAATTTGAAGG+AGG	0.592173	3_3:-54134063	Msa0458450:CDS
CACATGCTTCGACTCCACAT+AGG	0.603214	3_3:+54134378	None:intergenic
AATGAAATTAGCACCCTATG+TGG	0.604835	3_3:-54134392	Msa0458450:CDS
GCAAAACAACCCTCGAGTAG+AGG	0.609086	3_3:-54134342	Msa0458450:CDS
CTTCTGACCCCTGAATCTGA+TGG	0.624024	3_3:+54134314	None:intergenic
GATGGCCAAACCTCTACTCG+AGG	0.634480	3_3:+54134332	None:intergenic
GACAATGAAAGATCAAGAGG+AGG	0.653972	3_3:-54134018	Msa0458450:CDS
GGTTTGGCCATCAGATTCAG+GGG	0.657992	3_3:-54134321	Msa0458450:CDS
ATGGCCAAACCTCTACTCGA+GGG	0.659257	3_3:+54134333	None:intergenic
GCAGTTGAAGAAGCAAAGGG+AGG	0.693727	3_3:-54134192	Msa0458450:CDS
TGGATCAGGAGGTCTTCTTG+AGG	0.700337	3_3:-54134238	Msa0458450:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	AATATAATGATCAATGATAT+TGG	+	chr3_3:54134254-54134273	None:intergenic	15.0%
!!	ATTCAAACCATAGAATTTAA+TGG	-	chr3_3:54134271-54134290	Msa0458450:CDS	20.0%
!!!	TTTTATTGATGAGAATTTGA+AGG	-	chr3_3:54134333-54134352	Msa0458450:CDS	20.0%
!	ACATGAACAAAGTAAAAAGA+TGG	-	chr3_3:54134138-54134157	Msa0458450:CDS	25.0%
!	CGAATTTCCATTAAATTCTA+TGG	+	chr3_3:54134281-54134300	None:intergenic	25.0%
!	TTTTTACTTTGTTCATGTCC+AGG	+	chr3_3:54134136-54134155	None:intergenic	30.0%
	TGAACAAAGTAAAAAGATGG+TGG	-	chr3_3:54134141-54134160	Msa0458450:CDS	30.0%
	TATTGATGAGAATTTGAAGG+AGG	-	chr3_3:54134336-54134355	Msa0458450:CDS	30.0%
	AATGACAATGAAAGATCAAG+AGG	-	chr3_3:54134378-54134397	Msa0458450:CDS	30.0%
	AATGAAATTAGCACCCTATG+TGG	-	chr3_3:54134007-54134026	Msa0458450:CDS	35.0%
	GAAGTGTGATATCTAGGTTT+AGG	-	chr3_3:54134104-54134123	Msa0458450:CDS	35.0%
!!	AAGTAAAAAGATGGTGGATC+AGG	-	chr3_3:54134147-54134166	Msa0458450:CDS	35.0%
	TCTTCTTGAGGCAAAACATT+AGG	-	chr3_3:54134173-54134192	Msa0458450:CDS	35.0%
	ATTGGTCATTTCCATCTTTC+TGG	+	chr3_3:54134236-54134255	None:intergenic	35.0%
!	AGAATTTGAAGGAGGTTGAT+CGG	-	chr3_3:54134344-54134363	Msa0458450:CDS	35.0%
!!	TAAAAAGATGGTGGATCAGG+AGG	-	chr3_3:54134150-54134169	Msa0458450:CDS	40.0%
	GACAATGAAAGATCAAGAGG+AGG	-	chr3_3:54134381-54134400	Msa0458450:CDS	40.0%
	ATGAAAGATCAAGAGGAGGT+TGG	-	chr3_3:54134385-54134404	Msa0458450:CDS	40.0%
	ATCAAGAGGAGGTTGGAAAT+GGG	-	chr3_3:54134392-54134411	Msa0458450:CDS	40.0%
	ACATGCTTCGACTCCACATA+GGG	+	chr3_3:54134023-54134042	None:intergenic	45.0%
	AGGTTTGGCCATCAGATTCA+GGG	-	chr3_3:54134077-54134096	Msa0458450:CDS	45.0%
!	GGGTCAGAAGTGTGATATCT+AGG	-	chr3_3:54134098-54134117	Msa0458450:CDS	45.0%
	TCTAGGTTTAGGAGTTTGCC+TGG	-	chr3_3:54134115-54134134	Msa0458450:CDS	45.0%
	ACGAGCAGTTGAAGAAGCAA+AGG	-	chr3_3:54134203-54134222	Msa0458450:CDS	45.0%
	CGAGCAGTTGAAGAAGCAAA+GGG	-	chr3_3:54134204-54134223	Msa0458450:CDS	45.0%
	AAGGGAGGAAACCAGAAAGA+TGG	-	chr3_3:54134222-54134241	Msa0458450:CDS	45.0%
	GATCAAGAGGAGGTTGGAAA+TGG	-	chr3_3:54134391-54134410	Msa0458450:CDS	45.0%
	TCAAGAGGAGGTTGGAAATG+GGG	-	chr3_3:54134393-54134412	Msa0458450:CDS	45.0%
	CACATGCTTCGACTCCACAT+AGG	+	chr3_3:54134024-54134043	None:intergenic	50.0%
	GCAAAACAACCCTCGAGTAG+AGG	-	chr3_3:54134057-54134076	Msa0458450:CDS	50.0%
	ACAACCCTCGAGTAGAGGTT+TGG	-	chr3_3:54134062-54134081	Msa0458450:CDS	50.0%
	ATGGCCAAACCTCTACTCGA+GGG	+	chr3_3:54134069-54134088	None:intergenic	50.0%
	GAGGTTTGGCCATCAGATTC+AGG	-	chr3_3:54134076-54134095	Msa0458450:CDS	50.0%
	GGTTTGGCCATCAGATTCAG+GGG	-	chr3_3:54134078-54134097	Msa0458450:CDS	50.0%
	CTTCTGACCCCTGAATCTGA+TGG	+	chr3_3:54134088-54134107	None:intergenic	50.0%
	TGGATCAGGAGGTCTTCTTG+AGG	-	chr3_3:54134161-54134180	Msa0458450:CDS	50.0%
	GCAGTTGAAGAAGCAAAGGG+AGG	-	chr3_3:54134207-54134226	Msa0458450:CDS	50.0%
	GATGGCCAAACCTCTACTCG+AGG	+	chr3_3:54134070-54134089	None:intergenic	55.0%
	AGAGGAGGTTGGAAATGGGG+TGG	-	chr3_3:54134396-54134415	Msa0458450:CDS	55.0%
	GAGGAGGTTGGAAATGGGGT+GGG	-	chr3_3:54134397-54134416	Msa0458450:CDS	55.0%

Chromosome	Type	Strat	End	Strand	Name
chr3_3	gene	54133995	54134426	54133995	ID=Msa0458450;Name=Msa0458450
chr3_3	mRNA	54133995	54134426	54133995	ID=Msa0458450-mRNA-1;Parent=Msa0458450;Name=Msa0458450-mRNA-1;_AED=0.15;_eAED=0.15;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|143
chr3_3	exon	54133995	54134426	54133995	ID=Msa0458450-mRNA-1:exon:10660;Parent=Msa0458450-mRNA-1
chr3_3	CDS	54133995	54134426	54133995	ID=Msa0458450-mRNA-1:cds;Parent=Msa0458450-mRNA-1

Gene Sequence

>Msa0458450

ATGAAGAAGATTAATGAAATTAGCACCCTATGTGGAGTCGAAGCATGTGCAATAATTTCAGAGCAAAACAACCCTCGAGTAGAGGTTTGGCCATCAGATTCAGGGGTCAGAAGTGTGATATCTAGGTTTAGGAGTTTGCCTGGACATGAACAAAGTAAAAAGATGGTGGATCAGGAGGTCTTCTTGAGGCAAAACATTAGGAAAGTCTACGAGCAGTTGAAGAAGCAAAGGGAGGAAACCAGAAAGATGGAAATGACCAATATCATTGATCATTATATTCAAACCATAGAATTTAATGGAAATTCGATGAGCAAATCTGATCTTAATGATTTTTCATCTTTTATTGATGAGAATTTGAAGGAGGTTGATCGGAAGATGAAAGAAATGACAATGAAAGATCAAGAGGAGGTTGGAAATGGGGTGGGATTATGA

Protein sequence

>Msa0458450

MKKINEISTLCGVEACAIISEQNNPRVEVWPSDSGVRSVISRFRSLPGHEQSKKMVDQEVFLRQNIRKVYEQLKKQREETRKMEMTNIIDHYIQTIEFNGNSMSKSDLNDFSSFIDENLKEVDRKMKEMTMKDQEEVGNGVGL*