AlfalfaGEDB | Msa1419260

M. sativa cultivar zhongmu-4 / Msa1419260

KEGG: -
GO: GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0008150 GO:0009889 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0043076 GO:0043078 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044464 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1903506 GO:2000112 GO:2001141
PFAM: PF00319.21

Nr:

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

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1419260	sp\|Q9FJK3\|AGL80_ARATH	47.917	144	74	1	1	143	1	144	8.76e-31	115

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1419260	G7JJI5	96.503	143	5	0	1	143	1	143	3.39e-97	286

TFs/TRs:

Gene ID	Type	Classification
Msa1419260	TF	MADS-M-type

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
Msa1419260	MtrunA17_Chr4g0012761	96.503	143	5	0	1	143	1	143	6.53e-101	286
Msa1419260	MtrunA17_Chr7g0218151	88.811	143	16	0	1	143	1	143	1.34e-85	247
Msa1419260	MtrunA17_Chr1g0188661	83.217	143	24	0	1	143	1	143	1.63e-78	229
Msa1419260	MtrunA17_Chr5g0420351	72.917	144	39	0	1	144	1	144	3.27e-73	216
Msa1419260	MtrunA17_Chr1g0193311	75.524	143	35	0	1	143	1	143	4.21e-68	202
Msa1419260	MtrunA17_Chr1g0188681	68.531	143	45	0	1	143	1	143	9.68e-68	202
Msa1419260	MtrunA17_Chr1g0188651	75.524	143	33	1	1	143	1	141	1.64e-64	194
Msa1419260	MtrunA17_Chr1g0197261	55.245	143	64	0	1	143	1	143	1.42e-52	163
Msa1419260	MtrunA17_Chr1g0197321	52.778	144	67	1	1	143	1	144	6.47e-50	157
Msa1419260	MtrunA17_Chr1g0197461	53.901	141	65	0	3	143	2	142	2.38e-49	155
Msa1419260	MtrunA17_Chr4g0014321	40.690	145	84	2	1	143	1	145	3.59e-37	127
Msa1419260	MtrunA17_Chr3g0107381	43.750	144	80	1	1	143	1	144	4.51e-35	121
Msa1419260	MtrunA17_Chr3g0110131	49.306	144	72	1	1	143	1	144	5.88e-35	121
Msa1419260	MtrunA17_Chr4g0013041	39.310	145	84	3	1	143	1	143	3.21e-33	115
Msa1419260	MtrunA17_Chr3g0107331	42.647	136	77	1	3	137	2	137	4.30e-31	109
Msa1419260	MtrunA17_Chr5g0432691	34.722	144	93	1	1	143	1	144	6.02e-30	106
Msa1419260	MtrunA17_Chr8g0351751	39.456	147	85	2	1	143	1	147	4.46e-29	106
Msa1419260	MtrunA17_Chr3g0107351	41.912	136	78	1	3	137	2	137	1.26e-28	102
Msa1419260	MtrunA17_Chr3g0107341	40.441	136	80	1	3	137	2	137	3.26e-28	102
Msa1419260	MtrunA17_Chr4g0014031	41.667	144	82	2	1	142	1	144	3.79e-28	103
Msa1419260	MtrunA17_Chr3g0107361	40.441	136	80	1	3	137	2	137	2.58e-27	99.8
Msa1419260	MtrunA17_Chr3g0107461	35.172	145	92	2	1	143	1	145	1.40e-24	92.4
Msa1419260	MtrunA17_Chr4g0014121	40.972	144	83	2	1	142	29	172	4.43e-24	92.0
Msa1419260	MtrunA17_Chr2g0296861	35.915	142	90	1	1	141	1	142	5.17e-24	90.9
Msa1419260	MtrunA17_Chr4g0014131	41.667	144	82	2	1	142	1	144	1.03e-23	92.0
Msa1419260	MtrunA17_Chr2g0296831	39.669	121	72	1	1	120	1	121	1.09e-23	89.4
Msa1419260	MtrunA17_Chr2g0283941	37.762	143	87	2	1	141	1	143	1.53e-23	92.0
Msa1419260	MtrunA17_Chr4g0008701	34.646	127	82	1	3	128	6	132	3.43e-18	79.7
Msa1419260	MtrunA17_Chr3g0105791	35.043	117	74	2	29	143	1	117	1.52e-17	73.9
Msa1419260	MtrunA17_Chr7g0267601	36.111	108	68	1	3	109	6	113	1.71e-17	77.8
Msa1419260	MtrunA17_Chr4g0031421	34.188	117	75	2	29	143	1	117	1.24e-16	71.6
Msa1419260	MtrunA17_Chr3g0106501	38.824	85	51	1	29	112	1	85	1.27e-13	63.9
Msa1419260	MtrunA17_Chr3g0128721	29.452	146	97	3	3	144	6	149	3.36e-12	62.8
Msa1419260	MtrunA17_Chr6g0449861	28.906	128	78	4	1	115	9	136	1.76e-11	60.5

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1419260	AT5G48670.1	47.917	144	74	1	1	143	1	144	8.90e-32	115
Msa1419260	AT3G05860.2	38.194	144	88	1	1	143	1	144	1.26e-28	104
Msa1419260	AT3G05860.3	38.194	144	88	1	1	143	1	144	6.53e-28	103
Msa1419260	AT3G05860.1	38.194	144	88	1	1	143	1	144	8.46e-28	103
Msa1419260	AT1G65300.1	37.500	144	88	2	1	143	1	143	3.90e-27	102
Msa1419260	AT1G65330.1	37.324	142	88	1	3	143	2	143	1.84e-26	100
Msa1419260	AT5G26630.1	38.889	144	87	1	1	143	1	144	3.67e-26	98.6
Msa1419260	AT1G31630.1	33.333	141	92	2	3	142	2	141	6.15e-22	89.7
Msa1419260	AT1G22590.2	35.246	122	66	2	1	115	1	116	1.56e-21	85.1
Msa1419260	AT5G26650.1	34.532	139	90	1	4	141	2	140	1.74e-21	89.0
Msa1419260	AT5G27960.1	34.815	135	87	1	4	137	2	136	7.28e-21	86.7
Msa1419260	AT2G28700.1	35.664	143	91	1	1	142	1	143	2.69e-20	85.1
Msa1419260	AT5G27810.1	42.708	96	54	1	29	123	1	96	3.50e-20	80.5
Msa1419260	AT1G31640.1	34.559	136	87	2	3	137	2	136	7.02e-20	85.1
Msa1419260	AT5G26580.1	37.624	101	50	2	1	101	1	88	1.75e-16	74.7
Msa1419260	AT2G40210.1	32.609	138	91	2	1	137	1	137	3.10e-13	65.9
Msa1419260	AT5G06500.1	33.099	142	90	3	1	141	1	138	3.39e-13	64.7
Msa1419260	AT5G58890.1	36.458	96	54	2	1	89	1	96	8.13e-13	64.3

Find 22 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TTTGCAAAAGGAAACTTTCT+TGG	0.256030	tig0024694:+2275	None:intergenic
AGCTGAACATTCTTATGATT+TGG	0.274450	tig0024694:-2195	Msa1419260:CDS
CGCCTTTCTTGTTGAATCAT+TGG	0.287726	tig0024694:+2492	None:intergenic
ACCTTTCTTCCTCCGCTTGT+AGG	0.316491	tig0024694:+2468	None:intergenic
TGTTTGACTTCCTTTAGATT+TGG	0.327640	tig0024694:+2352	None:intergenic
TGTTGAATCATTGGAGATAA+AGG	0.341938	tig0024694:+2501	None:intergenic
TCAGAAACAGTCACATCATC+TGG	0.447805	tig0024694:+2151	None:intergenic
CAGAGCTCATATATGAATGA+TGG	0.453595	tig0024694:-2313	Msa1419260:CDS
CTCCAATGATTCAACAAGAA+AGG	0.460238	tig0024694:-2494	Msa1419260:CDS
TGTTTCTGATTTGAAAGACT+TGG	0.473410	tig0024694:-2137	Msa1419260:CDS
ACCTACAAGCGGAGGAAGAA+AGG	0.494539	tig0024694:-2469	Msa1419260:CDS
AGAGGTGTGGCCAAATCTAA+AGG	0.522555	tig0024694:-2362	Msa1419260:CDS
AGAGAACTCACTATTCTTTG+TGG	0.526508	tig0024694:-2430	Msa1419260:CDS
TGCAAAAGATTACTAAAGCT+AGG	0.546005	tig0024694:-2258	Msa1419260:CDS
TCGGAAATTATAGCACATGC+TGG	0.559487	tig0024694:+2403	None:intergenic
AGAGCTCATATATGAATGAT+GGG	0.561975	tig0024694:-2312	Msa1419260:CDS
TACATTGCAAAGTCATGGCT+AGG	0.590557	tig0024694:-2540	None:intergenic
GAAGAAAGGTATCATCAAGA+AGG	0.595296	tig0024694:-2455	Msa1419260:CDS
GAAAGGCGACCTACAAGCGG+AGG	0.629626	tig0024694:-2477	Msa1419260:CDS
AAGTCAAACAGATGATTGAG+AGG	0.630265	tig0024694:-2339	Msa1419260:CDS
TTGATTCTAAAACAGAGGTG+TGG	0.633348	tig0024694:-2375	Msa1419260:CDS
CAAGAAAGGCGACCTACAAG+CGG	0.654193	tig0024694:-2480	Msa1419260:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	TGTTTTAGAATCAAAAGGAT+CGG	+	tig0024694:2259-2278	None:intergenic	25.0%
!!	CTTTAGTAATCTTTTGCAAA+AGG	+	tig0024694:2380-2399	None:intergenic	25.0%
	TGTTGAATCATTGGAGATAA+AGG	+	tig0024694:2142-2161	None:intergenic	30.0%
!!!	TCCTTTTGATTCTAAAACAG+AGG	-	tig0024694:2260-2279	Msa1419260:CDS	30.0%
!!!	ACCTCTGTTTTAGAATCAAA+AGG	+	tig0024694:2264-2283	None:intergenic	30.0%
!	TGTTTGACTTCCTTTAGATT+TGG	+	tig0024694:2291-2310	None:intergenic	30.0%
	AGAGCTCATATATGAATGAT+GGG	-	tig0024694:2328-2347	Msa1419260:CDS	30.0%
	TTTGCAAAAGGAAACTTTCT+TGG	+	tig0024694:2368-2387	None:intergenic	30.0%
	TGCAAAAGATTACTAAAGCT+AGG	-	tig0024694:2382-2401	Msa1419260:CDS	30.0%
	AGCTGAACATTCTTATGATT+TGG	-	tig0024694:2445-2464	Msa1419260:CDS	30.0%
!	TGTTTCTGATTTGAAAGACT+TGG	-	tig0024694:2503-2522	Msa1419260:CDS	30.0%
	CTCCAATGATTCAACAAGAA+AGG	-	tig0024694:2146-2165	Msa1419260:CDS	35.0%
!!	GAAGAAAGGTATCATCAAGA+AGG	-	tig0024694:2185-2204	Msa1419260:CDS	35.0%
	AGAGAACTCACTATTCTTTG+TGG	-	tig0024694:2210-2229	Msa1419260:CDS	35.0%
!!	TTGATTCTAAAACAGAGGTG+TGG	-	tig0024694:2265-2284	Msa1419260:CDS	35.0%
	AAGTCAAACAGATGATTGAG+AGG	-	tig0024694:2301-2320	Msa1419260:CDS	35.0%
	CAGAGCTCATATATGAATGA+TGG	-	tig0024694:2327-2346	Msa1419260:CDS	35.0%
	CGCCTTTCTTGTTGAATCAT+TGG	+	tig0024694:2151-2170	None:intergenic	40.0%
	TCGGAAATTATAGCACATGC+TGG	+	tig0024694:2240-2259	None:intergenic	40.0%
	TCAGAAACAGTCACATCATC+TGG	+	tig0024694:2492-2511	None:intergenic	40.0%
!	AGAGGTGTGGCCAAATCTAA+AGG	-	tig0024694:2278-2297	Msa1419260:CDS	45.0%
!!!	CTGGCAGCTTGTTGTTTTGT+AGG	+	tig0024694:2473-2492	None:intergenic	45.0%
	CAAGAAAGGCGACCTACAAG+CGG	-	tig0024694:2160-2179	Msa1419260:CDS	50.0%
	ACCTACAAGCGGAGGAAGAA+AGG	-	tig0024694:2171-2190	Msa1419260:CDS	50.0%
	ACCTTTCTTCCTCCGCTTGT+AGG	+	tig0024694:2175-2194	None:intergenic	50.0%
	GAAAGGCGACCTACAAGCGG+AGG	-	tig0024694:2163-2182	Msa1419260:CDS	60.0%

Chromosome	Type	Strat	End	Strand	Name
tig0024694	gene	2114	2548	2114	ID=Msa1419260;Name=Msa1419260
tig0024694	mRNA	2114	2548	2114	ID=Msa1419260-mRNA-1;Parent=Msa1419260;Name=Msa1419260-mRNA-1;_AED=0.04;_eAED=0.04;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|144
tig0024694	exon	2114	2548	2114	ID=Msa1419260-mRNA-1:exon:825;Parent=Msa1419260-mRNA-1
tig0024694	CDS	2114	2548	2114	ID=Msa1419260-mRNA-1:cds;Parent=Msa1419260-mRNA-1

Gene Sequence

>Msa1419260

ATGGCTAGGAAGAACGTGAAACTCGCCTTTATCTCCAATGATTCAACAAGAAAGGCGACCTACAAGCGGAGGAAGAAAGGTATCATCAAGAAGGTGAGAGAACTCACTATTCTTTGTGGTATTCCAGCATGTGCTATAATTTCCGATCCTTTTGATTCTAAAACAGAGGTGTGGCCAAATCTAAAGGAAGTCAAACAGATGATTGAGAGGTATCAGAGCTCATATATGAATGATGGGAGAAAAAATGTGAACCAAGAAAGTTTCCTTTTGCAAAAGATTACTAAAGCTAGGAAGCAACTACGAATACAAAGACATGACAATCATGAGAATGAGCTGAACATTCTTATGATTTGGTACCTACAAAACAACAAGCTGCCAGATGATGTGACTGTTTCTGATTTGAAAGACTTGGATAAGTTGATTGAAAAAATATGA

Protein sequence

>Msa1419260

MARKNVKLAFISNDSTRKATYKRRKKGIIKKVRELTILCGIPACAIISDPFDSKTEVWPNLKEVKQMIERYQSSYMNDGRKNVNQESFLLQKITKARKQLRIQRHDNHENELNILMIWYLQNNKLPDDVTVSDLKDLDKLIEKI*