AlfalfaGEDB | Msa0714860

M. sativa cultivar zhongmu-4 / Msa0714860

KEGG: -
GO: -
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
Msa0714860	RHN79908.1	95.714	140	6	0	1	140	52	191	1.30e-93	278

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0714860	sp\|P04146\|COPIA_DROME	43.066	137	77	1	2	137	1264	1400	1.62e-32	124

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0714860	A0A396JUJ4	95.714	140	6	0	1	140	52	191	6.22e-94	278

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0714850	Msa0714860	0.945987	1.086321e-104	-8.615850e-47
Msa0714860	Msa1172670	0.801289	9.657572e-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
Msa0714860	MtrunA17_Chr1g0182471	95.714	140	6	0	1	140	52	191	1.20e-97	278
Msa0714860	MtrunA17_Chr7g0248591	95.000	140	7	0	1	140	100	239	2.22e-95	275
Msa0714860	MtrunA17_Chr1g0172711	97.333	75	2	0	66	140	1	75	1.72e-50	155
Msa0714860	MtrunA17_Chr3g0101191	58.824	136	56	0	2	137	1177	1312	2.49e-45	157
Msa0714860	MtrunA17_Chr7g0214321	47.794	136	71	0	2	137	53	188	1.56e-39	131
Msa0714860	MtrunA17_Chr8g0390891	44.853	136	75	0	2	137	837	972	6.61e-37	133
Msa0714860	MtrunA17_Chr3g0144121	44.853	136	75	0	2	137	1206	1341	9.05e-37	132
Msa0714860	MtrunA17_Chr4g0005281	37.500	136	85	0	2	137	34	169	1.70e-31	110
Msa0714860	MtrunA17_Chr1g0153361	41.176	136	79	1	2	137	1568	1702	2.88e-31	117
Msa0714860	MtrunA17_Chr3g0085391	42.647	136	77	1	2	137	353	487	3.27e-31	115
Msa0714860	MtrunA17_Chr1g0202521	38.235	136	84	0	2	137	53	188	3.71e-31	110
Msa0714860	MtrunA17_Chr1g0208691	40.299	134	80	0	2	135	1154	1287	7.71e-30	113
Msa0714860	MtrunA17_Chr8g0337151	36.496	137	87	0	2	138	244	380	4.94e-29	108
Msa0714860	MtrunA17_Chr6g0480691	38.235	136	84	0	2	137	352	487	6.83e-29	109
Msa0714860	MtrunA17_Chr1g0168011	39.706	136	82	0	2	137	53	188	1.68e-28	103
Msa0714860	MtrunA17_Chr1g0162991	42.336	137	74	1	2	138	278	409	2.68e-28	107
Msa0714860	MtrunA17_Chr3g0122931	37.681	138	86	0	2	139	879	1016	5.32e-28	107
Msa0714860	MtrunA17_Chr2g0326511	37.681	138	86	0	2	139	245	382	7.91e-28	105
Msa0714860	MtrunA17_Chr3g0107241	48.454	97	50	0	2	98	163	259	9.35e-28	103
Msa0714860	MtrunA17_Chr2g0302511	41.176	136	80	0	2	137	470	605	1.07e-27	107
Msa0714860	MtrunA17_Chr2g0279231	35.766	137	88	0	3	139	767	903	1.12e-27	107
Msa0714860	MtrunA17_Chr7g0219281	37.681	138	86	0	2	139	353	490	2.03e-27	105
Msa0714860	MtrunA17_Chr4g0056611	37.681	138	86	0	2	139	819	956	6.09e-27	104
Msa0714860	MtrunA17_Chr1g0213471	37.410	139	86	1	2	140	261	398	2.31e-26	102
Msa0714860	MtrunA17_Chr3g0122161	34.559	136	88	1	2	137	1348	1482	2.71e-26	103
Msa0714860	MtrunA17_Chr1g0213431	34.559	136	88	1	2	137	1337	1471	2.85e-26	102
Msa0714860	MtrunA17_Chr6g0468801	38.971	136	83	0	2	137	639	774	3.90e-26	102
Msa0714860	MtrunA17_Chr7g0271061	35.507	138	88	1	2	139	1361	1497	5.14e-26	102
Msa0714860	MtrunA17_Chr3g0117621	35.507	138	88	1	2	139	1361	1497	5.95e-26	102
Msa0714860	MtrunA17_Chr5g0447551	36.765	136	86	0	2	137	352	487	1.11e-25	101
Msa0714860	MtrunA17_Chr6g0474211	39.706	136	82	0	2	137	628	763	1.39e-24	98.2
Msa0714860	MtrunA17_Chr7g0229241	37.681	138	84	1	2	137	1147	1284	1.41e-24	98.2
Msa0714860	MtrunA17_Chr8g0363051	34.559	136	89	0	2	137	618	753	1.56e-24	97.8
Msa0714860	MtrunA17_Chr2g0320651	34.058	138	88	2	2	137	1348	1484	1.57e-24	97.8
Msa0714860	MtrunA17_Chr5g0417451	32.353	136	92	0	2	137	127	262	2.05e-24	94.7
Msa0714860	MtrunA17_Chr5g0395921	32.353	136	91	1	2	137	1216	1350	6.61e-24	96.3
Msa0714860	MtrunA17_Chr1g0208701	38.525	122	74	1	2	123	1154	1274	1.06e-23	95.5
Msa0714860	MtrunA17_Chr8g0351191	36.029	136	86	1	2	137	646	780	2.70e-22	91.7
Msa0714860	MtrunA17_Chr7g0235811	32.353	136	92	0	2	137	464	599	7.96e-20	84.3
Msa0714860	MtrunA17_Chr8g0376361	39.362	94	57	0	44	137	5	98	1.02e-19	78.6
Msa0714860	MtrunA17_Chr8g0346291	35.443	79	51	0	59	137	7	85	7.74e-14	62.8
Msa0714860	MtrunA17_Chr6g0478321	48.148	54	28	0	2	55	201	254	1.41e-12	62.8

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0714860	AT4G23160.3	45.349	86	47	0	2	87	458	543	6.56e-20	85.1
Msa0714860	AT4G23160.2	45.349	86	47	0	2	87	458	543	6.56e-20	85.1

Find 22 sgRNAs with CRISPR-Local

Find 31 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AACACACATCTCCATTCTTT+TGG	0.227463	5_1:-7677936	None:intergenic
TTTACAAAAGCTCTTCCAAT+AGG	0.373543	5_1:+7677997	Msa0714860:CDS
AGCCACAGCAGCTGTTAATC+AGG	0.395100	5_1:+7677753	Msa0714860:CDS
AGTAACTCAAACCTGCCTAT+TGG	0.424995	5_1:-7678012	None:intergenic
CAAAAGCTCTTCCAATAGGC+AGG	0.435502	5_1:+7678001	Msa0714860:CDS
GATGACATGAAAAGCACTTC+AGG	0.437445	5_1:+7677637	None:intergenic
TAGGCAGGTTTGAGTTACTA+AGG	0.444006	5_1:+7678016	Msa0714860:CDS
TGATTTGCACTTAGAGCAAA+GGG	0.455228	5_1:+7677801	Msa0714860:CDS
CTCCTCCTTGTATCAGTAGT+TGG	0.462524	5_1:-7678055	None:intergenic
TGGAGATGGCAATGGCTGCC+TGG	0.463252	5_1:-7677849	None:intergenic
ATGGAACAGGGATATTCTCT+TGG	0.464320	5_1:+7677674	Msa0714860:CDS
CTCCGAGATGTCCAAAAGAA+TGG	0.464615	5_1:+7677925	Msa0714860:CDS
TTGTAAAGATGTCTGACAGC+TGG	0.511617	5_1:-7677981	None:intergenic
AAGGGAAACTACTGAGGTAA+TGG	0.521822	5_1:+7677819	Msa0714860:CDS
CTGATTTGCACTTAGAGCAA+AGG	0.539709	5_1:+7677800	Msa0714860:CDS
TGAGGTAATGGTGGACAACC+AGG	0.555463	5_1:+7677831	Msa0714860:CDS
GAGTTACTAAGGGAGAAACT+TGG	0.568218	5_1:+7678027	Msa0714860:CDS
AGGCAGGTTTGAGTTACTAA+GGG	0.598906	5_1:+7678017	Msa0714860:CDS
GGAAACTACTGAGGTAATGG+TGG	0.611822	5_1:+7677822	Msa0714860:CDS
GGCCTGATTAACAGCTGCTG+TGG	0.658329	5_1:-7677755	None:intergenic
CAGCTGTTAATCAGGCCTTG+TGG	0.666037	5_1:+7677761	Msa0714860:CDS
AGAGCAAAGGGAAACTACTG+AGG	0.696043	5_1:+7677813	Msa0714860:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	TACTGTTTTAGTTATGGAAC+AGG	+	chr5_1:7677661-7677680	Msa0714860:CDS	30.0%
!!!	ACTGTTTTAGTTATGGAACA+GGG	+	chr5_1:7677662-7677681	Msa0714860:CDS	30.0%
	TTTACAAAAGCTCTTCCAAT+AGG	+	chr5_1:7677997-7678016	Msa0714860:CDS	30.0%
!!!	TCAGGCTACTGTTTTAGTTA+TGG	+	chr5_1:7677655-7677674	Msa0714860:CDS	35.0%
!	TAGAACTTTTCTTAGCCACA+AGG	-	chr5_1:7677779-7677798	None:intergenic	35.0%
!	TGATTTGCACTTAGAGCAAA+GGG	+	chr5_1:7677801-7677820	Msa0714860:CDS	35.0%
!!	AAAGACAGGATTTTTGGAGA+TGG	-	chr5_1:7677866-7677885	None:intergenic	35.0%
	TCCAAAAATCCTGTCTTTCA+CGG	+	chr5_1:7677868-7677887	Msa0714860:CDS	35.0%
!!!	TTTGTTTTACCGTGAAAGAC+AGG	-	chr5_1:7677880-7677899	None:intergenic	35.0%
!	AACACACATCTCCATTCTTT+TGG	-	chr5_1:7677939-7677958	None:intergenic	35.0%
	ATGGAACAGGGATATTCTCT+TGG	+	chr5_1:7677674-7677693	Msa0714860:CDS	40.0%
!	CTGATTTGCACTTAGAGCAA+AGG	+	chr5_1:7677800-7677819	Msa0714860:CDS	40.0%
	AAGGGAAACTACTGAGGTAA+TGG	+	chr5_1:7677819-7677838	Msa0714860:CDS	40.0%
!!	AGGATTTTTGGAGATGGCAA+TGG	-	chr5_1:7677860-7677879	None:intergenic	40.0%
!	ACCGTGAAAGACAGGATTTT+TGG	-	chr5_1:7677872-7677891	None:intergenic	40.0%
!	CTCCATTCTTTTGGACATCT+CGG	-	chr5_1:7677930-7677949	None:intergenic	40.0%
	TTGTAAAGATGTCTGACAGC+TGG	-	chr5_1:7677984-7678003	None:intergenic	40.0%
	AGTAACTCAAACCTGCCTAT+TGG	-	chr5_1:7678015-7678034	None:intergenic	40.0%
!	TAGGCAGGTTTGAGTTACTA+AGG	+	chr5_1:7678016-7678035	Msa0714860:CDS	40.0%
!	AGGCAGGTTTGAGTTACTAA+GGG	+	chr5_1:7678017-7678036	Msa0714860:CDS	40.0%
	GAGTTACTAAGGGAGAAACT+TGG	+	chr5_1:7678027-7678046	Msa0714860:CDS	40.0%
	AGAGCAAAGGGAAACTACTG+AGG	+	chr5_1:7677813-7677832	Msa0714860:CDS	45.0%
!	GGAAACTACTGAGGTAATGG+TGG	+	chr5_1:7677822-7677841	Msa0714860:CDS	45.0%
!	CATTCTTTTGGACATCTCGG+AGG	-	chr5_1:7677927-7677946	None:intergenic	45.0%
	CTCCGAGATGTCCAAAAGAA+TGG	+	chr5_1:7677925-7677944	Msa0714860:CDS	45.0%
	CAAAAGCTCTTCCAATAGGC+AGG	+	chr5_1:7678001-7678020	Msa0714860:CDS	45.0%
	AGCCACAGCAGCTGTTAATC+AGG	+	chr5_1:7677753-7677772	Msa0714860:CDS	50.0%
	CAGCTGTTAATCAGGCCTTG+TGG	+	chr5_1:7677761-7677780	Msa0714860:CDS	50.0%
!!	TGAGGTAATGGTGGACAACC+AGG	+	chr5_1:7677831-7677850	Msa0714860:CDS	50.0%
	GGCCTGATTAACAGCTGCTG+TGG	-	chr5_1:7677758-7677777	None:intergenic	55.0%
	TGGAGATGGCAATGGCTGCC+TGG	-	chr5_1:7677852-7677871	None:intergenic	60.0%

Chromosome	Type	Strat	End	Strand	Name
chr5_1	gene	7677643	7678065	7677643	ID=Msa0714860;Name=Msa0714860
chr5_1	mRNA	7677643	7678065	7677643	ID=Msa0714860-mRNA-1;Parent=Msa0714860;Name=Msa0714860-mRNA-1;_AED=0.02;_eAED=0.02;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|140
chr5_1	exon	7677643	7678065	7677643	ID=Msa0714860-mRNA-1:exon:3177;Parent=Msa0714860-mRNA-1
chr5_1	CDS	7677643	7678065	7677643	ID=Msa0714860-mRNA-1:cds;Parent=Msa0714860-mRNA-1

Gene Sequence

>Msa0714860

ATGAAAAGCACTTCAGGCTACTGTTTTAGTTATGGAACAGGGATATTCTCTTGGAGTTCAAAAAAACAAGATATTGTTGCACAATCAACAGCTGAAGCAGAGTTTATTGCAGCCACAGCAGCTGTTAATCAGGCCTTGTGGCTAAGAAAAGTTCTAGCTGATTTGCACTTAGAGCAAAGGGAAACTACTGAGGTAATGGTGGACAACCAGGCAGCCATTGCCATCTCCAAAAATCCTGTCTTTCACGGTAAAACAAAGCATTTTAGCATCAAATTATTTTTCCTCCGAGATGTCCAAAAGAATGGAGATGTGTGTTTGAAGTACTGCAAGACTGAAGACCAGCTGTCAGACATCTTTACAAAAGCTCTTCCAATAGGCAGGTTTGAGTTACTAAGGGAGAAACTTGGAATATCCAACTACTGA

Protein sequence

>Msa0714860

MKSTSGYCFSYGTGIFSWSSKKQDIVAQSTAEAEFIAATAAVNQALWLRKVLADLHLEQRETTEVMVDNQAAIAISKNPVFHGKTKHFSIKLFFLRDVQKNGDVCLKYCKTEDQLSDIFTKALPIGRFELLREKLGISNY*