AlfalfaGEDB | Msa0586250

M. sativa cultivar zhongmu-4 / Msa0586250

KEGG: -
GO: GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006355 GO:0006996 GO:0007154 GO:0007165 GO:0007275 GO:0008150 GO:0009314 GO:0009416 GO:0009628 GO:0009637 GO:0009639 GO:0009640 GO:0009657 GO:0009658 GO:0009785 GO:0009791 GO:0009889 GO:0009890 GO:0009892 GO:0009909 GO:0009987 GO:0010017 GO:0010033 GO:0010200 GO:0010243 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0016043 GO:0019219 GO:0019222 GO:0023052 GO:0030522 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032501 GO:0032502 GO:0042221 GO:0042493 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0045892 GO:0045934 GO:0048519 GO:0048523 GO:0048580 GO:0048831 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051171 GO:0051172 GO:0051239 GO:0051252 GO:0051253 GO:0051716 GO:0060255 GO:0065007 GO:0071214 GO:0071478 GO:0071482 GO:0071483 GO:0071489 GO:0071840 GO:0080090 GO:0104004 GO:0140110 GO:1901698 GO:1901700 GO:1902679 GO:1903506 GO:1903507 GO:2000026 GO:2000112 GO:2000113 GO:2000241 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
Msa0586250	XP_013454572.1	92.339	248	17	1	1	246	3	250	1.84e-152	434

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0586250	sp\|Q9LJB7\|BBX32_ARATH	32.189	233	128	4	6	237	5	208	5.07e-27	107

Trembl:

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

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0232290	Msa0586250	0.814986	1.164678e-51	-8.615850e-47
Msa0396640	Msa0586250	0.815948	7.116477e-52	-8.615850e-47
Msa0450840	Msa0586250	0.809840	1.550633e-50	-8.615850e-47
Msa0491730	Msa0586250	0.810445	1.148602e-50	-8.615850e-47
Msa0586250	Msa0626140	0.828782	7.424042e-55	-8.615850e-47
Msa0586250	Msa0664210	0.898845	3.558623e-77	-8.615850e-47
Msa0586250	Msa0664270	0.919209	5.989162e-87	-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
Msa0586250	MtrunA17_Chr4g0002211	92.339	248	17	1	1	246	3	250	1.70e-156	434
Msa0586250	MtrunA17_Chr4g0024021	43.182	88	48	1	6	91	36	123	1.46e-15	71.2
Msa0586250	MtrunA17_Chr2g0322971	50.820	61	30	0	4	64	29	89	2.73e-15	70.1
Msa0586250	MtrunA17_Chr2g0323271	50.000	66	33	0	4	69	3	68	2.35e-12	64.7
Msa0586250	MtrunA17_Chr2g0280901	48.276	58	30	0	4	61	3	60	3.51e-12	61.6

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0586250	AT3G21150.1	32.189	233	128	4	6	237	5	208	5.15e-28	107
Msa0586250	AT4G27310.1	47.500	80	41	1	4	83	3	81	2.02e-15	73.2
Msa0586250	AT3G21890.1	51.613	62	30	0	5	66	30	91	5.75e-15	69.7
Msa0586250	AT5G54470.1	52.000	75	35	1	1	75	1	74	7.45e-15	71.6
Msa0586250	AT4G15248.1	44.156	77	43	0	6	82	32	108	1.27e-14	68.6

Find 61 sgRNAs with CRISPR-Local

Find 73 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAGAGGTTGGAGAAAATATC+AGG	0.275267	4_2:-7365879	Msa0586250:CDS
TTCGGTGAAACCGTCGCATT+TGG	0.282536	4_2:+7366358	None:intergenic
TCGAAATGGAGGAGAGAGTT+AGG	0.306453	4_2:-7366062	Msa0586250:CDS
CCGATTCCGCCTTTCTCTGC+CGG	0.365012	4_2:-7366448	Msa0586250:CDS
TTCCTCTTGTTCTCCGGTGC+CGG	0.365176	4_2:+7366134	None:intergenic
CACACCCTTCTTGCAATTCA+AGG	0.376949	4_2:+7365796	None:intergenic
CGAAATGGAGGAGAGAGTTA+GGG	0.388189	4_2:-7366061	Msa0586250:CDS
TGGCTGCTGCGACGTCGTTT+TGG	0.398824	4_2:-7365953	Msa0586250:CDS
ATCTTCTTCCTCTTGTTCTC+CGG	0.402881	4_2:+7366128	None:intergenic
AACAAGAGGAAGAAGATGAT+TGG	0.426093	4_2:-7366122	Msa0586250:CDS
AGCTGCGACGACGCCGTTCA+CGG	0.441391	4_2:-7366425	Msa0586250:CDS
ACAAGAGGAAGAAGATGATT+GGG	0.448515	4_2:-7366121	Msa0586250:CDS
CCGGCAGAGAAAGGCGGAAT+CGG	0.453844	4_2:+7366448	None:intergenic
TTCCGGTGAGCAAGAGCGGC+AGG	0.464761	4_2:+7366292	None:intergenic
GAACGGCGTCGTCGCAGCTC+CGG	0.476153	4_2:+7366429	None:intergenic
GTCGCAGCAGCCACCTTCAC+CGG	0.482296	4_2:+7365963	None:intergenic
AGTGCCGGAGATATGAATTT+CGG	0.485587	4_2:+7366340	None:intergenic
GAGAACGTGGAAGTTACTTC+CGG	0.494776	4_2:-7365982	Msa0586250:CDS
GTGGCTAAAATAAGCTTAGC+TGG	0.495492	4_2:+7365852	None:intergenic
GTCGCAGCTCCGGCAGAGAA+AGG	0.496029	4_2:+7366439	None:intergenic
TTCACCGAAATTCATATCTC+CGG	0.509514	4_2:-7366344	Msa0586250:CDS
TCGTGTAGCGGTGGAAGCTA+TGG	0.521183	4_2:-7366015	Msa0586250:CDS
GTGTCGAAATTTGAAGAGGT+TGG	0.526675	4_2:-7365892	Msa0586250:CDS
CGATGATAGATCTCCGGCAC+CGG	0.535526	4_2:-7366147	Msa0586250:CDS
AACCTGCCGCTCTTGCTCAC+CGG	0.536391	4_2:-7366294	Msa0586250:CDS
CCACGTGTCGAAATTTGAAG+AGG	0.538451	4_2:-7365896	Msa0586250:CDS
CAGAGAAAGGCGGAATCGGA+AGG	0.554491	4_2:+7366452	None:intergenic
ACGGTGGTGTAGTGTAGTGC+CGG	0.554858	4_2:+7366325	None:intergenic
AACACCTTGAATTGCAAGAA+GGG	0.556767	4_2:-7365800	Msa0586250:CDS
TCACCGGAAAATCATTCCTC+CGG	0.557681	4_2:-7366278	Msa0586250:CDS
TGAAAGTGTTGGATCGGTGG+CGG	0.559970	4_2:-7366096	Msa0586250:CDS
AAGTGTTGGATCGGTGGCGG+AGG	0.560614	4_2:-7366093	Msa0586250:CDS
AGATTGAGAACTCGCCTCAC+CGG	0.561454	4_2:+7366259	None:intergenic
GACTGAAAGTGTTGGATCGG+TGG	0.563595	4_2:-7366099	Msa0586250:CDS
AGAGGTTGGAGAAAATATCA+GGG	0.568817	4_2:-7365878	Msa0586250:CDS
CAACACCTTGAATTGCAAGA+AGG	0.572050	4_2:-7365801	Msa0586250:CDS
GTGGAAGTTACTTCCGGTGA+AGG	0.577957	4_2:-7365976	Msa0586250:CDS
CTCCGGCACCGGAGAACAAG+AGG	0.580870	4_2:-7366136	Msa0586250:CDS
TGTTACCGATGATAGATCTC+CGG	0.581211	4_2:-7366153	Msa0586250:CDS
GCTACACGATCACCGTTCAC+CGG	0.581537	4_2:+7366029	None:intergenic
ATGATTGGGACTGAAAGTGT+TGG	0.593930	4_2:-7366107	Msa0586250:CDS
GAAGTTACTTCCGGTGAAGG+TGG	0.596707	4_2:-7365973	Msa0586250:CDS
GAGGAAGTTAGCGCCGTGAA+CGG	0.601829	4_2:+7366412	None:intergenic
ATCTTGTGCTCCAAATGCGA+CGG	0.602290	4_2:-7366368	Msa0586250:CDS
AGCGGCAGGTTGATGAGAGA+CGG	0.602586	4_2:+7366306	None:intergenic
CCTCTTCAAATTTCGACACG+TGG	0.606211	4_2:+7365896	None:intergenic
TGTAGCGGTGGAAGCTATGG+CGG	0.620943	4_2:-7366012	Msa0586250:CDS
GAACGGTGATCGTGTAGCGG+TGG	0.623048	4_2:-7366024	Msa0586250:CDS
TGGGACTGAAAGTGTTGGAT+CGG	0.630097	4_2:-7366102	Msa0586250:CDS
ATTTGGAGCACAAGATGTGA+CGG	0.631824	4_2:+7366375	None:intergenic
GCAGCTCCGGCAGAGAAAGG+CGG	0.638220	4_2:+7366442	None:intergenic
TTGAGAACTCGCCTCACCGG+AGG	0.643923	4_2:+7366262	None:intergenic
GGTGAACGGTGATCGTGTAG+CGG	0.667529	4_2:-7366027	Msa0586250:CDS
CGGTGCCGGAGATCTATCAT+CGG	0.678850	4_2:+7366148	None:intergenic
GGAAAATCATTCCTCCGGTG+AGG	0.685941	4_2:-7366273	Msa0586250:CDS
ACGTGCGAGTTTCACATGTG+TGG	0.691088	4_2:+7365833	None:intergenic
GGCAGGTTGATGAGAGACGG+TGG	0.691500	4_2:+7366309	None:intergenic
TGGCGGTGTGTATGAGAACG+TGG	0.692845	4_2:-7365995	Msa0586250:CDS
GAGGTTGGAGAAAATATCAG+GGG	0.717043	4_2:-7365877	Msa0586250:CDS
TGGAGCACAAGATGTGACGG+AGG	0.724489	4_2:+7366378	None:intergenic
GACGGAGGTGACGAGCGACG+AGG	0.727759	4_2:+7366393	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
	TTCACCGAAATTCATATCTC+CGG	-	chr4_2:7365944-7365963	Msa0586250:CDS	35.0%
	AACAAGAGGAAGAAGATGAT+TGG	-	chr4_2:7366166-7366185	Msa0586250:CDS	35.0%
	ACAAGAGGAAGAAGATGATT+GGG	-	chr4_2:7366167-7366186	Msa0586250:CDS	35.0%
!	AGGAGATATTTTCGAAATGG+AGG	-	chr4_2:7366215-7366234	Msa0586250:CDS	35.0%
!	AGAGTTAGGGTTAGATTTTC+CGG	-	chr4_2:7366240-7366259	Msa0586250:CDS	35.0%
	AAGAGGTTGGAGAAAATATC+AGG	-	chr4_2:7366409-7366428	Msa0586250:CDS	35.0%
	AGAGGTTGGAGAAAATATCA+GGG	-	chr4_2:7366410-7366429	Msa0586250:CDS	35.0%
	AACACCTTGAATTGCAAGAA+GGG	-	chr4_2:7366488-7366507	Msa0586250:CDS	35.0%
!	ATTTGGAGCACAAGATGTGA+CGG	+	chr4_2:7365916-7365935	None:intergenic	40.0%
!	AGTGCCGGAGATATGAATTT+CGG	+	chr4_2:7365951-7365970	None:intergenic	40.0%
	TGTTACCGATGATAGATCTC+CGG	-	chr4_2:7366135-7366154	Msa0586250:CDS	40.0%
	ATCTTCTTCCTCTTGTTCTC+CGG	+	chr4_2:7366163-7366182	None:intergenic	40.0%
!	ATGATTGGGACTGAAAGTGT+TGG	-	chr4_2:7366181-7366200	Msa0586250:CDS	40.0%
!	CGGAGGAGATATTTTCGAAA+TGG	-	chr4_2:7366212-7366231	Msa0586250:CDS	40.0%
!	TGGTTGGGGTTAAGATTTTG+TGG	-	chr4_2:7366355-7366374	Msa0586250:CDS	40.0%
!	GGTTGGGGTTAAGATTTTGT+GGG	-	chr4_2:7366356-7366375	Msa0586250:CDS	40.0%
!	GTTGGGGTTAAGATTTTGTG+GGG	-	chr4_2:7366357-7366376	Msa0586250:CDS	40.0%
	GTGTCGAAATTTGAAGAGGT+TGG	-	chr4_2:7366396-7366415	Msa0586250:CDS	40.0%
	GAGGTTGGAGAAAATATCAG+GGG	-	chr4_2:7366411-7366430	Msa0586250:CDS	40.0%
	GTGGCTAAAATAAGCTTAGC+TGG	+	chr4_2:7366439-7366458	None:intergenic	40.0%
	CAACACCTTGAATTGCAAGA+AGG	-	chr4_2:7366487-7366506	Msa0586250:CDS	40.0%
	ATCTTGTGCTCCAAATGCGA+CGG	-	chr4_2:7365920-7365939	Msa0586250:CDS	45.0%
	TCACCGGAAAATCATTCCTC+CGG	-	chr4_2:7366010-7366029	Msa0586250:CDS	45.0%
!	TCACCGGAGGAATGATTTTC+CGG	+	chr4_2:7366016-7366035	None:intergenic	45.0%
!!	TGGGACTGAAAGTGTTGGAT+CGG	-	chr4_2:7366186-7366205	Msa0586250:CDS	45.0%
	TCGAAATGGAGGAGAGAGTT+AGG	-	chr4_2:7366226-7366245	Msa0586250:CDS	45.0%
	CGAAATGGAGGAGAGAGTTA+GGG	-	chr4_2:7366227-7366246	Msa0586250:CDS	45.0%
!	GGGTTAGATTTTCCGGTGAA+CGG	-	chr4_2:7366247-7366266	Msa0586250:CDS	45.0%
	GAGAACGTGGAAGTTACTTC+CGG	-	chr4_2:7366306-7366325	Msa0586250:CDS	45.0%
	CCTCTTCAAATTTCGACACG+TGG	+	chr4_2:7366395-7366414	None:intergenic	45.0%
	CCACGTGTCGAAATTTGAAG+AGG	-	chr4_2:7366392-7366411	Msa0586250:CDS	45.0%
	CACACCCTTCTTGCAATTCA+AGG	+	chr4_2:7366495-7366514	None:intergenic	45.0%
	TTCGGTGAAACCGTCGCATT+TGG	+	chr4_2:7365933-7365952	None:intergenic	50.0%
!	GATTTTCCGGTGAGCAAGAG+CGG	+	chr4_2:7366003-7366022	None:intergenic	50.0%
	GGAAAATCATTCCTCCGGTG+AGG	-	chr4_2:7366015-7366034	Msa0586250:CDS	50.0%
	AGATTGAGAACTCGCCTCAC+CGG	+	chr4_2:7366032-7366051	None:intergenic	50.0%
!!	GACTGAAAGTGTTGGATCGG+TGG	-	chr4_2:7366189-7366208	Msa0586250:CDS	50.0%
!!	TGAAAGTGTTGGATCGGTGG+CGG	-	chr4_2:7366192-7366211	Msa0586250:CDS	50.0%
	GTGGAAGTTACTTCCGGTGA+AGG	-	chr4_2:7366312-7366331	Msa0586250:CDS	50.0%
	GAAGTTACTTCCGGTGAAGG+TGG	-	chr4_2:7366315-7366334	Msa0586250:CDS	50.0%
	ACGTGCGAGTTTCACATGTG+TGG	+	chr4_2:7366458-7366477	None:intergenic	50.0%
	CAGAGAAAGGCGGAATCGGA+AGG	+	chr4_2:7365839-7365858	None:intergenic	55.0%
	GAGGAAGTTAGCGCCGTGAA+CGG	+	chr4_2:7365879-7365898	None:intergenic	55.0%
	TGGAGCACAAGATGTGACGG+AGG	+	chr4_2:7365913-7365932	None:intergenic	55.0%
	ACGGTGGTGTAGTGTAGTGC+CGG	+	chr4_2:7365966-7365985	None:intergenic	55.0%
!!	AGCGGCAGGTTGATGAGAGA+CGG	+	chr4_2:7365985-7366004	None:intergenic	55.0%
!	CGGTGCCGGAGATCTATCAT+CGG	+	chr4_2:7366143-7366162	None:intergenic	55.0%
	CGATGATAGATCTCCGGCAC+CGG	-	chr4_2:7366141-7366160	Msa0586250:CDS	55.0%
	TTCCTCTTGTTCTCCGGTGC+CGG	+	chr4_2:7366157-7366176	None:intergenic	55.0%
	GCTACACGATCACCGTTCAC+CGG	+	chr4_2:7366262-7366281	None:intergenic	55.0%
	GGTGAACGGTGATCGTGTAG+CGG	-	chr4_2:7366261-7366280	Msa0586250:CDS	55.0%
	TCGTGTAGCGGTGGAAGCTA+TGG	-	chr4_2:7366273-7366292	Msa0586250:CDS	55.0%
	TGTAGCGGTGGAAGCTATGG+CGG	-	chr4_2:7366276-7366295	Msa0586250:CDS	55.0%
	TGGCGGTGTGTATGAGAACG+TGG	-	chr4_2:7366293-7366312	Msa0586250:CDS	55.0%
!!	TGCTGCGACGTCGTTTTGGT+TGG	-	chr4_2:7366339-7366358	Msa0586250:CDS	55.0%
!!!	GCTGCGACGTCGTTTTGGTT+GGG	-	chr4_2:7366340-7366359	Msa0586250:CDS	55.0%
!!!	CTGCGACGTCGTTTTGGTTG+GGG	-	chr4_2:7366341-7366360	Msa0586250:CDS	55.0%
	CCGGCAGAGAAAGGCGGAAT+CGG	+	chr4_2:7365843-7365862	None:intergenic	60.0%
	CCGATTCCGCCTTTCTCTGC+CGG	-	chr4_2:7365840-7365859	Msa0586250:CDS	60.0%
!!	GGCAGGTTGATGAGAGACGG+TGG	+	chr4_2:7365982-7366001	None:intergenic	60.0%
	AACCTGCCGCTCTTGCTCAC+CGG	-	chr4_2:7365994-7366013	Msa0586250:CDS	60.0%
	TTGAGAACTCGCCTCACCGG+AGG	+	chr4_2:7366029-7366048	None:intergenic	60.0%
!!	AAGTGTTGGATCGGTGGCGG+AGG	-	chr4_2:7366195-7366214	Msa0586250:CDS	60.0%
	GAACGGTGATCGTGTAGCGG+TGG	-	chr4_2:7366264-7366283	Msa0586250:CDS	60.0%
!	TGGCTGCTGCGACGTCGTTT+TGG	-	chr4_2:7366335-7366354	Msa0586250:CDS	60.0%
	GCAGCTCCGGCAGAGAAAGG+CGG	+	chr4_2:7365849-7365868	None:intergenic	65.0%
	GTCGCAGCTCCGGCAGAGAA+AGG	+	chr4_2:7365852-7365871	None:intergenic	65.0%
	AGCTGCGACGACGCCGTTCA+CGG	-	chr4_2:7365863-7365882	Msa0586250:CDS	65.0%
	TTCCGGTGAGCAAGAGCGGC+AGG	+	chr4_2:7365999-7366018	None:intergenic	65.0%
!	CTCCGGCACCGGAGAACAAG+AGG	-	chr4_2:7366152-7366171	Msa0586250:CDS	65.0%
	GTCGCAGCAGCCACCTTCAC+CGG	+	chr4_2:7366328-7366347	None:intergenic	65.0%
	GAACGGCGTCGTCGCAGCTC+CGG	+	chr4_2:7365862-7365881	None:intergenic	70.0%
	GACGGAGGTGACGAGCGACG+AGG	+	chr4_2:7365898-7365917	None:intergenic	70.0%

Chromosome	Type	Strat	End	Strand	Name
chr4_2	gene	7365785	7366525	7365785	ID=Msa0586250;Name=Msa0586250
chr4_2	mRNA	7365785	7366525	7365785	ID=Msa0586250-mRNA-1;Parent=Msa0586250;Name=Msa0586250-mRNA-1;_AED=0.01;_eAED=0.01;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|246
chr4_2	exon	7365785	7366525	7365785	ID=Msa0586250-mRNA-1:exon:1862;Parent=Msa0586250-mRNA-1
chr4_2	CDS	7365785	7366525	7365785	ID=Msa0586250-mRNA-1:cds;Parent=Msa0586250-mRNA-1

Gene Sequence

>Msa0586250

ATGAAGTGCAAACAATGCGAACTTTGTAATCAACAAGCTTCTTTCTATTGTCCTTCCGATTCCGCCTTTCTCTGCCGGAGCTGCGACGACGCCGTTCACGGCGCTAACTTCCTCGTCGCTCGTCACCTCCGTCACATCTTGTGCTCCAAATGCGACGGTTTCACCGAAATTCATATCTCCGGCACTACACTACACCACCGTCTCTCATCAACCTGCCGCTCTTGCTCACCGGAAAATCATTCCTCCGGTGAGGCGAGTTCTCAATCTTCTTCATCTTGCGAGTCTTGCGTTACAGAAAAGAAGAAAACAAAATCTCGAAAGATAATGAAGAGTTTTTCAATTTCGAATTCTGTTACCGATGATAGATCTCCGGCACCGGAGAACAAGAGGAAGAAGATGATTGGGACTGAAAGTGTTGGATCGGTGGCGGAGGAGATATTTTCGAAATGGAGGAGAGAGTTAGGGTTAGATTTTCCGGTGAACGGTGATCGTGTAGCGGTGGAAGCTATGGCGGTGTGTATGAGAACGTGGAAGTTACTTCCGGTGAAGGTGGCTGCTGCGACGTCGTTTTGGTTGGGGTTAAGATTTTGTGGGGACAATAGTTTTGCCACGTGTCGAAATTTGAAGAGGTTGGAGAAAATATCAGGGGTGCCAGCTAAGCTTATTTTAGCCACACATGTGAAACTCGCACGTGTCTTTACTCAACACCTTGAATTGCAAGAAGGGTGTGATGAGTCCTAA

Protein sequence

>Msa0586250

MKCKQCELCNQQASFYCPSDSAFLCRSCDDAVHGANFLVARHLRHILCSKCDGFTEIHISGTTLHHRLSSTCRSCSPENHSSGEASSQSSSSCESCVTEKKKTKSRKIMKSFSISNSVTDDRSPAPENKRKKMIGTESVGSVAEEIFSKWRRELGLDFPVNGDRVAVEAMAVCMRTWKLLPVKVAAATSFWLGLRFCGDNSFATCRNLKRLEKISGVPAKLILATHVKLARVFTQHLELQEGCDES*