AlfalfaGEDB | Msa1086560

M. sativa cultivar zhongmu-4 / Msa1086560

KEGG: K02992
GO: GO:0000028 GO:0003674 GO:0003676 GO:0003723 GO:0003729 GO:0003735 GO:0005198 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005840 GO:0006412 GO:0006518 GO:0006807 GO:0006996 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009507 GO:0009536 GO:0009579 GO:0009987 GO:0010467 GO:0016020 GO:0016043 GO:0019538 GO:0019843 GO:0022607 GO:0022613 GO:0022618 GO:0032991 GO:0034622 GO:0034641 GO:0034645 GO:0042254 GO:0042255 GO:0042274 GO:0043043 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043603 GO:0043604 GO:0043933 GO:0044085 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044267 GO:0044271 GO:0044424 GO:0044444 GO:0044464 GO:0065003 GO:0070925 GO:0071704 GO:0071826 GO:0071840 GO:0097159 GO:1901363 GO:1901564 GO:1901566 GO:1901576 GO:1990904
PFAM: PF00177.24

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1086560	YP_009141653.1	98.529	68	1	0	32	99	78	145	1.61e-40	141

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1086560	sp\|Q9GE26\|RR7_AMBTC	95.588	68	3	0	32	99	78	145	4.84e-42	137

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1086560	A0A0F6NLW0	98.529	68	1	0	32	99	78	145	7.69e-41	141

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0405430	Msa1086560	0.804454	2.143225e-49	-8.615850e-47
Msa0405520	Msa1086560	0.812941	3.290057e-51	-8.615850e-47
Msa0983630	Msa1086560	0.817079	3.972392e-52	-8.615850e-47
Msa1086560	Msa1086590	0.832591	8.664223e-56	-8.615850e-47
Msa1086560	Msa1086730	0.845405	4.146355e-59	-8.615850e-47
Msa1086560	Msa1087040	0.822514	2.274378e-53	-8.615850e-47
Msa1086560	Msa1354490	0.850078	2.141804e-60	-8.615850e-47
Msa1086560	Msa1354550	0.804284	2.326061e-49	-8.615850e-47
Msa1086560	Msa1354620	0.835115	2.024615e-56	-8.615850e-47
Msa1086560	Msa1354690	0.806608	7.574102e-50	-8.615850e-47
Msa1086560	Msa1354750	0.842756	2.128799e-58	-8.615850e-47
Msa1086560	Msa1354810	0.809884	1.517286e-50	-8.615850e-47
Msa1086560	Msa1365960	0.812382	4.361439e-51	-8.615850e-47
Msa1086560	Msa1368230	0.806461	8.135883e-50	-8.615850e-47
Msa1086560	Msa1385410	0.806520	7.904452e-50	-8.615850e-47
Msa1086560	Msa1391100	0.866559	2.609320e-65	-8.615850e-47
Msa1086560	Msa1391230	0.835268	1.852742e-56	-8.615850e-47
Msa0268260	Msa1086560	0.831677	1.457621e-55	-8.615850e-47
Msa0269140	Msa1086560	0.837679	4.509225e-57	-8.615850e-47
Msa0591290	Msa1086560	0.800408	1.461841e-48	-8.615850e-47
Msa0908230	Msa1086560	0.835924	1.264094e-56	-8.615850e-47
Msa0908310	Msa1086560	0.801258	9.799922e-49	-8.615850e-47
Msa0908440	Msa1086560	0.845679	3.493524e-59	-8.615850e-47
Msa0908600	Msa1086560	0.839883	1.213623e-57	-8.615850e-47
Msa0908660	Msa1086560	0.838940	2.133272e-57	-8.615850e-47
Msa0908720	Msa1086560	0.801171	1.021074e-48	-8.615850e-47
Msa0924930	Msa1086560	0.826473	2.660640e-54	-8.615850e-47

PPI

Gene1	Gene2	Type

Query id	Subject id	identity %	alignment length	mismatches	q. start	q. end	s. start	s. end	e-value	bit score
Msa1086560	MtrunA17_CPg0492421	89.706	68	7	32	99	80	147	2.10e-39	128
Msa1086560	MtrunA17_Chr4g0016101	89.706	68	7	32	99	80	147	2.10e-39	128
Msa1086560	MtrunA17_Chr3g0090841	89.706	68	7	32	99	80	147	2.10e-39	128

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1086560	ATCG00900.1	94.118	68	4	0	32	99	78	145	2.96e-42	135
Msa1086560	ATCG01240.1	94.118	68	4	0	32	99	78	145	2.96e-42	135

Find 23 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
CTTGCCATTCGTTGGTTATT+AGG	0.268444	7_2:-87456013	Msa1086560:CDS
CATCAAGTTCCCGTTGAAAT+AGG	0.307921	7_2:-87456055	Msa1086560:CDS
AAAACGTCCAGGTCGAAATA+TGG	0.317789	7_2:-87455981	Msa1086560:CDS
CAAATTAAGTTCCGAATTAG+TGG	0.342047	7_2:-87455954	Msa1086560:CDS
TGGCGATGCCATACGCAAAA+AGG	0.366109	7_2:-87455915	Msa1086560:CDS
AAAAGCAAGCAACGCGTAAA+CGG	0.399650	7_2:-87456085	Msa1086560:CDS
TTTGGCAGCATCCACTAATT+CGG	0.404543	7_2:+87455943	None:intergenic
ACGTATTGCTTGACGTAAAA+CGG	0.405511	7_2:+87456131	None:intergenic
GCTTGACGTAAAACGGATAG+TGG	0.418362	7_2:+87456138	None:intergenic
TATGGCATCGCCATTCCCTT+TGG	0.436234	7_2:+87455925	None:intergenic
TGTGTGGATCCTATTTCAAC+GGG	0.470768	7_2:+87456046	None:intergenic
GAAGAGACTCATAGAATGGC+AGG	0.519948	7_2:-87455893	Msa1086560:CDS
GAAAAGCACTTGCCATTCGT+TGG	0.526859	7_2:-87456021	Msa1086560:CDS
GTGGATGCTGCCAAAGGGAA+TGG	0.532446	7_2:-87455935	Msa1086560:CDS
GGCGCATCCCGAAAACGTCC+AGG	0.540732	7_2:-87455992	Msa1086560:CDS
AAAGGAAGAGACTCATAGAA+TGG	0.548096	7_2:-87455897	Msa1086560:CDS
TTGTGTGGATCCTATTTCAA+CGG	0.548545	7_2:+87456045	None:intergenic
AATTAGTGGATGCTGCCAAA+GGG	0.575951	7_2:-87455940	Msa1086560:CDS
GAATTAGTGGATGCTGCCAA+AGG	0.584526	7_2:-87455941	Msa1086560:CDS
TTGAAAGCCATATTTCGACC+TGG	0.605724	7_2:+87455974	None:intergenic
TGCGCCTAATAACCAACGAA+TGG	0.620213	7_2:+87456009	None:intergenic
TTTACGTCAAGCAATACGTG+GGG	0.715577	7_2:-87456127	Msa1086560:CDS
GTTGAAATAGGATCCACACA+AGG	0.731975	7_2:-87456043	Msa1086560:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	TTTTTTCGTGTTTCATAATA+CGG	+	chr7_2:87455900-87455919	None:intergenic	20.0%
!	GAAACACGAAAAAAAAATCA+TGG	-	chr7_2:87455906-87455925	Msa1086560:CDS	25.0%
	TTATCTATCGAGCTATGAAA+AGG	-	chr7_2:87455938-87455957	Msa1086560:CDS	30.0%
	CAAATTAAGTTCCGAATTAG+TGG	-	chr7_2:87456169-87456188	Msa1086560:intron	30.0%
	ACGTATTGCTTGACGTAAAA+CGG	+	chr7_2:87455995-87456014	None:intergenic	35.0%
!	TTTTACGTCAAGCAATACGT+GGG	-	chr7_2:87455995-87456014	Msa1086560:CDS	35.0%
!!	CTTGCTTTTACTGCTATATC+GGG	+	chr7_2:87456027-87456046	None:intergenic	35.0%
!!	GCTTGCTTTTACTGCTATAT+CGG	+	chr7_2:87456028-87456047	None:intergenic	35.0%
	TTGTGTGGATCCTATTTCAA+CGG	+	chr7_2:87456081-87456100	None:intergenic	35.0%
	AAAGGAAGAGACTCATAGAA+TGG	-	chr7_2:87456226-87456245	Msa1086560:intron	35.0%
!	GTTTTACGTCAAGCAATACG+TGG	-	chr7_2:87455994-87456013	Msa1086560:CDS	40.0%
	TTTACGTCAAGCAATACGTG+GGG	-	chr7_2:87455996-87456015	Msa1086560:CDS	40.0%
	AAAAGCAAGCAACGCGTAAA+CGG	-	chr7_2:87456038-87456057	Msa1086560:CDS	40.0%
	CATCAAGTTCCCGTTGAAAT+AGG	-	chr7_2:87456068-87456087	Msa1086560:CDS	40.0%
	TGTGTGGATCCTATTTCAAC+GGG	+	chr7_2:87456080-87456099	None:intergenic	40.0%
	GTTGAAATAGGATCCACACA+AGG	-	chr7_2:87456080-87456099	Msa1086560:CDS	40.0%
!	CTTGCCATTCGTTGGTTATT+AGG	-	chr7_2:87456110-87456129	Msa1086560:CDS	40.0%
!	TATTTCGACCTGGACGTTTT+CGG	+	chr7_2:87456142-87456161	None:intergenic	40.0%
	AAAACGTCCAGGTCGAAATA+TGG	-	chr7_2:87456142-87456161	Msa1086560:CDS	40.0%
	TTGAAAGCCATATTTCGACC+TGG	+	chr7_2:87456152-87456171	None:intergenic	40.0%
	TTTGGCAGCATCCACTAATT+CGG	+	chr7_2:87456183-87456202	None:intergenic	40.0%
!	AATTAGTGGATGCTGCCAAA+GGG	-	chr7_2:87456183-87456202	Msa1086560:intron	40.0%
!	AGTCTCTTCCTTTTTGCGTA+TGG	+	chr7_2:87456219-87456238	None:intergenic	40.0%
	GCTTGACGTAAAACGGATAG+TGG	+	chr7_2:87455988-87456007	None:intergenic	45.0%
!!	GAAAAGCACTTGCCATTCGT+TGG	-	chr7_2:87456102-87456121	Msa1086560:CDS	45.0%
	TGCGCCTAATAACCAACGAA+TGG	+	chr7_2:87456117-87456136	None:intergenic	45.0%
!	ATTTCGACCTGGACGTTTTC+GGG	+	chr7_2:87456141-87456160	None:intergenic	45.0%
!	GAATTAGTGGATGCTGCCAA+AGG	-	chr7_2:87456182-87456201	Msa1086560:intron	45.0%
	GAAGAGACTCATAGAATGGC+AGG	-	chr7_2:87456230-87456249	Msa1086560:intron	45.0%
!	GGCAAGTGCTTTTCCTTGTG+TGG	+	chr7_2:87456096-87456115	None:intergenic	50.0%
	TATGGCATCGCCATTCCCTT+TGG	+	chr7_2:87456201-87456220	None:intergenic	50.0%
	TGGCGATGCCATACGCAAAA+AGG	-	chr7_2:87456208-87456227	Msa1086560:intron	50.0%
	GTGGATGCTGCCAAAGGGAA+TGG	-	chr7_2:87456188-87456207	Msa1086560:intron	55.0%
	GGCGCATCCCGAAAACGTCC+AGG	-	chr7_2:87456131-87456150	Msa1086560:CDS	65.0%

Chromosome	Type	Strat	End	Strand	Name
chr7_2	gene	87455886	87456259	87455886	ID=Msa1086560;Name=Msa1086560
chr7_2	mRNA	87455886	87456259	87455886	ID=Msa1086560-mRNA-1;Parent=Msa1086560;Name=Msa1086560-mRNA-1;_AED=0.45;_eAED=0.45;_QI=0\|0\|0\|1\|1\|1\|2\|0\|101
chr7_2	exon	87456254	87456259	87456254	ID=Msa1086560-mRNA-1:exon:23801;Parent=Msa1086560-mRNA-1
chr7_2	exon	87455886	87456185	87455886	ID=Msa1086560-mRNA-1:exon:23800;Parent=Msa1086560-mRNA-1
chr7_2	CDS	87456254	87456259	87456254	ID=Msa1086560-mRNA-1:cds;Parent=Msa1086560-mRNA-1
chr7_2	CDS	87455886	87456185	87455886	ID=Msa1086560-mRNA-1:cds;Parent=Msa1086560-mRNA-1

Gene Sequence	>Msa1086560 ATGTTGGATTCAACAAAAGACAGAAACAAATCCACTATCCGTTTTACGTCAAGCAATACGTGGGGTAACTCCCGATATAGCAGTAAAAGCAAGCAACGCGTAAACGGATCGACTCATCAAGTTCCCGTTGAAATAGGATCCACACAAGGAAAAGCACTTGCCATTCGTTGGTTATTAGGCGCATCCCGAAAACGTCCAGGTCGAAATATGGCTTTCAAATTAAGTTCCGAATTAGTGGATGCTGCCAAAGGGAATGGCGATGCCATACGCAAAAAGGAAGAGACTCATAGAATGGCAGGCAAATAG
Protein sequence	>Msa1086560 MLDSTKDRNKSTIRFTSSNTWGNSRYSSKSKQRVNGSTHQVPVEIGSTQGKALAIRWLLGASRKRPGRNMAFKLSSELVDAAKGNGDAIRKKEETHRMAGK*