AlfalfaGEDB | Msa1084560

M. sativa cultivar zhongmu-4 / Msa1084560

KEGG: K02983
GO: GO:0003674 GO:0003735 GO:0005198 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0005829 GO:0005840 GO:0015935 GO:0022626 GO:0022627 GO:0031974 GO:0031981 GO:0032991 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044391 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044445 GO:0044446 GO:0044464 GO:0070013 GO:1990904
PFAM: PF04758.17

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1084560	PIA64528.1	98.387	62	1	0	1	62	42	103	2.12e-35	125

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1084560	sp\|P49689\|RS30_ARATH	95.161	62	3	0	1	62	1	62	6.41e-29	100

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa1084560	A0A6A5LMU4	96.774	62	2	0	1	62	351	412	8.45e-36	133

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0749100	Msa1084560	0.897213	1.747989e-76	-8.615850e-47
Msa0796290	Msa1084560	0.844642	6.661405e-59	-8.615850e-47
Msa0833690	Msa1084560	0.925274	2.290907e-90	-8.615850e-47
Msa1084560	Msa1132630	0.923580	2.202122e-89	-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
Msa1084560	MtrunA17_Chr4g0056141	100.000	62	0	0	1	62	1	62	2.23e-39	123
Msa1084560	MtrunA17_Chr5g0399231	100.000	62	0	0	1	62	1	62	2.23e-39	123

Query id	Subject id	identity %	alignment length	mismatches	q. start	q. end	s. start	s. end	e-value	bit score
Msa1084560	AT2G19750.1	95.161	62	3	1	62	1	62	6.52e-30	100
Msa1084560	AT5G56670.1	95.161	62	3	1	62	1	62	6.52e-30	100
Msa1084560	AT4G29390.1	95.161	62	3	1	62	1	62	6.52e-30	100

Find 39 sgRNAs with CRISPR-Local

Find 110 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TAACTAAAGCCTAATTTCTT+AGG	0.142531	7_2:+84952025	None:intergenic
TTGTATTGTGGACTAGGGTT+AGG	0.265232	7_2:+84952755	None:intergenic
GTCTTATTCCCTAAGAAATT+AGG	0.272965	7_2:-84952034	Msa1084560:three_prime_UTR
GAGCTTTAACGAAAATAGTT+TGG	0.335033	7_2:+84952722	None:intergenic
GCTTTGCTACCTTTGGTGTT+TGG	0.335294	7_2:+84952461	None:intergenic
TGCTATTTGTATTGTGGACT+AGG	0.346479	7_2:+84952749	None:intergenic
TTTCGTTAAAGCTCCGATTC+TGG	0.348037	7_2:-84952713	Msa1084560:five_prime_UTR
TTGTCTTGCTTTGCTACCTT+TGG	0.348505	7_2:+84952454	None:intergenic
TGTTTGGCCTCTAACCTTAC+CGG	0.358772	7_2:+84952477	None:intergenic
TCTTACTTCTCAGATGAGTT+TGG	0.367396	7_2:+84952240	None:intergenic
TGTATTGTGGACTAGGGTTA+GGG	0.371742	7_2:+84952756	None:intergenic
GTTATTGTAGTTGTTGGATT+CGG	0.405984	7_2:-84952276	Msa1084560:intron
GCCTCTAACCTTACCGGCAC+GGG	0.419662	7_2:+84952483	None:intergenic
AACTAAAGCCTAATTTCTTA+GGG	0.428130	7_2:+84952026	None:intergenic
ATCGTTGGCCCGTGCCGGTA+AGG	0.433030	7_2:-84952491	Msa1084560:CDS
TTAACATATTTCAAAAGCTA+AGG	0.439992	7_2:+84952190	None:intergenic
GCCCGTGCCGGTAAGGTTAG+AGG	0.445776	7_2:-84952484	Msa1084560:CDS
ACGCTTGTGAGCACGGCCAC+GGG	0.451262	7_2:+84952420	None:intergenic
CACGGATCGTTGGCCCGTGC+CGG	0.457604	7_2:-84952496	Msa1084560:CDS
TACGCTTGTGAGCACGGCCA+CGG	0.461093	7_2:+84952419	None:intergenic
GCTATTTGTATTGTGGACTA+GGG	0.472642	7_2:+84952750	None:intergenic
CTCTCTCTCTTTAGCTTCTG+CGG	0.475217	7_2:+84952678	None:intergenic
TAACATATTTCAAAAGCTAA+GGG	0.489070	7_2:+84952191	None:intergenic
GCTTGAGGCAAAACCAGAAT+CGG	0.497884	7_2:+84952700	None:intergenic
GGCCTCTAACCTTACCGGCA+CGG	0.499402	7_2:+84952482	None:intergenic
TCTTTAGCTTCTGCGGCTTG+AGG	0.529758	7_2:+84952685	None:intergenic
TTATATCTGCTGAATAATTG+TGG	0.561819	7_2:-84951984	Msa1084560:three_prime_UTR
ACTGCATACGCTTGTGAGCA+CGG	0.575185	7_2:+84952413	None:intergenic
CGCTTGTGAGCACGGCCACG+GGG	0.579942	7_2:+84952421	None:intergenic
AGGAAAGGTTCACGGATCGT+TGG	0.583409	7_2:-84952506	Msa1084560:CDS
TACCGGCAGTGACGAATCTG+CGG	0.585546	7_2:+84952386	None:intergenic
AACCGCAGATTCGTCACTGC+CGG	0.593013	7_2:-84952388	Msa1084560:intron
GTTGGATTCGGTAAGAAGAG+AGG	0.609691	7_2:-84952264	Msa1084560:CDS
TAATTGTGGTGCGAATTGTA+TGG	0.622953	7_2:-84951970	Msa1084560:three_prime_UTR
AACATATTTCAAAAGCTAAG+GGG	0.626402	7_2:+84952192	None:intergenic
TGCGAATTGTATGGTAGAAG+TGG	0.641711	7_2:-84951961	Msa1084560:three_prime_UTR
GGTTAGAGGCCAAACACCAA+AGG	0.645954	7_2:-84952470	Msa1084560:CDS
TCATCTGAGAAGTAAGATCG+TGG	0.647924	7_2:-84952234	Msa1084560:exon
GACAAGAAGAAGCAGCCCCG+TGG	0.665991	7_2:-84952436	Msa1084560:CDS

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!	TGAATAAATCTAAAAAATTA+GGG	+	chr7_2:84952368-84952387	None:intergenic	10.0%
!!	ATGAATAAATCTAAAAAATT+AGG	+	chr7_2:84952369-84952388	None:intergenic	10.0%
!!	TGAATAAATCTAAAAAATTA+GGG	+	chr7_2:84952368-84952387	None:intergenic	10.0%
!!	ATGAATAAATCTAAAAAATT+AGG	+	chr7_2:84952369-84952388	None:intergenic	10.0%
!!!	TTTTTTTTTTCTTTCAATCA+TGG	-	chr7_2:84952093-84952112	Msa1084560:three_prime_UTR	15.0%
!!!	TTTTTTTTTCTTTCAATCAT+GGG	-	chr7_2:84952094-84952113	Msa1084560:three_prime_UTR	15.0%
!!	AAATCCCAAAAAAAAAAAAA+AGG	+	chr7_2:84952580-84952599	None:intergenic	15.0%
!!!	TTTTTTTTTTCTTTCAATCA+TGG	-	chr7_2:84952093-84952112	Msa1084560:three_prime_UTR	15.0%
!!!	TTTTTTTTTCTTTCAATCAT+GGG	-	chr7_2:84952094-84952113	Msa1084560:three_prime_UTR	15.0%
!!	AAATCCCAAAAAAAAAAAAA+AGG	+	chr7_2:84952580-84952599	None:intergenic	15.0%
!!	TAACATATTTCAAAAGCTAA+GGG	+	chr7_2:84952529-84952548	None:intergenic	20.0%
!!	TTAACATATTTCAAAAGCTA+AGG	+	chr7_2:84952530-84952549	None:intergenic	20.0%
!!!	TTCCTCCTTTTTTTTTTTTT+TGG	-	chr7_2:84952572-84952591	Msa1084560:intron	20.0%
!!!	TCCTCCTTTTTTTTTTTTTT+GGG	-	chr7_2:84952573-84952592	Msa1084560:intron	20.0%
!!	ATATTTAACTAGCACAAAAA+AGG	+	chr7_2:84952627-84952646	None:intergenic	20.0%
!!	TAACATATTTCAAAAGCTAA+GGG	+	chr7_2:84952529-84952548	None:intergenic	20.0%
!!	TTAACATATTTCAAAAGCTA+AGG	+	chr7_2:84952530-84952549	None:intergenic	20.0%
!!!	TTCCTCCTTTTTTTTTTTTT+TGG	-	chr7_2:84952572-84952591	Msa1084560:intron	20.0%
!!!	TCCTCCTTTTTTTTTTTTTT+GGG	-	chr7_2:84952573-84952592	Msa1084560:intron	20.0%
!!	ATATTTAACTAGCACAAAAA+AGG	+	chr7_2:84952627-84952646	None:intergenic	20.0%
!!!	ATTCTTGTTATTGTAGTTGT+TGG	-	chr7_2:84952435-84952454	Msa1084560:CDS	25.0%
!	AACATATTTCAAAAGCTAAG+GGG	+	chr7_2:84952528-84952547	None:intergenic	25.0%
!	TCCCAAAAAAAAAAAAAAGG+AGG	+	chr7_2:84952577-84952596	None:intergenic	25.0%
!	AACTAAAGCCTAATTTCTTA+GGG	+	chr7_2:84952694-84952713	None:intergenic	25.0%
!	TAACTAAAGCCTAATTTCTT+AGG	+	chr7_2:84952695-84952714	None:intergenic	25.0%
!	TTATATCTGCTGAATAATTG+TGG	-	chr7_2:84952733-84952752	Msa1084560:five_prime_UTR	25.0%
!!!	ATTCTTGTTATTGTAGTTGT+TGG	-	chr7_2:84952435-84952454	Msa1084560:CDS	25.0%
!	AACATATTTCAAAAGCTAAG+GGG	+	chr7_2:84952528-84952547	None:intergenic	25.0%
!	TCCCAAAAAAAAAAAAAAGG+AGG	+	chr7_2:84952577-84952596	None:intergenic	25.0%
!	AACTAAAGCCTAATTTCTTA+GGG	+	chr7_2:84952694-84952713	None:intergenic	25.0%
!	TAACTAAAGCCTAATTTCTT+AGG	+	chr7_2:84952695-84952714	None:intergenic	25.0%
!	TTATATCTGCTGAATAATTG+TGG	-	chr7_2:84952733-84952752	Msa1084560:five_prime_UTR	25.0%
!!!	GGTTTTTGCTATTTGTATTG+TGG	+	chr7_2:84951977-84951996	None:intergenic	30.0%
!	GAGCTTTAACGAAAATAGTT+TGG	+	chr7_2:84951998-84952017	None:intergenic	30.0%
!!	AACAATGAAATCGATTTTGC+AGG	-	chr7_2:84952191-84952210	Msa1084560:three_prime_UTR	30.0%
	TCTAAAAAATTAGGGTTTCG+AGG	+	chr7_2:84952360-84952379	None:intergenic	30.0%
	GTTATTGTAGTTGTTGGATT+CGG	-	chr7_2:84952441-84952460	Msa1084560:CDS	30.0%
!	GTCTTATTCCCTAAGAAATT+AGG	-	chr7_2:84952683-84952702	Msa1084560:five_prime_UTR	30.0%
!!!	GGTTTTTGCTATTTGTATTG+TGG	+	chr7_2:84951977-84951996	None:intergenic	30.0%
!	GAGCTTTAACGAAAATAGTT+TGG	+	chr7_2:84951998-84952017	None:intergenic	30.0%
!!	AACAATGAAATCGATTTTGC+AGG	-	chr7_2:84952191-84952210	Msa1084560:three_prime_UTR	30.0%
	TCTAAAAAATTAGGGTTTCG+AGG	+	chr7_2:84952360-84952379	None:intergenic	30.0%
	GTTATTGTAGTTGTTGGATT+CGG	-	chr7_2:84952441-84952460	Msa1084560:CDS	30.0%
!	GTCTTATTCCCTAAGAAATT+AGG	-	chr7_2:84952683-84952702	Msa1084560:five_prime_UTR	30.0%
!	GCTATTTGTATTGTGGACTA+GGG	+	chr7_2:84951970-84951989	None:intergenic	35.0%
!	TGCTATTTGTATTGTGGACT+AGG	+	chr7_2:84951971-84951990	None:intergenic	35.0%
!!	TGAAATCGATTTTGCAGGAA+AGG	-	chr7_2:84952196-84952215	Msa1084560:three_prime_UTR	35.0%
	TCTTACTTCTCAGATGAGTT+TGG	+	chr7_2:84952480-84952499	None:intergenic	35.0%
	TAATTGTGGTGCGAATTGTA+TGG	-	chr7_2:84952747-84952766	Msa1084560:five_prime_UTR	35.0%
!	GCTATTTGTATTGTGGACTA+GGG	+	chr7_2:84951970-84951989	None:intergenic	35.0%
!	TGCTATTTGTATTGTGGACT+AGG	+	chr7_2:84951971-84951990	None:intergenic	35.0%
!!	TGAAATCGATTTTGCAGGAA+AGG	-	chr7_2:84952196-84952215	Msa1084560:three_prime_UTR	35.0%
	TCTTACTTCTCAGATGAGTT+TGG	+	chr7_2:84952480-84952499	None:intergenic	35.0%
	TAATTGTGGTGCGAATTGTA+TGG	-	chr7_2:84952747-84952766	Msa1084560:five_prime_UTR	35.0%
!!	TGTATTGTGGACTAGGGTTA+GGG	+	chr7_2:84951964-84951983	None:intergenic	40.0%
!!	TTGTATTGTGGACTAGGGTT+AGG	+	chr7_2:84951965-84951984	None:intergenic	40.0%
	TTTCGTTAAAGCTCCGATTC+TGG	-	chr7_2:84952004-84952023	Msa1084560:three_prime_UTR	40.0%
!	GATTTTGCAGGAAAGGTTCA+CGG	-	chr7_2:84952203-84952222	Msa1084560:three_prime_UTR	40.0%
	TTGTCTTGCTTTGCTACCTT+TGG	+	chr7_2:84952266-84952285	None:intergenic	40.0%
!	TTAGGGTTTCGAGGTATTAC+CGG	+	chr7_2:84952351-84952370	None:intergenic	40.0%
	TCATCTGAGAAGTAAGATCG+TGG	-	chr7_2:84952483-84952502	Msa1084560:CDS	40.0%
	TGCGAATTGTATGGTAGAAG+TGG	-	chr7_2:84952756-84952775	Msa1084560:five_prime_UTR	40.0%
!!	TGTATTGTGGACTAGGGTTA+GGG	+	chr7_2:84951964-84951983	None:intergenic	40.0%
!!	TTGTATTGTGGACTAGGGTT+AGG	+	chr7_2:84951965-84951984	None:intergenic	40.0%
	TTTCGTTAAAGCTCCGATTC+TGG	-	chr7_2:84952004-84952023	Msa1084560:three_prime_UTR	40.0%
!	GATTTTGCAGGAAAGGTTCA+CGG	-	chr7_2:84952203-84952222	Msa1084560:three_prime_UTR	40.0%
	TTGTCTTGCTTTGCTACCTT+TGG	+	chr7_2:84952266-84952285	None:intergenic	40.0%
!	TTAGGGTTTCGAGGTATTAC+CGG	+	chr7_2:84952351-84952370	None:intergenic	40.0%
	TCATCTGAGAAGTAAGATCG+TGG	-	chr7_2:84952483-84952502	Msa1084560:CDS	40.0%
	TGCGAATTGTATGGTAGAAG+TGG	-	chr7_2:84952756-84952775	Msa1084560:five_prime_UTR	40.0%
	GCTTGAGGCAAAACCAGAAT+CGG	+	chr7_2:84952020-84952039	None:intergenic	45.0%
!	CTCTCTCTCTTTAGCTTCTG+CGG	+	chr7_2:84952042-84952061	None:intergenic	45.0%
	TGTTTGGCCTCTAACCTTAC+CGG	+	chr7_2:84952243-84952262	None:intergenic	45.0%
!!	GCTTTGCTACCTTTGGTGTT+TGG	+	chr7_2:84952259-84952278	None:intergenic	45.0%
!	GTTGGATTCGGTAAGAAGAG+AGG	-	chr7_2:84952453-84952472	Msa1084560:CDS	45.0%
	GCTTGAGGCAAAACCAGAAT+CGG	+	chr7_2:84952020-84952039	None:intergenic	45.0%
!	CTCTCTCTCTTTAGCTTCTG+CGG	+	chr7_2:84952042-84952061	None:intergenic	45.0%
	TGTTTGGCCTCTAACCTTAC+CGG	+	chr7_2:84952243-84952262	None:intergenic	45.0%
!!	GCTTTGCTACCTTTGGTGTT+TGG	+	chr7_2:84952259-84952278	None:intergenic	45.0%
!	GTTGGATTCGGTAAGAAGAG+AGG	-	chr7_2:84952453-84952472	Msa1084560:CDS	45.0%
!	TCTTTAGCTTCTGCGGCTTG+AGG	+	chr7_2:84952035-84952054	None:intergenic	50.0%
	AGGAAAGGTTCACGGATCGT+TGG	-	chr7_2:84952211-84952230	Msa1084560:three_prime_UTR	50.0%
	GGTTAGAGGCCAAACACCAA+AGG	-	chr7_2:84952247-84952266	Msa1084560:CDS	50.0%
	ACTGCATACGCTTGTGAGCA+CGG	+	chr7_2:84952307-84952326	None:intergenic	50.0%
!	TCTTTAGCTTCTGCGGCTTG+AGG	+	chr7_2:84952035-84952054	None:intergenic	50.0%
	AGGAAAGGTTCACGGATCGT+TGG	-	chr7_2:84952211-84952230	Msa1084560:three_prime_UTR	50.0%
	GGTTAGAGGCCAAACACCAA+AGG	-	chr7_2:84952247-84952266	Msa1084560:CDS	50.0%
	ACTGCATACGCTTGTGAGCA+CGG	+	chr7_2:84952307-84952326	None:intergenic	50.0%
	AACCGCAGATTCGTCACTGC+CGG	-	chr7_2:84952329-84952348	Msa1084560:intron	55.0%
	TACCGGCAGTGACGAATCTG+CGG	+	chr7_2:84952334-84952353	None:intergenic	55.0%
	AACCGCAGATTCGTCACTGC+CGG	-	chr7_2:84952329-84952348	Msa1084560:intron	55.0%
	TACCGGCAGTGACGAATCTG+CGG	+	chr7_2:84952334-84952353	None:intergenic	55.0%
	GCCTCTAACCTTACCGGCAC+GGG	+	chr7_2:84952237-84952256	None:intergenic	60.0%
	GGCCTCTAACCTTACCGGCA+CGG	+	chr7_2:84952238-84952257	None:intergenic	60.0%
	GACAAGAAGAAGCAGCCCCG+TGG	-	chr7_2:84952281-84952300	Msa1084560:intron	60.0%
	TACGCTTGTGAGCACGGCCA+CGG	+	chr7_2:84952301-84952320	None:intergenic	60.0%
	GCCTCTAACCTTACCGGCAC+GGG	+	chr7_2:84952237-84952256	None:intergenic	60.0%
	GGCCTCTAACCTTACCGGCA+CGG	+	chr7_2:84952238-84952257	None:intergenic	60.0%
	GACAAGAAGAAGCAGCCCCG+TGG	-	chr7_2:84952281-84952300	Msa1084560:intron	60.0%
	TACGCTTGTGAGCACGGCCA+CGG	+	chr7_2:84952301-84952320	None:intergenic	60.0%
!	ATCGTTGGCCCGTGCCGGTA+AGG	-	chr7_2:84952226-84952245	Msa1084560:exon	65.0%
!	GCCCGTGCCGGTAAGGTTAG+AGG	-	chr7_2:84952233-84952252	Msa1084560:exon	65.0%
	ACGCTTGTGAGCACGGCCAC+GGG	+	chr7_2:84952300-84952319	None:intergenic	65.0%
!	ATCGTTGGCCCGTGCCGGTA+AGG	-	chr7_2:84952226-84952245	Msa1084560:exon	65.0%
!	GCCCGTGCCGGTAAGGTTAG+AGG	-	chr7_2:84952233-84952252	Msa1084560:exon	65.0%
	ACGCTTGTGAGCACGGCCAC+GGG	+	chr7_2:84952300-84952319	None:intergenic	65.0%
	CACGGATCGTTGGCCCGTGC+CGG	-	chr7_2:84952221-84952240	Msa1084560:three_prime_UTR	70.0%
	CGCTTGTGAGCACGGCCACG+GGG	+	chr7_2:84952299-84952318	None:intergenic	70.0%
	CACGGATCGTTGGCCCGTGC+CGG	-	chr7_2:84952221-84952240	Msa1084560:three_prime_UTR	70.0%
	CGCTTGTGAGCACGGCCACG+GGG	+	chr7_2:84952299-84952318	None:intergenic	70.0%

Chromosome	Type	Strat	End	Strand	Name
chr7_2	gene	84951955	84952784	84951955	ID=Msa1084560;Name=Msa1084560
chr7_2	mRNA	84951955	84952784	84951955	ID=Msa1084560-mRNA-1;Parent=Msa1084560;Name=Msa1084560-mRNA-1;_AED=0.01;_eAED=0.01;_QI=157\|1\|1\|1\|1\|1\|3\|287\|62
chr7_2	exon	84951955	84952288	84951955	ID=Msa1084560-mRNA-1:exon:22861;Parent=Msa1084560-mRNA-1
chr7_2	exon	84952389	84952526	84952389	ID=Msa1084560-mRNA-1:exon:22860;Parent=Msa1084560-mRNA-1
chr7_2	exon	84952624	84952784	84952624	ID=Msa1084560-mRNA-1:exon:22859;Parent=Msa1084560-mRNA-1
chr7_2	five_prime_UTR	84952628	84952784	84952628	ID=Msa1084560-mRNA-1:five_prime_utr;Parent=Msa1084560-mRNA-1
chr7_2	CDS	84952624	84952627	84952624	ID=Msa1084560-mRNA-1:cds;Parent=Msa1084560-mRNA-1
chr7_2	CDS	84952389	84952526	84952389	ID=Msa1084560-mRNA-1:cds;Parent=Msa1084560-mRNA-1
chr7_2	CDS	84952242	84952288	84952242	ID=Msa1084560-mRNA-1:cds;Parent=Msa1084560-mRNA-1
chr7_2	three_prime_UTR	84951955	84952241	84951955	ID=Msa1084560-mRNA-1:three_prime_utr;Parent=Msa1084560-mRNA-1

Gene Sequence	>Msa1084560 ATGGGAAAGGTTCACGGATCGTTGGCCCGTGCCGGTAAGGTTAGAGGCCAAACACCAAAGGTAGCAAAGCAAGACAAGAAGAAGCAGCCCCGTGGCCGTGCTCACAAGCGTATGCAGTACAACCGCAGATTCGTCACTGCCGTTGTTGGATTCGGTAAGAAGAGAGGACCAAACTCATCTGAGAAGTAA
Protein sequence	>Msa1084560 MGKVHGSLARAGKVRGQTPKVAKQDKKKQPRGRAHKRMQYNRRFVTAVVGFGKKRGPNSSEK*