AlfalfaGEDB | Msa0312860

M. sativa cultivar zhongmu-4 / Msa0312860

KEGG: K01431
GO: GO:0003674 GO:0003824 GO:0003837 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0006139 GO:0006206 GO:0006208 GO:0006212 GO:0006725 GO:0006807 GO:0007154 GO:0008150 GO:0008152 GO:0009056 GO:0009112 GO:0009605 GO:0009987 GO:0009991 GO:0016787 GO:0016810 GO:0016811 GO:0017144 GO:0019860 GO:0031667 GO:0031668 GO:0031669 GO:0034641 GO:0042737 GO:0043562 GO:0044237 GO:0044238 GO:0044248 GO:0044270 GO:0044281 GO:0044424 GO:0044444 GO:0044464 GO:0046113 GO:0046483 GO:0046700 GO:0050896 GO:0051716 GO:0055086 GO:0071496 GO:0071704 GO:0072527 GO:0072529 GO:1901360 GO:1901361 GO:1901564 GO:1901565 GO:1901575
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
Msa0312860	AES90587.2	86.842	76	10	0	5	80	26	101	9.71e-38	139

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0312860	sp\|Q8H183\|BUP1_ARATH	66.667	69	23	0	5	73	53	121	9.88e-24	95.1

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
Msa0312860	Msa0319100	0.874653	5.707178e-68	-8.615850e-47
Msa0312860	Msa0787700	0.807207	5.658100e-50	-8.615850e-47
Msa0312860	Msa1126700	0.824933	6.168887e-54	-8.615850e-47
Msa0312860	Msa1265150	0.890749	7.434837e-74	-8.615850e-47
Msa0312860	Msa1390830	0.949383	1.423413e-107	-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
Msa0312860	MtrunA17_Chr4g0049851	86.842	76	10	0	5	80	59	134	1.62e-41	139
Msa0312860	MtrunA17_Chr4g0049861	69.737	76	23	0	5	80	57	132	7.39e-33	116

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0312860	AT5G64370.1	66.667	69	23	0	5	73	53	121	1.00e-24	95.1

Find 33 sgRNAs with CRISPR-Local

Find 47 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TTACAGCCTCATGTGGATTT+TGG	0.130792	2_4:+8061419	None:intergenic
ATGCTGATAAAGAAGTATTA+AGG	0.197682	2_4:+8061834	Msa0312860:CDS
GAGAGAGCTGTGGCGGATTC+CGG	0.340791	2_4:-8061548	None:intergenic
TCGATAAAGTGCGCAATTGT+TGG	0.373558	2_4:-8061905	None:intergenic
TGCTGATAAAGAAGTATTAA+GGG	0.432567	2_4:+8061835	Msa0312860:CDS
CGATAAAGTGCGCAATTGTT+GGG	0.445360	2_4:-8061904	None:intergenic
TAATGAAACAATTGCTCTAC+CGG	0.451479	2_4:+8061529	Msa0312860:CDS
TTAACAACAGAGTTCTGAAT+GGG	0.497423	2_4:-8061959	None:intergenic
TTTGGGTTGGCGATATCTGG+AGG	0.509662	2_4:+8061437	Msa0312860:five_prime_UTR
TGATGCTAGACCCTTCATAC+AGG	0.519583	2_4:-8062000	None:intergenic
GCTAGACCCTTCATACAGGC+TGG	0.534194	2_4:-8061996	None:intergenic
TTGGGTTGGCGATATCTGGA+GGG	0.536736	2_4:+8061438	Msa0312860:five_prime_UTR
GTATGAAGGGTCTAGCATCA+TGG	0.543228	2_4:+8062003	Msa0312860:three_prime_UTR
ATCCGCCACAGCTCTCTCCA+TGG	0.543560	2_4:+8061553	Msa0312860:CDS
TATGAAGGGTCTAGCATCAT+GGG	0.551384	2_4:+8062004	Msa0312860:three_prime_UTR
AAGGGAACCTCGAGTTGTGA+GGG	0.552694	2_4:+8061853	Msa0312860:CDS
ATGTCTTCCAGCCTGTATGA+AGG	0.554066	2_4:+8061989	Msa0312860:three_prime_UTR
GAACCTCGAGTTGTGAGGGT+TGG	0.560787	2_4:+8061857	Msa0312860:CDS
GTTAACAACAGAGTTCTGAA+TGG	0.561492	2_4:-8061960	None:intergenic
TGTCTTCCAGCCTGTATGAA+GGG	0.565467	2_4:+8061990	Msa0312860:three_prime_UTR
GTTCAATTTACAGCCTCATG+TGG	0.577586	2_4:+8061412	None:intergenic
GAGGTCAAAACCATGTTCCA+TGG	0.583571	2_4:-8061570	None:intergenic
TTCCATGGAGAGAGCTGTGG+CGG	0.594000	2_4:-8061555	None:intergenic
ACAGCTCTCTCCATGGAACA+TGG	0.598176	2_4:+8061560	Msa0312860:CDS
TAAGGGAACCTCGAGTTGTG+AGG	0.598332	2_4:+8061852	Msa0312860:CDS
AAAGTGCGCAATTGTTGGGA+GGG	0.605427	2_4:-8061900	None:intergenic
AAACCAACCCTCACAACTCG+AGG	0.620062	2_4:-8061860	None:intergenic
CTACAATATAATCATAATCG+CGG	0.620252	2_4:-8061477	None:intergenic
TAAAGTGCGCAATTGTTGGG+AGG	0.630263	2_4:-8061901	None:intergenic
TGGGTTGGCGATATCTGGAG+GGG	0.654158	2_4:+8061439	Msa0312860:five_prime_UTR
ATGTTCCATGGAGAGAGCTG+TGG	0.669038	2_4:-8061558	None:intergenic
GCCAACCCAAAATCCACATG+AGG	0.676621	2_4:-8061425	None:intergenic
GAAGGGTCTAGCATCATGGG+AGG	0.706115	2_4:+8062007	Msa0312860:three_prime_UTR

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	ATTTTAAGTTTATTTATTTC+AGG	+	chr2_4:8061799-8061818	Msa0312860:intron	10.0%
!!	TTTATCTTGTGATATCATTA+GGG	-	chr2_4:8061621-8061640	None:intergenic	20.0%
!!!	TTTTATCTTGTGATATCATT+AGG	-	chr2_4:8061622-8061641	None:intergenic	20.0%
!!	TAATGATATCACAAGATAAA+AGG	+	chr2_4:8061621-8061640	Msa0312860:intron	20.0%
!!!	GTTATTTAAGCTATAACTTT+TGG	+	chr2_4:8061765-8061784	Msa0312860:intron	20.0%
!	CTACAATATAATCATAATCG+CGG	-	chr2_4:8061480-8061499	None:intergenic	25.0%
!!!	ATGCTGATAAAGAAGTATTA+AGG	+	chr2_4:8061834-8061853	Msa0312860:CDS	25.0%
!!!	TGCTGATAAAGAAGTATTAA+GGG	+	chr2_4:8061835-8061854	Msa0312860:CDS	25.0%
	TAATGAAACAATTGCTCTAC+CGG	+	chr2_4:8061529-8061548	Msa0312860:CDS	30.0%
!!	TTAACAACAGAGTTCTGAAT+GGG	-	chr2_4:8061962-8061981	None:intergenic	30.0%
	TGAAGTGTATTCATACCTTG+AGG	-	chr2_4:8061592-8061611	None:intergenic	35.0%
!	TCACAAGATAAAAGGTATGC+TGG	+	chr2_4:8061629-8061648	Msa0312860:intron	35.0%
	ACAGATAAGTTTCAATGCTG+AGG	-	chr2_4:8061747-8061766	None:intergenic	35.0%
	GCACTTTATCGAGCAAAAAA+AGG	+	chr2_4:8061916-8061935	Msa0312860:CDS	35.0%
!!	GTTAACAACAGAGTTCTGAA+TGG	-	chr2_4:8061963-8061982	None:intergenic	35.0%
	GCATACACTCCATCAGTTTA+AGG	-	chr2_4:8061689-8061708	None:intergenic	40.0%
	CGATAAAGTGCGCAATTGTT+GGG	-	chr2_4:8061907-8061926	None:intergenic	40.0%
	TCGATAAAGTGCGCAATTGT+TGG	-	chr2_4:8061908-8061927	None:intergenic	40.0%
	TATGAAGGGTCTAGCATCAT+GGG	+	chr2_4:8062004-8062023	Msa0312860:three_prime_UTR	40.0%
!!!	GATTTTGGGTTGGCGATATC+TGG	+	chr2_4:8061434-8061453	Msa0312860:five_prime_UTR	45.0%
	GAGGTCAAAACCATGTTCCA+TGG	-	chr2_4:8061573-8061592	None:intergenic	45.0%
!!!	GGAACATGGTTTTGACCTCA+AGG	+	chr2_4:8061574-8061593	Msa0312860:CDS	45.0%
!!	GCTGTGTTGCTTCCTTAAAC+TGG	+	chr2_4:8061661-8061680	Msa0312860:intron	45.0%
!	CAGTTTAAGGCGCCAGTTTA+AGG	-	chr2_4:8061676-8061695	None:intergenic	45.0%
	AAACTGGCGCCTTAAACTGA+TGG	+	chr2_4:8061677-8061696	Msa0312860:intron	45.0%
	TGCTCGATTTCTCGACAACA+CGG	+	chr2_4:8061706-8061725	Msa0312860:intron	45.0%
	AAAGTGCGCAATTGTTGGGA+GGG	-	chr2_4:8061903-8061922	None:intergenic	45.0%
	TAAAGTGCGCAATTGTTGGG+AGG	-	chr2_4:8061904-8061923	None:intergenic	45.0%
	ATGTCTTCCAGCCTGTATGA+AGG	+	chr2_4:8061989-8062008	Msa0312860:three_prime_UTR	45.0%
	TGTCTTCCAGCCTGTATGAA+GGG	+	chr2_4:8061990-8062009	Msa0312860:three_prime_UTR	45.0%
	TGATGCTAGACCCTTCATAC+AGG	-	chr2_4:8062003-8062022	None:intergenic	45.0%
	GTATGAAGGGTCTAGCATCA+TGG	+	chr2_4:8062003-8062022	Msa0312860:three_prime_UTR	45.0%
!!	GCCTCATGTGGATTTTGGGT+TGG	+	chr2_4:8061424-8061443	Msa0312860:five_prime_UTR	50.0%
	GCCAACCCAAAATCCACATG+AGG	-	chr2_4:8061428-8061447	None:intergenic	50.0%
!!	TTTGGGTTGGCGATATCTGG+AGG	+	chr2_4:8061437-8061456	Msa0312860:five_prime_UTR	50.0%
!!	TTGGGTTGGCGATATCTGGA+GGG	+	chr2_4:8061438-8061457	Msa0312860:five_prime_UTR	50.0%
	ATGTTCCATGGAGAGAGCTG+TGG	-	chr2_4:8061561-8061580	None:intergenic	50.0%
	ACAGCTCTCTCCATGGAACA+TGG	+	chr2_4:8061560-8061579	Msa0312860:CDS	50.0%
!	TAAGGGAACCTCGAGTTGTG+AGG	+	chr2_4:8061852-8061871	Msa0312860:CDS	50.0%
!	AAGGGAACCTCGAGTTGTGA+GGG	+	chr2_4:8061853-8061872	Msa0312860:CDS	50.0%
	AAACCAACCCTCACAACTCG+AGG	-	chr2_4:8061863-8061882	None:intergenic	50.0%
!!	TGGGTTGGCGATATCTGGAG+GGG	+	chr2_4:8061439-8061458	Msa0312860:five_prime_UTR	55.0%
	TTCCATGGAGAGAGCTGTGG+CGG	-	chr2_4:8061558-8061577	None:intergenic	55.0%
!	GAACCTCGAGTTGTGAGGGT+TGG	+	chr2_4:8061857-8061876	Msa0312860:CDS	55.0%
	GCTAGACCCTTCATACAGGC+TGG	-	chr2_4:8061999-8062018	None:intergenic	55.0%
!!	GAGAGAGCTGTGGCGGATTC+CGG	-	chr2_4:8061551-8061570	None:intergenic	60.0%
	ATCCGCCACAGCTCTCTCCA+TGG	+	chr2_4:8061553-8061572	Msa0312860:CDS	60.0%

Chromosome	Type	Strat	End	Strand	Name
chr2_4	gene	8061423	8062029	8061423	ID=Msa0312860;Name=Msa0312860
chr2_4	mRNA	8061423	8062029	8061423	ID=Msa0312860-mRNA-1;Parent=Msa0312860;Name=Msa0312860-mRNA-1;_AED=0.00;_eAED=0.00;_QI=98\|1\|1\|1\|1\|1\|2\|41\|80
chr2_4	exon	8061423	8061595	8061423	ID=Msa0312860-mRNA-1:exon:3119;Parent=Msa0312860-mRNA-1
chr2_4	exon	8061821	8062029	8061821	ID=Msa0312860-mRNA-1:exon:3120;Parent=Msa0312860-mRNA-1
chr2_4	five_prime_UTR	8061423	8061520	8061423	ID=Msa0312860-mRNA-1:five_prime_utr;Parent=Msa0312860-mRNA-1
chr2_4	CDS	8061521	8061595	8061521	ID=Msa0312860-mRNA-1:cds;Parent=Msa0312860-mRNA-1
chr2_4	CDS	8061821	8061988	8061821	ID=Msa0312860-mRNA-1:cds;Parent=Msa0312860-mRNA-1
chr2_4	three_prime_UTR	8061989	8062029	8061989	ID=Msa0312860-mRNA-1:three_prime_utr;Parent=Msa0312860-mRNA-1

Gene Sequence	>Msa0312860 ATGTTGCTTAATGAAACAATTGCTCTACCGGAATCCGCCACAGCTCTCTCCATGGAACATGGTTTTGACCTCAAGGATTTCTGCTTTCATGCTGATAAAGAAGTATTAAGGGAACCTCGAGTTGTGAGGGTTGGTTTGATTCAGAACTCTATTGCCCTCCCAACAATTGCGCACTTTATCGAGCAAAAAAAGGCTATCTTTGAGAAAGTAAAGCCCATTCAGAACTCTGTTGTTAACTCATGA
Protein sequence	>Msa0312860 MLLNETIALPESATALSMEHGFDLKDFCFHADKEVLREPRVVRVGLIQNSIALPTIAHFIEQKKAIFEKVKPIQNSVVNS*