AlfalfaGEDB | Msa0789040

M. sativa cultivar zhongmu-4 / Msa0789040

KEGG: -
GO: GO:0000003 GO:0001101 GO:0002237 GO:0002376 GO:0003006 GO:0003674 GO:0003824 GO:0004672 GO:0004674 GO:0004675 GO:0004888 GO:0005488 GO:0005575 GO:0005623 GO:0005886 GO:0006464 GO:0006468 GO:0006793 GO:0006796 GO:0006807 GO:0006950 GO:0006952 GO:0006955 GO:0007154 GO:0007165 GO:0007166 GO:0007167 GO:0007178 GO:0007275 GO:0008061 GO:0008144 GO:0008150 GO:0008152 GO:0009605 GO:0009607 GO:0009617 GO:0009719 GO:0009725 GO:0009751 GO:0009790 GO:0009791 GO:0009793 GO:0009888 GO:0009960 GO:0009987 GO:0010033 GO:0010154 GO:0010200 GO:0010243 GO:0014070 GO:0016020 GO:0016301 GO:0016310 GO:0016740 GO:0016772 GO:0016773 GO:0019199 GO:0019538 GO:0022414 GO:0023052 GO:0032501 GO:0032502 GO:0035690 GO:0036211 GO:0038023 GO:0042221 GO:0042493 GO:0042742 GO:0043170 GO:0043207 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044464 GO:0045087 GO:0046677 GO:0048316 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050794 GO:0050896 GO:0051704 GO:0051707 GO:0051716 GO:0060089 GO:0061458 GO:0065007 GO:0070887 GO:0071216 GO:0071219 GO:0071310 GO:0071323 GO:0071417 GO:0071495 GO:0071704 GO:0071944 GO:0097367 GO:0098542 GO:0140096 GO:1901564 GO:1901698 GO:1901699 GO:1901700 GO:1901701
PFAM: PF01476.23

Nr:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0789040	XP_003611890.1	98.621	145	2	0	1	145	107	251	3.14e-97	304

Swissprot:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0789040	sp\|O64825\|LYK4_ARATH	46.763	139	72	2	2	138	102	240	6.83e-41	148

Trembl:

Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0789040	G7KAT5	98.621	145	2	0	1	145	107	251	1.50e-97	304

TFs/TRs:

Gene ID	Type	Classification

Protein Kinases:

Gene ID	Type	Classification

Network:

Co-expression Network

Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0716060	Msa0789040	0.822654	2.110463e-53	-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
Msa0789040	MtrunA17_Chr5g0403381	98.621	145	2	0	1	145	107	251	2.88e-101	304
Msa0789040	MtrunA17_Chr5g0439334	54.676	139	58	4	1	135	99	236	7.00e-40	142
Msa0789040	MtrunA17_Chr1g0154511	49.275	138	68	2	2	137	105	242	2.54e-38	138
Msa0789040	MtrunA17_Chr3g0119351	48.905	137	67	3	1	135	125	260	2.05e-35	130
Msa0789040	MtrunA17_Chr7g0248904	42.336	137	75	2	2	134	116	252	9.97e-31	117
Msa0789040	MtrunA17_Chr7g0248881	43.165	139	73	2	2	134	102	240	5.38e-30	115
Msa0789040	MtrunA17_Chr5g0403371	36.301	146	79	5	1	137	95	235	6.17e-20	86.3
Msa0789040	MtrunA17_Chr4g0028801	36.029	136	82	4	2	133	107	241	7.99e-18	80.1
Msa0789040	MtrunA17_Chr8g0373711	27.083	144	99	4	1	139	87	229	8.28e-14	68.6

Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0789040	AT2G23770.1	46.763	139	72	2	2	138	102	240	6.94e-42	148
Msa0789040	AT2G33580.1	46.154	143	68	4	1	136	105	245	1.06e-27	108
Msa0789040	AT3G01840.1	29.927	137	87	4	1	135	93	222	3.02e-12	64.3

Find 20 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE

CRISPR-Local

CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
TCATTCATTAGTGATAAATT+TGG	0.248395	5_2:-76767479	Msa0789040:CDS
CCTGTCAATTGTTCTTGTTC+TGG	0.267005	5_2:-76767749	Msa0789040:CDS
TTTGAGTTATTTGGTTGATT+GGG	0.311331	5_2:-76767513	Msa0789040:CDS
GGAACAAGAAGTGTTGTAAA+AGG	0.311676	5_2:+76767395	None:intergenic
TTCTCAGTTTGATTCTTTGT+AGG	0.356854	5_2:+76767551	None:intergenic
TATGTTATTGTTGGAGTACT+TGG	0.373188	5_2:-76767261	Msa0789040:CDS
ACTTGGGTTTATGTTATTGT+TGG	0.381632	5_2:-76767270	Msa0789040:CDS
GTTATTGTTGGAGTACTTGG+AGG	0.494536	5_2:-76767258	Msa0789040:CDS
GTTTGAATTTGAGAACTTGA+AGG	0.507141	5_2:+76767359	None:intergenic
TTGAGTTATTTGGTTGATTG+GGG	0.508276	5_2:-76767512	Msa0789040:CDS
AAGAAGAAGAAGATGAAGGT+GGG	0.508456	5_2:+76767316	None:intergenic
CTACCAGGATATACATCACC+AGG	0.508856	5_2:+76767605	None:intergenic
AATCCTGGTGATGTATATCC+TGG	0.541264	5_2:-76767608	Msa0789040:CDS
ATGCATGAAAATCATAATCC+TGG	0.543482	5_2:-76767623	Msa0789040:CDS
AGAAGAAGAAGATGAAGGTG+GGG	0.546711	5_2:+76767317	None:intergenic
CCAGAACAAGAACAATTGAC+AGG	0.552390	5_2:+76767749	None:intergenic
GTAGGACAAGCACATCTAAG+AGG	0.560651	5_2:+76767569	None:intergenic
GAAGAAGAAGAAGATGAAGG+TGG	0.574905	5_2:+76767315	None:intergenic
GTCGAAGAAGAAGAAGATGA+AGG	0.627268	5_2:+76767312	None:intergenic
AAGTGTATTAGCTTCAAGAG+TGG	0.640165	5_2:+76767442	None:intergenic

CRISPR-GE

badsite warning	sgRNA_sequence	Strand	Position	Region	GC_content
!!!	AGTTTTTTTCGATTTTTTAT+CGG	+	chr5_2:76767724-76767743	None:intergenic	15.0%
!!	ATAAAAAATCGAAAAAAACT+TGG	-	chr5_2:76767724-76767743	Msa0789040:CDS	15.0%
!!	TAAAAAATCGAAAAAAACTT+GGG	-	chr5_2:76767725-76767744	Msa0789040:CDS	15.0%
!!!	AAAGTATCTTTTGAGTTATT+TGG	-	chr5_2:76767489-76767508	Msa0789040:CDS	20.0%
!!	TCATTCATTAGTGATAAATT+TGG	-	chr5_2:76767532-76767551	Msa0789040:CDS	20.0%
!!!	TTTTGAGTTATTTGGTTGAT+TGG	-	chr5_2:76767497-76767516	Msa0789040:CDS	25.0%
!!	TTTGAGTTATTTGGTTGATT+GGG	-	chr5_2:76767498-76767517	Msa0789040:CDS	25.0%
!!!	GTCTGTGTTTTGAAAAACAT+AGG	+	chr5_2:76767311-76767330	None:intergenic	30.0%
	ATGCATGAAAATCATAATCC+TGG	-	chr5_2:76767388-76767407	Msa0789040:CDS	30.0%
	TTCTCAGTTTGATTCTTTGT+AGG	+	chr5_2:76767463-76767482	None:intergenic	30.0%
	TTGAGTTATTTGGTTGATTG+GGG	-	chr5_2:76767499-76767518	Msa0789040:CDS	30.0%
	GTTTGAATTTGAGAACTTGA+AGG	+	chr5_2:76767655-76767674	None:intergenic	30.0%
	ACTTGGGTTTATGTTATTGT+TGG	-	chr5_2:76767741-76767760	Msa0789040:CDS	30.0%
!	TATGTTATTGTTGGAGTACT+TGG	-	chr5_2:76767750-76767769	Msa0789040:CDS	30.0%
!	GTTGCTAACAACACTTTTGA+AGG	-	chr5_2:76767343-76767362	Msa0789040:CDS	35.0%
!	AAGTGTATTAGCTTCAAGAG+TGG	+	chr5_2:76767572-76767591	None:intergenic	35.0%
!!	GGAACAAGAAGTGTTGTAAA+AGG	+	chr5_2:76767619-76767638	None:intergenic	35.0%
	CTTGAAGGCTTATCAAAAAG+AGG	+	chr5_2:76767640-76767659	None:intergenic	35.0%
	AAGAAGAAGAAGATGAAGGT+GGG	+	chr5_2:76767698-76767717	None:intergenic	35.0%
	CCAGAACAAGAACAATTGAC+AGG	+	chr5_2:76767265-76767284	None:intergenic	40.0%
	CCTGTCAATTGTTCTTGTTC+TGG	-	chr5_2:76767262-76767281	Msa0789040:CDS	40.0%
!	AATCCTGGTGATGTATATCC+TGG	-	chr5_2:76767403-76767422	Msa0789040:CDS	40.0%
!	GGAACAAGTAGTTTTCTACC+AGG	+	chr5_2:76767424-76767443	None:intergenic	40.0%
	AGAAGAAGAAGATGAAGGTG+GGG	+	chr5_2:76767697-76767716	None:intergenic	40.0%
	GAAGAAGAAGAAGATGAAGG+TGG	+	chr5_2:76767699-76767718	None:intergenic	40.0%
	GTCGAAGAAGAAGAAGATGA+AGG	+	chr5_2:76767702-76767721	None:intergenic	40.0%
!	GTTATTGTTGGAGTACTTGG+AGG	-	chr5_2:76767753-76767772	Msa0789040:CDS	40.0%
	CTACCAGGATATACATCACC+AGG	+	chr5_2:76767409-76767428	None:intergenic	45.0%
	GTAGGACAAGCACATCTAAG+AGG	+	chr5_2:76767445-76767464	None:intergenic	45.0%

Chromosome	Type	Strat	End	Strand	Name
chr5_2	gene	76767250	76767783	76767250	ID=Msa0789040;Name=Msa0789040
chr5_2	mRNA	76767250	76767783	76767250	ID=Msa0789040-mRNA-1;Parent=Msa0789040;Name=Msa0789040-mRNA-1;_AED=0.36;_eAED=0.36;_QI=0\|-1\|0\|1\|-1\|1\|1\|0\|177
chr5_2	exon	76767250	76767783	76767250	ID=Msa0789040-mRNA-1:exon:23355;Parent=Msa0789040-mRNA-1
chr5_2	CDS	76767250	76767783	76767250	ID=Msa0789040-mRNA-1:cds;Parent=Msa0789040-mRNA-1

Gene Sequence

>Msa0789040

ATGGTAATCGTTCCTGTCAATTGTTCTTGTTCTGGTAACTATTATCAAGCAAACACATCCTATGTTTTTCAAAACACAGACACTTATTTTATAGTTGCTAACAACACTTTTGAAGGTCTTTCAACATGTCAAGCTTTGATGCATGAAAATCATAATCCTGGTGATGTATATCCTGGTAGAAAACTACTTGTTCCTCTTAGATGTGCTTGTCCTACAAAGAATCAAACTGAGAAAAACATAAAGTATCTTTTGAGTTATTTGGTTGATTGGGGTGATTCTGTTTCATTCATTAGTGATAAATTTGGTGTTAACTTTAGAACCACTCTTGAAGCTAATACACTTTCTTTAACACAATCTATGATTTATCCTTTTACAACACTTCTTGTTCCTCTTTTTGATAAGCCTTCAAGTTCTCAAATTCAAACACATCATTCTCTTCATCATCCCCACCTTCATCTTCTTCTTCTTCGACCGATAAAAAATCGAAAAAAACTTGGGTTTATGTTATTGTTGGAGTACTTGGAGGAGTTGTAA

Protein sequence

>Msa0789040

MVIVPVNCSCSGNYYQANTSYVFQNTDTYFIVANNTFEGLSTCQALMHENHNPGDVYPGRKLLVPLRCACPTKNQTEKNIKYLLSYLVDWGDSVSFISDKFGVNFRTTLEANTLSLTQSMIYPFTTLLVPLFDKPSSSQIQTHHSLHHPHLHLLLLRPIKNRKKLGFMLLLEYLEEL*