AlfalfaGEDB | Msa0456440

M. sativa cultivar zhongmu-4 / Msa0456440

KEGG: K08064
GO: GO:0000003 GO:0003006 GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005667 GO:0006355 GO:0007275 GO:0008150 GO:0009555 GO:0009790 GO:0009791 GO:0009793 GO:0009889 GO:0009890 GO:0009892 GO:0010154 GO:0010262 GO:0010468 GO:0010556 GO:0010558 GO:0010605 GO:0010629 GO:0016602 GO:0019219 GO:0019222 GO:0022414 GO:0031323 GO:0031324 GO:0031326 GO:0031327 GO:0032501 GO:0032502 GO:0032991 GO:0040034 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0044798 GO:0045892 GO:0045934 GO:0048229 GO:0048316 GO:0048506 GO:0048509 GO:0048510 GO:0048519 GO:0048523 GO:0048608 GO:0048731 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0051171 GO:0051172 GO:0051252 GO:0051253 GO:0055046 GO:0060255 GO:0061458 GO:0065007 GO:0080090 GO:0090575 GO:0140110 GO:1902679 GO:1903506 GO:1903507 GO:2000112 GO:2000113 GO:2001141
PFAM: PF02045.18

Nr:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0456440	XP_003600468.2	92.857	350	4	2	1	350	1	329	0.0	649

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Swissprot:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0456440	sp\|Q9LXV5\|NFYA1_ARATH	51.439	278	105	9	16	289	17	268	2.53e-76	239

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Trembl:

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Query id	Subject id	identity %	alignment length	mis matches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0456440	G7IYA5	92.857	350	4	2	1	350	1	329	0.0	649

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TFs/TRs:

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Gene ID	Type	Classification
Msa0456440	TF	NF-YA

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Protein Kinases:

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Gene ID	Type	Classification
No data available in table

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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
No data available in table

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PPI

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Gene1	Gene2	Type
No data available in table

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Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0456440	MtrunA17_Chr3g0103391	92.857	350	4	2	1	350	1	329	0.0	649
Msa0456440	MtrunA17_Chr8g0352251	42.241	232	87	8	20	247	21	209	2.70e-41	146
Msa0456440	MtrunA17_Chr2g0300261	57.658	111	40	4	142	247	25	133	7.03e-34	125
Msa0456440	MtrunA17_Chr2g0292411	55.660	106	40	2	163	263	81	184	2.17e-30	115
Msa0456440	MtrunA17_Chr8g0343451	50.000	120	47	4	131	247	111	220	3.88e-30	117
Msa0456440	MtrunA17_Chr2g0329811	52.174	115	38	4	151	250	134	246	2.97e-27	110
Msa0456440	MtrunA17_Chr7g0267581	43.713	167	71	7	146	306	131	280	5.88e-27	108
Msa0456440	MtrunA17_Chr1g0177091	50.000	116	42	5	146	258	129	231	7.35e-25	103

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Query id	Subject id	identity %	alignment length	mismatches	gap openings	q. start	q. end	s. start	s. end	e-value	bit score
Msa0456440	AT5G12840.4	51.625	277	105	8	16	289	17	267	4.38e-79	243
Msa0456440	AT5G12840.2	51.625	277	105	8	16	289	17	267	4.38e-79	243
Msa0456440	AT5G12840.5	51.439	278	105	9	16	289	17	268	2.57e-77	239
Msa0456440	AT5G12840.3	51.439	278	105	9	16	289	17	268	2.57e-77	239
Msa0456440	AT5G12840.1	51.439	278	105	9	16	289	17	268	2.57e-77	239
Msa0456440	AT3G20910.1	54.393	239	60	8	116	350	110	303	2.02e-68	217
Msa0456440	AT2G34720.2	44.295	149	75	3	137	279	6	152	1.34e-30	114
Msa0456440	AT2G34720.3	44.295	149	75	3	137	279	6	152	1.34e-30	114
Msa0456440	AT1G30500.1	60.000	105	35	4	150	252	59	158	1.51e-30	115
Msa0456440	AT1G72830.2	55.140	107	44	3	144	247	130	235	4.08e-30	118

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Find 152 sgRNAs with CRISPR-Local

Find 281 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAACTGATGGTGAGGCCTC+GGG	0.514204	3_3:-50008516	Msa0456440:CDS
AAAAGAATTGGAAGAATACT+AGG	0.470404	3_3:+50009767	None:intergenic
AAAAGCCAAGAATGATTTGC+CGG	0.433683	3_3:+50008102	None:intergenic
AACAATACCAAGGAATTCTG+AGG	0.651910	3_3:-50009459	Msa0456440:CDS
AACATGCGACAAGATGCAAG+AGG	0.706089	3_3:-50008393	Msa0456440:CDS
AAGGAATGAGGATCTGACCT+CGG	0.671701	3_3:+50010469	None:intergenic
AAGGTATCAGGGTGAAAGAG+TGG	0.579884	3_3:-50008313	Msa0456440:CDS
AATGCCTTTGCCCCTTGAGA+TGG	0.476507	3_3:-50009509	Msa0456440:CDS
AATTGAAATTGAAAATTCAA+AGG	0.477666	3_3:+50011442	None:intergenic
ACAATCAAGAGAGGATGAAT+TGG	0.445592	3_3:+50010369	None:intergenic

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AATCACAGAATTGTTTGACT+CGG	+	chr3_3:50008073-50008092	None:intergenic	30.0%
TAGGTGAAAGGTAGAAAATT+GGG	-	chr3_3:50008198-50008217	Msa0456440:three_prime_UTR	30.0%
CATAAGGCATAACAGAATTT+CGG	+	chr3_3:50008292-50008311	None:intergenic	30.0%
ACAGAATCACATGAAACATA+AGG	+	chr3_3:50008308-50008327	None:intergenic	30.0%
AAATATGACCTGAAAAGTTG+TGG	-	chr3_3:50008334-50008353	Msa0456440:CDS	30.0%
TTCCACTTAGAAATCAAACT+CGG	-	chr3_3:50008459-50008478	Msa0456440:CDS	30.0%
GATCATAATCAATTTCACTG+TGG	-	chr3_3:50008681-50008700	Msa0456440:intron	30.0%
TAGGGGAAAAATAAACAGAT+TGG	-	chr3_3:50009113-50009132	Msa0456440:intron	30.0%
TAACAATAAAGCTTAGGCAA+AGG	+	chr3_3:50009345-50009364	None:intergenic	30.0%
CTTAACAACTTGAAAGCAAT+TGG	+	chr3_3:50009381-50009400	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr3_3	gene	50007760	50011566	50007760	ID=Msa0456440;Name=Msa0456440
chr3_3	mRNA	50007760	50011566	50007760	ID=Msa0456440-mRNA-1;Parent=Msa0456440;Name=Msa0456440-mRNA-1;_AED=0.08;_eAED=0.08;_QI=198\|0.5\|0.71\|0.85\|0.83\|0.71\|7\|473\|350
chr3_3	exon	50007760	50008610	50007760	ID=Msa0456440-mRNA-1:exon:9588;Parent=Msa0456440-mRNA-1
chr3_3	exon	50008859	50008864	50008859	ID=Msa0456440-mRNA-1:exon:9587;Parent=Msa0456440-mRNA-1
chr3_3	exon	50009402	50009566	50009402	ID=Msa0456440-mRNA-1:exon:9586;Parent=Msa0456440-mRNA-1
chr3_3	exon	50009688	50009816	50009688	ID=Msa0456440-mRNA-1:exon:9585;Parent=Msa0456440-mRNA-1
chr3_3	exon	50009990	50010096	50009990	ID=Msa0456440-mRNA-1:exon:9584;Parent=Msa0456440-mRNA-1
chr3_3	exon	50010254	50010533	50010254	ID=Msa0456440-mRNA-1:exon:9583;Parent=Msa0456440-mRNA-1
chr3_3	exon	50011381	50011566	50011381	ID=Msa0456440-mRNA-1:exon:9582;Parent=Msa0456440-mRNA-1
chr3_3	five_prime_UTR	50011381	50011566	50011381	ID=Msa0456440-mRNA-1:five_prime_utr;Parent=Msa0456440-mRNA-1
chr3_3	five_prime_UTR	50010522	50010533	50010522	ID=Msa0456440-mRNA-1:five_prime_utr;Parent=Msa0456440-mRNA-1
chr3_3	CDS	50010254	50010521	50010254	ID=Msa0456440-mRNA-1:cds;Parent=Msa0456440-mRNA-1
chr3_3	CDS	50009990	50010096	50009990	ID=Msa0456440-mRNA-1:cds;Parent=Msa0456440-mRNA-1
chr3_3	CDS	50009688	50009816	50009688	ID=Msa0456440-mRNA-1:cds;Parent=Msa0456440-mRNA-1
chr3_3	CDS	50009402	50009566	50009402	ID=Msa0456440-mRNA-1:cds;Parent=Msa0456440-mRNA-1
chr3_3	CDS	50008859	50008864	50008859	ID=Msa0456440-mRNA-1:cds;Parent=Msa0456440-mRNA-1
chr3_3	CDS	50008233	50008610	50008233	ID=Msa0456440-mRNA-1:cds;Parent=Msa0456440-mRNA-1
chr3_3	three_prime_UTR	50007760	50008232	50007760	ID=Msa0456440-mRNA-1:three_prime_utr;Parent=Msa0456440-mRNA-1

Gene Sequence

>Msa0456440

ATGCAACCCAAGTCGGAAACTGCAAATCAACCGAGGTCAGATCCTCATTCCTTTCAGCCCGGTGGTGTTTATTCTGAACCTTGGTGGCGTGGTGTTGGATACAATCCTGTAGCGCAAACAATGTCTGGTGCCAATTCATCCTCTCTTGATTGTCCCAATGGTGATTCAGAATCCAATGAGGAAGGCCAGTCTTTGTCCAATAGTGAGATGAATGAGGAAGATGATGATGCTGCTAAGGATTCACAGCCTGCTGCTCCCAATCAATCAGGAAATTACGGACAAGAACAAGGAATGCAGAATACTGCATCATCTGCAGTTATTCGCGAAGAATGCCTCACACAGACTCCTCAGCTGGAACTTGTTGGTCATTCAATTTTGCATGCATTTGGACTGGATGGGACTCCTAGTATTCTTCCAATTCTTTTGATGCAGGCATGTGCTACAAATCCTTATCAGGATCCATATTATGGGGGCATGATGGCAGCTTATCCTCACCAGCCGTTGGGATATCCTCCTTTTATAGGAGTGCCTCATGCCAGAATGCCTTTGCCCCTTGAGATGGCTCAAGAACCTGTTTATGTGAACGCTAAACAATACCAAGGAATTCTGAGGCGAAGACAAGCTCGTGCTAAAGCAGAGCTTGAAAGGAAGCTCATAAAATCTAGAAAGGTAGTGCCATATCTTCATGAATCTAGACATCAGCATGCTTTGAGAAGGGCAAGAGGCACCGGAGGACGATTTGCAAAGAAAACTGATGGTGAGGCCTCGGGAAAGGATAATGGCTCTGGTCCAGTCTTGTCGTCGCAATCAATTAGTTCATCTGGTTCAGAACTTTTGCCTTCAGACTCTGCGGAAACCTGGAATTCTCCCAACATGCGACAAGATGCAAGAGGATCAAACGAAAATGGTGGTGGCTCCTACCATAACAACAACAATGGTATGCAATCTTCAAGGTATCAGGGTGAAAGAGTGGAAGAAGGGGACTGTTCAGGGCAGCTACGTGGAAGCATCTCCTCGAACGAGGCATCGCAGAGGCGTCTTGCTATTCAGTAG

Protein sequence

>Msa0456440

MQPKSETANQPRSDPHSFQPGGVYSEPWWRGVGYNPVAQTMSGANSSSLDCPNGDSESNEEGQSLSNSEMNEEDDDAAKDSQPAAPNQSGNYGQEQGMQNTASSAVIREECLTQTPQLELVGHSILHAFGLDGTPSILPILLMQACATNPYQDPYYGGMMAAYPHQPLGYPPFIGVPHARMPLPLEMAQEPVYVNAKQYQGILRRRQARAKAELERKLIKSRKVVPYLHESRHQHALRRARGTGGRFAKKTDGEASGKDNGSGPVLSSQSISSSGSELLPSDSAETWNSPNMRQDARGSNENGGGSYHNNNNGMQSSRYQGERVEEGDCSGQLRGSISSNEASQRRLAIQ*