AlfalfaGEDB | Msa1275620

M. sativa cultivar zhongmu-4 / Msa1275620

KEGG: K10802|K11296
GO: GO:0000741 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006355 GO:0006996 GO:0006997 GO:0007275 GO:0008150 GO:0009553 GO:0009559 GO:0009561 GO:0009889 GO:0009987 GO:0010197 GO:0010468 GO:0010556 GO:0016043 GO:0019219 GO:0019222 GO:0030154 GO:0031323 GO:0031326 GO:0032501 GO:0032502 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044464 GO:0048229 GO:0048284 GO:0048856 GO:0048869 GO:0050789 GO:0050794 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0071840 GO:0080090 GO:0097159 GO:0140110 GO:1901363 GO:1903506 GO:2000112 GO:2001141
PFAM: PF00505.22

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
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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
Msa1275620	sp\|Q8LDF9\|HMGB7_ARATH	36.979	192	69	5	146	328	31	179	1.54e-23	100

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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
Msa1275620	G7LI68	74.917	303	19	3	1	303	1	246	3.51e-149	430

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TFs/TRs:

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Gene ID	Type	Classification
Msa1275620	TR	HMG

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Protein Kinases:

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Gene ID	Type	Classification
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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
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PPI

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Gene1	Gene2	Type
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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
Msa1275620	MtrunA17_Chr8g0342651	68.647	303	18	3	1	303	1	226	1.33e-134	383
Msa1275620	MtrunA17_Chr1g0212341	65.665	233	26	3	146	368	22	210	8.11e-82	248
Msa1275620	MtrunA17_Chr3g0143991	51.685	89	43	0	250	338	32	120	5.20e-20	85.9
Msa1275620	MtrunA17_Chr5g0407011	42.157	102	58	1	251	351	24	125	2.89e-18	80.5
Msa1275620	MtrunA17_Chr5g0438531	37.427	171	79	4	11	167	4	160	1.07e-17	79.7
Msa1275620	MtrunA17_Chr7g0242251	51.351	74	36	0	259	332	47	120	1.64e-16	76.6
Msa1275620	MtrunA17_Chr8g0370431	38.947	95	58	0	252	346	26	120	1.75e-14	70.1
Msa1275620	MtrunA17_Chr4g0052011	43.373	83	46	1	251	332	51	133	1.24e-11	62.4

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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
Msa1275620	AT5G23420.1	36.979	192	69	5	146	328	31	179	1.57e-24	100
Msa1275620	AT1G20696.1	47.573	103	52	2	245	346	18	119	3.25e-18	80.9
Msa1275620	AT3G51880.2	40.146	137	76	3	236	368	28	162	3.28e-18	82.0
Msa1275620	AT4G35570.1	44.792	96	52	1	254	349	25	119	5.94e-18	79.7
Msa1275620	AT4G35570.2	44.792	96	52	1	254	349	25	119	5.94e-18	79.7
Msa1275620	AT3G51880.5	41.667	120	68	2	236	355	28	145	7.38e-18	80.9
Msa1275620	AT3G51880.1	41.667	120	68	2	236	355	28	145	7.38e-18	80.9
Msa1275620	AT3G51880.3	41.667	120	68	2	236	355	28	145	7.38e-18	80.9
Msa1275620	AT1G20693.3	47.253	91	47	1	257	346	32	122	1.66e-17	79.0
Msa1275620	AT1G20693.1	47.253	91	47	1	257	346	32	122	1.70e-17	79.0

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Find 76 sgRNAs with CRISPR-Local

Find 630 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAAAGAACCAACAGCGAAAA+GGG	0.462570	8_3:-9767763	Msa1275620:CDS
AAAAGAACCAACAGCGAAAA+GGG	0.462570	8_3:-9774319	Msa1275620:CDS
AAAAGGGCTAAAGTTCAGAA+AGG	0.564456	8_3:-9767747	Msa1275620:CDS
AAAAGGGCTAAAGTTCAGAA+AGG	0.564456	8_3:-9774303	Msa1275620:CDS
AAAGGGCTAAAGTTCAGAAA+GGG	0.594995	8_3:-9767746	Msa1275620:CDS
AAAGGGCTAAAGTTCAGAAA+GGG	0.594995	8_3:-9774302	Msa1275620:CDS
AAAGGTTAAGGATTCTAATG+CGG	0.688426	8_3:-9767721	Msa1275620:CDS
AAAGGTTAAGGATTCTAATG+CGG	0.688426	8_3:-9774277	Msa1275620:CDS
AAATACTCGAATTTAACCGT+AGG	0.618437	8_3:-9775206	Msa1275620:CDS
AACATGTCTTAGTTATATTT+AGG	0.194675	8_3:-9766923	Msa1275620:three_prime_UTR

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
AAATACTCGAATTTAACCGT+AGG	-	chr8_3:9766940-9766959	Msa1275620:three_prime_UTR	30.0%
TTGTTTATAATCGAAGATGC+CGG	-	chr8_3:9767151-9767170	Msa1275620:intron	30.0%
AATCAAAGCTTCTTGAGTAA+TGG	+	chr8_3:9767321-9767340	None:intergenic	30.0%
TAAAGTTCAGAAAGGGAAAA+AGG	-	chr8_3:9767851-9767870	Msa1275620:intron	30.0%
AAAGGTTAAGGATTCTAATG+CGG	-	chr8_3:9767869-9767888	Msa1275620:intron	30.0%
ATGTAAAACTCAAAGCGTAT+GGG	-	chr8_3:9768224-9768243	Msa1275620:intron	30.0%
ATCCAATTACAGTTATTGGT+GGG	+	chr8_3:9768282-9768301	None:intergenic	30.0%
TTGCATCCAATTACAGTTAT+TGG	+	chr8_3:9768286-9768305	None:intergenic	30.0%
AACTGTAATTGGATGCAATA+AGG	-	chr8_3:9768288-9768307	Msa1275620:intron	30.0%
CACTATAAATACTTGGCATT+TGG	+	chr8_3:9768531-9768550	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr8_3	gene	9766834	9775334	9766834	ID=Msa1275620;Name=Msa1275620
chr8_3	mRNA	9766834	9775334	9766834	ID=Msa1275620-mRNA-1;Parent=Msa1275620;Name=Msa1275620-mRNA-1;_AED=0.19;_eAED=0.23;_QI=0\|0.2\|0.18\|1\|0.9\|0.90\|11\|190\|368
chr8_3	exon	9766834	9767113	9766834	ID=Msa1275620-mRNA-1:exon:4060;Parent=Msa1275620-mRNA-1
chr8_3	exon	9767201	9767293	9767201	ID=Msa1275620-mRNA-1:exon:4059;Parent=Msa1275620-mRNA-1
chr8_3	exon	9767399	9767443	9767399	ID=Msa1275620-mRNA-1:exon:4058;Parent=Msa1275620-mRNA-1
chr8_3	exon	9767543	9767600	9767543	ID=Msa1275620-mRNA-1:exon:4057;Parent=Msa1275620-mRNA-1
chr8_3	exon	9767687	9767800	9767687	ID=Msa1275620-mRNA-1:exon:4056;Parent=Msa1275620-mRNA-1
chr8_3	exon	9767891	9767936	9767891	ID=Msa1275620-mRNA-1:exon:4055;Parent=Msa1275620-mRNA-1
chr8_3	exon	9774271	9774356	9774271	ID=Msa1275620-mRNA-1:exon:4054;Parent=Msa1275620-mRNA-1
chr8_3	exon	9774447	9774492	9774447	ID=Msa1275620-mRNA-1:exon:4053;Parent=Msa1275620-mRNA-1
chr8_3	exon	9774601	9774662	9774601	ID=Msa1275620-mRNA-1:exon:4052;Parent=Msa1275620-mRNA-1
chr8_3	exon	9774784	9775001	9774784	ID=Msa1275620-mRNA-1:exon:4051;Parent=Msa1275620-mRNA-1
chr8_3	exon	9775086	9775334	9775086	ID=Msa1275620-mRNA-1:exon:4050;Parent=Msa1275620-mRNA-1
chr8_3	CDS	9775086	9775334	9775086	ID=Msa1275620-mRNA-1:cds;Parent=Msa1275620-mRNA-1
chr8_3	CDS	9774784	9775001	9774784	ID=Msa1275620-mRNA-1:cds;Parent=Msa1275620-mRNA-1
chr8_3	CDS	9774601	9774662	9774601	ID=Msa1275620-mRNA-1:cds;Parent=Msa1275620-mRNA-1
chr8_3	CDS	9774447	9774492	9774447	ID=Msa1275620-mRNA-1:cds;Parent=Msa1275620-mRNA-1
chr8_3	CDS	9774271	9774356	9774271	ID=Msa1275620-mRNA-1:cds;Parent=Msa1275620-mRNA-1
chr8_3	CDS	9767891	9767936	9767891	ID=Msa1275620-mRNA-1:cds;Parent=Msa1275620-mRNA-1
chr8_3	CDS	9767687	9767800	9767687	ID=Msa1275620-mRNA-1:cds;Parent=Msa1275620-mRNA-1
chr8_3	CDS	9767543	9767600	9767543	ID=Msa1275620-mRNA-1:cds;Parent=Msa1275620-mRNA-1
chr8_3	CDS	9767399	9767443	9767399	ID=Msa1275620-mRNA-1:cds;Parent=Msa1275620-mRNA-1
chr8_3	CDS	9767201	9767293	9767201	ID=Msa1275620-mRNA-1:cds;Parent=Msa1275620-mRNA-1
chr8_3	CDS	9767024	9767113	9767024	ID=Msa1275620-mRNA-1:cds;Parent=Msa1275620-mRNA-1
chr8_3	three_prime_UTR	9766834	9767023	9766834	ID=Msa1275620-mRNA-1:three_prime_utr;Parent=Msa1275620-mRNA-1

Gene Sequence

>Msa1275620

ATGGCGAAGATGCAGCCAGACTACACAAAACTCTGGACTTTTGAAATGCTCCTTGAAGCAAACAAGGTCAACACTCCGATTAACGCTGATCCTGAAGAAGAAAAGAAAATACTCGAATTTAACCGTAGGTTTGCAGACGAGGAGGAGATCGGGGAATCTAAATGTGGTTGTATGTTTGATGATGAAGTAGATTTTGACGAAATAGATGGGGAATCTAGAGATTTCGATGAAATAGAAGATCCTCGACAGATGCCGGCCCCCCTTGAACAGCAGCAGGAGGCTTGTGCAGTATACAATGTTTTTGAAGAAATGATTCAGTTACCTGCATCAAAGAAGATTTGTGATGCGCAACATGTTGATGGAGAAATTCTGACGAAAGTCTTGGAGAATTTGAAGAATTCCATTACTCAAGAAGCTTTGATTCAACTAGCAAATCGTGCCGAAGATGGCAGTGCTTTCGCCAAATGTGATGAGTGTAACATGCACATGCACAATTGTAGCCTTGAAGCCAAAATCAAAAGGAATCTCGATTCTCATGCTGTTGAGCAAGCTGCTGAAGTGAAGAAACCCGAGAGGAAGAAGCCAAATTCAAAAGAACCAACAGCGAAAAGGGCTAAAGTTCAGAAAGGGAAAAAGGTTAAGGATTCTAATGCGGCGAAGCATTCTCATGCTGTTGAGCAAGCTGCTGAAGTGAAGAAACCCGAGAGGAAGAAGCCAAATTCAAAAGAACCAACAGCGAAAAGGGCTAAAGTTCAGAAAGGGAAAAAGGTTAAGGATTCTAATGCGGCGAAGCGTTCAGCAACTGATTTCTTTGTTTTCATGGATGAGTTTAGAAAGACTTTTAAAGAAGCTAATCTTGATTCAAAGGATGTTAAGAGGGTTGGTAAGGAAGATGGCGAGAAGTGGAGGTCTTTGACTGAGGAAGAGAAGAAGCCTTTTTTGGATAAAGTTTTTGAACTCATGGCAGAATATGAGAAGGCCATGGAATTGTATAATGCTGCTACTGCTGAAAATGAAGATCAGGAGGAATCTGATAAAGAAGGCCAATCTGATGATAAGGAAGCCCCTGCACCAGGAGAGGCGGAAGAGTTAACAGATGAGGAGTAG

Protein sequence

>Msa1275620

MAKMQPDYTKLWTFEMLLEANKVNTPINADPEEEKKILEFNRRFADEEEIGESKCGCMFDDEVDFDEIDGESRDFDEIEDPRQMPAPLEQQQEACAVYNVFEEMIQLPASKKICDAQHVDGEILTKVLENLKNSITQEALIQLANRAEDGSAFAKCDECNMHMHNCSLEAKIKRNLDSHAVEQAAEVKKPERKKPNSKEPTAKRAKVQKGKKVKDSNAAKHSHAVEQAAEVKKPERKKPNSKEPTAKRAKVQKGKKVKDSNAAKRSATDFFVFMDEFRKTFKEANLDSKDVKRVGKEDGEKWRSLTEEEKKPFLDKVFELMAEYEKAMELYNAATAENEDQEESDKEGQSDDKEAPAPGEAEELTDEE*