AlfalfaGEDB | Msa1291980

M. sativa cultivar zhongmu-4 / Msa1291980

KEGG: -
GO: GO:0000003 GO:0003002 GO:0003006 GO:0005575 GO:0005623 GO:0005886 GO:0005911 GO:0007049 GO:0007275 GO:0007389 GO:0008150 GO:0009506 GO:0009553 GO:0009554 GO:0009653 GO:0009888 GO:0009933 GO:0009934 GO:0009956 GO:0009987 GO:0010015 GO:0010051 GO:0010305 GO:0016020 GO:0019953 GO:0022402 GO:0022414 GO:0022603 GO:0022622 GO:0030054 GO:0032501 GO:0032502 GO:0034293 GO:0043934 GO:0044464 GO:0044703 GO:0048229 GO:0048236 GO:0048364 GO:0048507 GO:0048509 GO:0048532 GO:0048731 GO:0048856 GO:0048869 GO:0050789 GO:0050793 GO:0051321 GO:0051704 GO:0055044 GO:0065007 GO:0071944 GO:0099402 GO:1903046 GO:1905392
PFAM: PF00335.23

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
Msa1291980	sp\|Q9FIQ5\|TRN2_ARATH	69.888	269	81	0	1	269	1	269	8.85e-130	371

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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
Msa1291980	G7LH20	96.654	269	9	0	1	269	1	269	0.0	538

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TFs/TRs:

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Gene ID	Type	Classification
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Protein Kinases:

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Network:

Co-expression Network

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Gene1	Gene2	correlation coefficient	p_value	FDR
Msa0768990	Msa1291980	0.801179	1.017533e-48	-8.615850e-47

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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
Msa1291980	MtrunA17_Chr8g0366571	96.654	269	9	0	1	269	1	269	0.0	538
Msa1291980	MtrunA17_Chr5g0411131	75.093	269	67	0	1	269	1	269	2.63e-134	380
Msa1291980	MtrunA17_Chr8g0389221	52.612	268	127	0	1	268	1	268	1.54e-101	297
Msa1291980	MtrunA17_Chr4g0073251	46.360	261	137	2	1	258	1	261	2.63e-78	238
Msa1291980	MtrunA17_Chr4g0030021	45.956	272	141	3	1	266	1	272	4.07e-78	238
Msa1291980	MtrunA17_Chr6g0462061	42.023	257	139	3	3	259	4	250	7.63e-68	211
Msa1291980	MtrunA17_Chr1g0199961	42.045	264	143	3	3	266	4	257	6.74e-67	209
Msa1291980	MtrunA17_Chr8g0386471	35.878	262	162	3	1	259	3	261	6.48e-60	191
Msa1291980	MtrunA17_Chr4g0062101	36.538	260	162	2	3	259	6	265	5.13e-58	186
Msa1291980	MtrunA17_Chr5g0447681	27.451	255	155	6	5	252	50	281	5.17e-31	117

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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
Msa1291980	AT5G46700.1	69.888	269	81	0	1	269	1	269	9.00e-131	371
Msa1291980	AT2G19580.1	54.275	269	122	1	1	268	1	269	3.21e-94	278
Msa1291980	AT3G45600.1	44.656	262	139	3	1	256	1	262	9.52e-80	242
Msa1291980	AT4G28050.1	43.411	258	144	1	4	259	5	262	1.15e-76	234
Msa1291980	AT2G23810.1	41.445	263	151	2	4	263	5	267	6.29e-73	224
Msa1291980	AT4G30430.1	38.931	262	158	1	3	262	4	265	4.91e-72	222
Msa1291980	AT5G60220.1	44.656	262	139	3	1	256	1	262	3.26e-64	204
Msa1291980	AT1G18520.1	39.015	264	153	4	3	259	4	266	6.65e-62	196
Msa1291980	AT3G12090.1	40.945	254	138	4	3	256	4	245	1.01e-58	188
Msa1291980	AT1G63260.2	35.659	258	158	3	1	257	3	253	6.18e-58	186

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Find 60 sgRNAs with CRISPR-Local

Find 238 sgRNAs with CRISPR-GE

CRISPR-Local

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CRISPR-Local
sgRNA_sequence	on_target_score	Position	Region
AAATGATCACTGGCCATTGT+AGG	0.408428	8_3:-47598752	None:intergenic
AAATTCCAGCACCAATTATT+GGG	0.333661	8_3:-47598692	None:intergenic
AAGAACCCAACAAAACAATG+AGG	0.691690	8_3:-47598872	None:intergenic
AAGATATGGATTGCATGAAA+TGG	0.463820	8_3:+47600188	Msa1291980:CDS
AAGCATTGGGATTCTCCAAA+AGG	0.516728	8_3:-47598820	None:intergenic
AATTAACACAAGTGAAGATA+TGG	0.398975	8_3:+47600174	Msa1291980:CDS
AATTAGATTATGAACAATAT+GGG	0.514102	8_3:+47600462	Msa1291980:three_prime_UTR
AATTGTGACTCATGCAAAGC+TGG	0.472474	8_3:+47600238	Msa1291980:CDS
ACTAGTGGATTTACCTGCAA+GGG	0.618595	8_3:-47599122	None:intergenic
ACTTCCTATAGAACCTTTCA+TGG	0.294123	8_3:+47598527	Msa1291980:five_prime_UTR

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CRISPR-GE

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sgRNA_sequence	Strand	Position	Region	GC_content
TATACCATGAAAGGTTCTAT+AGG	-	chr8_3:47598534-47598553	None:intergenic	30.0%
TTCTTTATTATCCGCCAAAA+TGG	+	chr8_3:47598614-47598633	Msa1291980:exon	30.0%
AAATTCCAGCACCAATTATT+GGG	-	chr8_3:47598695-47598714	None:intergenic	30.0%
ATGGGAATATTGAACCTAAT+AGG	+	chr8_3:47598931-47598950	Msa1291980:CDS	30.0%
ATGTCATAAAAAGGGAATGT+AGG	-	chr8_3:47599863-47599882	None:intergenic	30.0%
GAGCAAGAAATGTCATAAAA+AGG	-	chr8_3:47599872-47599891	None:intergenic	30.0%
TATATGGGGTGAAGAATATA+GGG	-	chr8_3:47599979-47599998	None:intergenic	30.0%
ATATATGGGGTGAAGAATAT+AGG	-	chr8_3:47599980-47599999	None:intergenic	30.0%
AGAAAAGGAAAGGGAATAAA+GGG	-	chr8_3:47600047-47600066	None:intergenic	30.0%
AAGAAAAGGAAAGGGAATAA+AGG	-	chr8_3:47600048-47600067	None:intergenic	30.0%

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Chromosome	Type	Strat	End	Strand	Name
chr8_3	gene	47598486	47600631	47598486	ID=Msa1291980;Name=Msa1291980
chr8_3	mRNA	47598486	47600631	47598486	ID=Msa1291980-mRNA-1;Parent=Msa1291980;Name=Msa1291980-mRNA-1;_AED=0.05;_eAED=0.05;_QI=147\|1\|1\|1\|1\|1\|2\|214\|269
chr8_3	exon	47598486	47599130	47598486	ID=Msa1291980-mRNA-1:exon:13266;Parent=Msa1291980-mRNA-1
chr8_3	exon	47600106	47600631	47600106	ID=Msa1291980-mRNA-1:exon:13267;Parent=Msa1291980-mRNA-1
chr8_3	five_prime_UTR	47598486	47598632	47598486	ID=Msa1291980-mRNA-1:five_prime_utr;Parent=Msa1291980-mRNA-1
chr8_3	CDS	47598633	47599130	47598633	ID=Msa1291980-mRNA-1:cds;Parent=Msa1291980-mRNA-1
chr8_3	CDS	47600106	47600417	47600106	ID=Msa1291980-mRNA-1:cds;Parent=Msa1291980-mRNA-1
chr8_3	three_prime_UTR	47600418	47600631	47600418	ID=Msa1291980-mRNA-1:three_prime_utr;Parent=Msa1291980-mRNA-1

Gene Sequence

>Msa1291980

ATGGCATTGAGCAACAATGTGATAGGAATCATAAACTTCATTGCAGTTCTACTCTCAATCCCAATAATTGGTGCTGGAATTTGGCTATCAACTTTACAAGCAGAATCATGTGTCAAAATCCTACAATGGCCAGTGATCATTTTAGGGATACTAATTTTAATTGTTGGTATGGTTGGTTTCATTGGAGCCTTTTGGAGAATCCCAATGCTTCTCATATTCTACCTCATTGCTATGTTCATCCTCATTGTTTTGTTGGGTTCTTTGGTGATTTTTGTGTATTCGGTTACACTTAGAGGACATGGGAATATTGAACCTAATAGGTCATATTTAGAATATCGTGTGGATGATTTTTCATTTTGGCTTCGTAGAAGGGTTAGAAGCTCACATAAATGGGATGGAATAAAGAATTGTCTTAGTTCATCAAATATGTGTGCTGAGTTGAATCAAAGTTACCGAATTGCTCAAGATTTCTTTAATGCTCACCTATCACCCTTGCAGTCAGGTTGTTGCAAACCACCAACAAAATGTGGTTACACATTTGTGAACCCAACATATTGGATTAGCCCAATTAACACAAGTGAAGATATGGATTGCATGAAATGGAGCAATGATCAAACACAACTTTGCTACAATTGTGACTCATGCAAAGCTGGTTTGTTAGCAACTCTTAGGATAGAGTGGAGGAAAGCCAATGTGATATTAATAGTTGCATTGGTTGCTTTAATTCTTGTTTATTTGTTTGGGTGTTTTGCTTTTAGGAATGCCAAAACTGAGGAGCTCTTTCGCAAATACAAGCAAGGCTACACTTGA

Protein sequence

>Msa1291980

MALSNNVIGIINFIAVLLSIPIIGAGIWLSTLQAESCVKILQWPVIILGILILIVGMVGFIGAFWRIPMLLIFYLIAMFILIVLLGSLVIFVYSVTLRGHGNIEPNRSYLEYRVDDFSFWLRRRVRSSHKWDGIKNCLSSSNMCAELNQSYRIAQDFFNAHLSPLQSGCCKPPTKCGYTFVNPTYWISPINTSEDMDCMKWSNDQTQLCYNCDSCKAGLLATLRIEWRKANVILIVALVALILVYLFGCFAFRNAKTEELFRKYKQGYT*