AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480018468.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480018468.01.T01 MTR_4g012060 96.629 89 3 0 1 89 203 291 3.61e-57 177
MsG0480018468.01.T01 MTR_2g102140 64.130 92 29 2 1 88 220 311 6.09e-36 123
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480018468.01.T01 AT1G79960 50.617 81 37 2 1 78 210 290 2.81e-17 74.3

Find 23 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGAACGCTCCGCGGCTTCCC+TGG 0.369632 4:+5355294 None:intergenic
GGAACAATGAAAGTGTTGAT+TGG 0.389592 4:-5355437 MsG0480018468.01.T01:CDS
AAGTGTTGATTGGGATTTCA+TGG 0.402630 4:-5355427 MsG0480018468.01.T01:CDS
CAGGGAAGCCGCGGAGCGTT+CGG 0.404751 4:-5355293 MsG0480018468.01.T01:CDS
GAACAATGAAAGTGTTGATT+GGG 0.405122 4:-5355436 MsG0480018468.01.T01:CDS
GCGTTCGGACGGTTAGGATT+GGG 0.405374 4:-5355278 MsG0480018468.01.T01:CDS
TGCTTCCAACGTTTCTTGCA+TGG 0.437619 4:+5355467 None:intergenic
AGCGTTCGGACGGTTAGGAT+TGG 0.441450 4:-5355279 MsG0480018468.01.T01:CDS
AAACGTTGGAAGCAAGGTTA+AGG 0.444628 4:-5355458 MsG0480018468.01.T01:CDS
GAATTAACTTTAGAATTTGA+AGG 0.445602 4:-5355228 MsG0480018468.01.T01:CDS
CGCGGAGCGTTCGGACGGTT+AGG 0.454970 4:-5355284 MsG0480018468.01.T01:CDS
CTCTATCATGAGGAAGAGTT+CGG 0.473366 4:-5355325 MsG0480018468.01.T01:CDS
AAGAGTTCGGAGACTAAACC+AGG 0.517918 4:-5355312 MsG0480018468.01.T01:CDS
TGCAAGAAACGTTGGAAGCA+AGG 0.535063 4:-5355464 MsG0480018468.01.T01:CDS
TTAGGATTGGGACTGAGGTA+AGG 0.548983 4:-5355266 MsG0480018468.01.T01:CDS
GACGGTTAGGATTGGGACTG+AGG 0.576913 4:-5355271 MsG0480018468.01.T01:CDS
AAGATCCATGCAAGAAACGT+TGG 0.585266 4:-5355472 None:intergenic
GAAGCCGCGGAGCGTTCGGA+CGG 0.601979 4:-5355289 MsG0480018468.01.T01:CDS
GTGACTTGATCTCTATCATG+AGG 0.602549 4:-5355335 MsG0480018468.01.T01:CDS
AGACTAAACCAGGGAAGCCG+CGG 0.604751 4:-5355302 MsG0480018468.01.T01:CDS
GGATTGGGACTGAGGTAAGG+CGG 0.658738 4:-5355263 MsG0480018468.01.T01:CDS
AGAGTTCGGAGACTAAACCA+GGG 0.713620 4:-5355311 MsG0480018468.01.T01:CDS
CTAACCGTCCGAACGCTCCG+CGG 0.714481 4:+5355285 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GAATTAACTTTAGAATTTGA+AGG - Chr4:5355455-5355474 MsG0480018468.01.T01:CDS 20.0%
!! GAACAATGAAAGTGTTGATT+GGG - Chr4:5355247-5355266 MsG0480018468.01.T01:CDS 30.0%
!! AAGTGTTGATTGGGATTTCA+TGG - Chr4:5355256-5355275 MsG0480018468.01.T01:CDS 35.0%
!! GGAACAATGAAAGTGTTGAT+TGG - Chr4:5355246-5355265 MsG0480018468.01.T01:CDS 35.0%
AAACGTTGGAAGCAAGGTTA+AGG - Chr4:5355225-5355244 MsG0480018468.01.T01:CDS 40.0%
CTCTATCATGAGGAAGAGTT+CGG - Chr4:5355358-5355377 MsG0480018468.01.T01:CDS 40.0%
GTGACTTGATCTCTATCATG+AGG - Chr4:5355348-5355367 MsG0480018468.01.T01:CDS 40.0%
AAGAGTTCGGAGACTAAACC+AGG - Chr4:5355371-5355390 MsG0480018468.01.T01:CDS 45.0%
AGAGTTCGGAGACTAAACCA+GGG - Chr4:5355372-5355391 MsG0480018468.01.T01:CDS 45.0%
TGCAAGAAACGTTGGAAGCA+AGG - Chr4:5355219-5355238 MsG0480018468.01.T01:CDS 45.0%
TTAGGATTGGGACTGAGGTA+AGG - Chr4:5355417-5355436 MsG0480018468.01.T01:CDS 45.0%
AGACTAAACCAGGGAAGCCG+CGG - Chr4:5355381-5355400 MsG0480018468.01.T01:CDS 55.0%
AGCGTTCGGACGGTTAGGAT+TGG - Chr4:5355404-5355423 MsG0480018468.01.T01:CDS 55.0%
GACGGTTAGGATTGGGACTG+AGG - Chr4:5355412-5355431 MsG0480018468.01.T01:CDS 55.0%
GCGTTCGGACGGTTAGGATT+GGG - Chr4:5355405-5355424 MsG0480018468.01.T01:CDS 55.0%
GGATTGGGACTGAGGTAAGG+CGG - Chr4:5355420-5355439 MsG0480018468.01.T01:CDS 55.0%
CTAACCGTCCGAACGCTCCG+CGG + Chr4:5355401-5355420 None:intergenic 65.0%
! CAGGGAAGCCGCGGAGCGTT+CGG - Chr4:5355390-5355409 MsG0480018468.01.T01:CDS 70.0%
! CGCGGAGCGTTCGGACGGTT+AGG - Chr4:5355399-5355418 MsG0480018468.01.T01:CDS 70.0%
! GAAGCCGCGGAGCGTTCGGA+CGG - Chr4:5355394-5355413 MsG0480018468.01.T01:CDS 70.0%
CGAACGCTCCGCGGCTTCCC+TGG + Chr4:5355392-5355411 None:intergenic 75.0%
Chromosome Type Strat End Strand Name
Chr4 gene 5355218 5355487 5355218 ID=MsG0480018468.01;Name=MsG0480018468.01
Chr4 mRNA 5355218 5355487 5355218 ID=MsG0480018468.01.T01;Parent=MsG0480018468.01;Name=MsG0480018468.01.T01;_AED=0.44;_eAED=0.44;_QI=0|-1|0|1|-1|1|1|0|89
Chr4 exon 5355218 5355487 5355218 ID=MsG0480018468.01.T01:exon:1421;Parent=MsG0480018468.01.T01
Chr4 CDS 5355218 5355487 5355218 ID=MsG0480018468.01.T01:cds;Parent=MsG0480018468.01.T01
Gene Sequence

>MsG0480018468.01.T01

ATGCAAGAAACGTTGGAAGCAAGGTTAAGGAACAATGAAAGTGTTGATTGGGATTTCATGGAAGAGCTTTTGTTTTGTTATATGAACTTAAATGAGAAGAAATCATATAAGTTTATACTAAGTGCTTTTTGTGACTTGATCTCTATCATGAGGAAGAGTTCGGAGACTAAACCAGGGAAGCCGCGGAGCGTTCGGACGGTTAGGATTGGGACTGAGGTAAGGCGGAAGAAGATTAAAGAATTAACTTTAGAATTTGAAGGTTCAAGATAA
Protein sequence

>MsG0480018468.01.T01

MQETLEARLRNNESVDWDFMEELLFCYMNLNEKKSYKFILSAFCDLISIMRKSSETKPGKPRSVRTVRIGTEVRRKKIKELTLEFEGSR*