AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280010184.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 22 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGTGAAGCTATTGCTAAAA+AGG 0.287342 2:-65847215 MsG0280010184.01.T01:CDS
TGAAAGAAAGATAGAGTTTC+CGG 0.308185 2:-65847400 MsG0280010184.01.T01:CDS
GTAATTATTGTAATTATGTT+AGG 0.320237 2:-65847564 None:intergenic
ATAGCAAACTTGAAGAGTTT+CGG 0.368172 2:-65847467 MsG0280010184.01.T01:CDS
TGAAAGAGCTAAGAAGTTAG+AGG 0.400614 2:-65847263 MsG0280010184.01.T01:CDS
AGCAATAGCTTCACCCTTCT+CGG 0.419414 2:+65847222 None:intergenic
TCCTTTACCACCTTCTCCTC+CGG 0.440386 2:+65847381 None:intergenic
AGGTCCTAACTGTGCAAATC+CGG 0.441785 2:-65847442 MsG0280010184.01.T01:CDS
GCAATAGCTTCACCCTTCTC+GGG 0.452340 2:+65847223 None:intergenic
GATAGAGTTTCCGGAGGAGA+AGG 0.496889 2:-65847391 MsG0280010184.01.T01:CDS
GAGTAATTAGTATTCATGTC+GGG 0.504589 2:-65847542 MsG0280010184.01.T01:CDS
AAACTTGAAGAGTTTCGGTC+AGG 0.520876 2:-65847462 MsG0280010184.01.T01:CDS
GGAGTAATTAGTATTCATGT+CGG 0.522708 2:-65847543 MsG0280010184.01.T01:CDS
CCTTTCGCGTAGTTCTTCAA+AGG 0.548805 2:+65847494 None:intergenic
AGAGTTTCCGGAGGAGAAGG+TGG 0.570130 2:-65847388 MsG0280010184.01.T01:intron
AATTAGTATTCATGTCGGGT+TGG 0.572848 2:-65847538 MsG0280010184.01.T01:CDS
TCCGGAAAATGCTAAGAAGA+GGG 0.590830 2:-65847424 MsG0280010184.01.T01:CDS
ATCCGGAAAATGCTAAGAAG+AGG 0.592171 2:-65847425 MsG0280010184.01.T01:CDS
AAGAAGAATGATCCCGAGAA+GGG 0.604304 2:-65847235 MsG0280010184.01.T01:CDS
CCTTTGAAGAACTACGCGAA+AGG 0.632563 2:-65847494 MsG0280010184.01.T01:CDS
GAAGAAGAATGATCCCGAGA+AGG 0.641398 2:-65847236 MsG0280010184.01.T01:CDS
AAGAAAGATAGAGTTTCCGG+AGG 0.655190 2:-65847397 MsG0280010184.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATAGCAAACTTGAAGAGTTT+CGG - Chr2:65847277-65847296 MsG0280010184.01.T01:intron 30.0%
GAGTAATTAGTATTCATGTC+GGG - Chr2:65847202-65847221 MsG0280010184.01.T01:CDS 30.0%
GGAGTAATTAGTATTCATGT+CGG - Chr2:65847201-65847220 MsG0280010184.01.T01:CDS 30.0%
TGAAAGAAAGATAGAGTTTC+CGG - Chr2:65847344-65847363 MsG0280010184.01.T01:intron 30.0%
AATTAGTATTCATGTCGGGT+TGG - Chr2:65847206-65847225 MsG0280010184.01.T01:CDS 35.0%
GCTATTGCTAAAAAGGAAGA+AGG - Chr2:65847536-65847555 MsG0280010184.01.T01:CDS 35.0%
GGCAATGTTAAACTTCAACA+TGG - Chr2:65847416-65847435 MsG0280010184.01.T01:CDS 35.0%
TGAAAGAGCTAAGAAGTTAG+AGG - Chr2:65847481-65847500 MsG0280010184.01.T01:CDS 35.0%
TTCAACATGGTGAAATGCAA+GGG - Chr2:65847429-65847448 MsG0280010184.01.T01:CDS 35.0%
AAACTTGAAGAGTTTCGGTC+AGG - Chr2:65847282-65847301 MsG0280010184.01.T01:intron 40.0%
AAGAAAGATAGAGTTTCCGG+AGG - Chr2:65847347-65847366 MsG0280010184.01.T01:intron 40.0%
AAGAAGAATGATCCCGAGAA+GGG - Chr2:65847509-65847528 MsG0280010184.01.T01:CDS 40.0%
ATCCGGAAAATGCTAAGAAG+AGG - Chr2:65847319-65847338 MsG0280010184.01.T01:intron 40.0%
CTTCAACATGGTGAAATGCA+AGG - Chr2:65847428-65847447 MsG0280010184.01.T01:CDS 40.0%
GGGTGAAGCTATTGCTAAAA+AGG - Chr2:65847529-65847548 MsG0280010184.01.T01:CDS 40.0%
TCCGGAAAATGCTAAGAAGA+GGG - Chr2:65847320-65847339 MsG0280010184.01.T01:intron 40.0%
! TCCCTCTTCTTAGCATTTTC+CGG + Chr2:65847324-65847343 None:intergenic 40.0%
! TTTTCCGGATTTGCACAGTT+AGG + Chr2:65847309-65847328 None:intergenic 40.0%
AGCAATAGCTTCACCCTTCT+CGG + Chr2:65847525-65847544 None:intergenic 45.0%
AGGTCCTAACTGTGCAAATC+CGG - Chr2:65847302-65847321 MsG0280010184.01.T01:intron 45.0%
CCTTTCGCGTAGTTCTTCAA+AGG + Chr2:65847253-65847272 None:intergenic 45.0%
GAAGAAGAATGATCCCGAGA+AGG - Chr2:65847508-65847527 MsG0280010184.01.T01:CDS 45.0%
GAGAAAAGTTTCCAAGCGCA+AGG - Chr2:65847454-65847473 MsG0280010184.01.T01:CDS 45.0%
GGCTTCAAAGAGCTTGTGTT+TGG - Chr2:65847395-65847414 MsG0280010184.01.T01:CDS 45.0%
! CCTTTGAAGAACTACGCGAA+AGG - Chr2:65847250-65847269 MsG0280010184.01.T01:CDS 45.0%
! TCTTTCAAGTACCTTGCGCT+TGG + Chr2:65847468-65847487 None:intergenic 45.0%
GATAGAGTTTCCGGAGGAGA+AGG - Chr2:65847353-65847372 MsG0280010184.01.T01:intron 50.0%
GCAATAGCTTCACCCTTCTC+GGG + Chr2:65847524-65847543 None:intergenic 50.0%
TCCTTTACCACCTTCTCCTC+CGG + Chr2:65847366-65847385 None:intergenic 50.0%
!! CAAGCTCTTTGAAGCCTCTG+TGG + Chr2:65847391-65847410 None:intergenic 50.0%
AGAGTTTCCGGAGGAGAAGG+TGG - Chr2:65847356-65847375 MsG0280010184.01.T01:intron 55.0%
GGAGGAGAAGGTGGTAAAGG+AGG - Chr2:65847365-65847384 MsG0280010184.01.T01:intron 55.0%
TCCGGAGGAGAAGGTGGTAA+AGG - Chr2:65847362-65847381 MsG0280010184.01.T01:intron 55.0%
GGTGGTAAAGGAGGCCACAG+AGG - Chr2:65847374-65847393 MsG0280010184.01.T01:intron 60.0%
Chromosome Type Strat End Strand Name
Chr2 gene 65847195 65847571 65847195 ID=MsG0280010184.01;Name=MsG0280010184.01
Chr2 mRNA 65847195 65847571 65847195 ID=MsG0280010184.01.T01;Parent=MsG0280010184.01;Name=MsG0280010184.01.T01;_AED=0.50;_eAED=0.51;_QI=0|0|0|1|1|1|2|0|92
Chr2 exon 65847389 65847571 65847389 ID=MsG0280010184.01.T01:exon:18189;Parent=MsG0280010184.01.T01
Chr2 exon 65847195 65847290 65847195 ID=MsG0280010184.01.T01:exon:18188;Parent=MsG0280010184.01.T01
Chr2 CDS 65847389 65847571 65847389 ID=MsG0280010184.01.T01:cds;Parent=MsG0280010184.01.T01
Chr2 CDS 65847195 65847290 65847195 ID=MsG0280010184.01.T01:cds;Parent=MsG0280010184.01.T01
Gene Sequence

>MsG0280010184.01.T01

ATGTTAGGAGTAATTAGTATTCATGTCGGGTTGGAAGCAGATGATCAGTTTGCGACCTTTGAAGAACTACGCGAAAGGCTTTATAGCAAACTTGAAGAGTTTCGGTCAGGTCCTAACTGTGCAAATCCGGAAAATGCTAAGAAGAGGGATGAAAGAAAGATAGAGTTTCCGGAGGAGAAGGTGGTACTTGAAAGAGCTAAGAAGTTAGAGGAAGTGAAGAAGAATGATCCCGAGAAGGGTGAAGCTATTGCTAAAAAGGAAGAAGGAAAGCTTCAATGA

Protein sequence

>MsG0280010184.01.T01

MLGVISIHVGLEADDQFATFEELRERLYSKLEEFRSGPNCANPENAKKRDERKIEFPEEKVVLERAKKLEEVKKNDPEKGEAIAKKEEGKLQ*