AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040368

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040368 MtrunA17_Chr7g0269261 70.787 178 46 3 7 182 1 174 1.54e-79 244
MsaG040368 MtrunA17_Chr7g0269781 51.852 189 23 3 128 249 50 237 1.97e-54 178
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040368 AT2G47790.1 53.416 161 67 4 20 176 25 181 4.84e-48 163
MsaG040368 AT5G06420.1 52.564 156 24 1 146 251 129 284 5.02e-46 158
MsaG040368 AT5G06420.2 52.564 156 24 1 146 251 129 284 5.02e-46 158
MsaG040368 AT1G01350.1 51.923 156 25 1 146 251 94 249 5.55e-45 154

Find 62 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGACGTACTTTGGGATGATT+TGG 0.280115 7:+99533609 None:intergenic
AACTCTATCCAAACTAATTT+CGG 0.290124 7:-99533647 MsaT040368.1:CDS
GAACAAGAGCTTAGAATATT+GGG 0.292886 7:+99533321 None:intergenic
GCGTTTAACGTTGTTGGGTA+TGG 0.309545 7:+99533682 None:intergenic
AGAACAAGAGCTTAGAATAT+TGG 0.313825 7:+99533320 None:intergenic
TGAAGACTCAAAATGAAAGT+TGG 0.349810 7:+99532798 None:intergenic
TTTCTATTATCAATGCAAAT+AGG 0.350139 7:-99532897 MsaT040368.1:CDS
AATCGTCACCGAAATTAGTT+TGG 0.355363 7:+99533639 None:intergenic
ACCGAAGCGTTTAACGTTGT+TGG 0.380689 7:+99533676 None:intergenic
AAAATGAAAGTTGGGCTTCT+CGG 0.382812 7:+99532807 None:intergenic
TTGAAGTCTTTGCATATGTC+AGG 0.387439 7:+99532628 None:intergenic
GTTCTTCAGATGGTACTATC+AGG 0.389104 7:-99533302 MsaT040368.1:CDS
GAAGACTCAAAATGAAAGTT+GGG 0.391037 7:+99532799 None:intergenic
CCAGTGGTGGGTCAATATTA+TGG 0.397482 7:-99533402 MsaT040368.1:CDS
TCAGCGCACCCTCCTCTTCT+CGG 0.409916 7:+99532507 None:intergenic
TGACATATGCAAAGACTTCA+AGG 0.411330 7:-99532626 MsaT040368.1:CDS
CCGAAGCGTTTAACGTTGTT+GGG 0.411456 7:+99533677 None:intergenic
ATTCATCATCAAAGAGATCA+TGG 0.423985 7:+99532873 None:intergenic
CGTTTAACGTTGTTGGGTAT+GGG 0.432856 7:+99533683 None:intergenic
GACCGAGGCGACTACAAGTC+CGG 0.435443 7:-99532559 MsaT040368.1:CDS
TAGCAAAGCAACAGCAACTT+TGG 0.436558 7:-99532752 MsaT040368.1:CDS
GGACACAAGAACATTTCAAC+AGG 0.464750 7:-99533274 MsaT040368.1:intron
ACGTTGTTGGGTATGGGAAA+AGG 0.467623 7:+99533689 None:intergenic
TTGTGAATGGAAGGGATGAT+TGG 0.474743 7:-99533473 MsaT040368.1:intron
AATGGAAGCAATTGCGGCCA+TGG 0.476431 7:-99533729 MsaT040368.1:CDS
TGCAAAGACTTCAAGGAGAC+CGG 0.477457 7:-99532619 MsaT040368.1:CDS
CTAAGCTCTTGTTCTTCAGA+TGG 0.477643 7:-99533312 MsaT040368.1:CDS
CAGATGGTACTATCAGGACT+TGG 0.481372 7:-99533296 MsaT040368.1:CDS
GGTGGCAGTTGGACAAAGAA+TGG 0.496757 7:-99532537 MsaT040368.1:CDS
CCCAACAACGTTAAACGCTT+CGG 0.516028 7:-99533677 MsaT040368.1:CDS
CCATAATATTGACCCACCAC+TGG 0.537095 7:+99533402 None:intergenic
GAAACTGTATTCACCAGTGG+TGG 0.542400 7:-99533415 MsaT040368.1:CDS
ACAATAAATGGAAGCAATTG+CGG 0.543794 7:-99533735 None:intergenic
TTCAAGGAGACCGGGTATTG+TGG 0.545327 7:-99532610 MsaT040368.1:CDS
ACCCGGACTTGTAGTCGCCT+CGG 0.548237 7:+99532557 None:intergenic
AGAAGAGGAGGGTGCGCTGA+TGG 0.548558 7:-99532504 None:intergenic
TTCTTTGTCCAACTGCCACC+CGG 0.548782 7:+99532540 None:intergenic
AAGGGATGATTGGAGTTCAA+TGG 0.555515 7:-99533463 MsaT040368.1:CDS
GGAATGAAGCCGAGAAGAGG+AGG 0.558808 7:-99532516 MsaT040368.1:CDS
TCAATATTATGGAGAGTGCA+AGG 0.560776 7:-99533391 MsaT040368.1:CDS
TGCAAGTTTCTTCACGACCG+AGG 0.564969 7:-99532574 MsaT040368.1:CDS
CTACAAGTCCGGGTGGCAGT+TGG 0.571560 7:-99532548 MsaT040368.1:CDS
ACCGAGGCGACTACAAGTCC+GGG 0.574409 7:-99532558 MsaT040368.1:CDS
GAGACCGGGTATTGTGGCTA+CGG 0.578795 7:-99532604 MsaT040368.1:CDS
ATCGCCGTAGCCACAATACC+CGG 0.586901 7:+99532600 None:intergenic
AATGGAATGAAGCCGAGAAG+AGG 0.595307 7:-99532519 MsaT040368.1:CDS
GAAACTCTAATATGAGTCGA+AGG 0.595574 7:+99532670 None:intergenic
TCGTTGTTCCTCGACATCCA+TGG 0.607781 7:+99533712 None:intergenic
TTCATCATCAAAGAGATCAT+GGG 0.607963 7:+99532874 None:intergenic
AGATGGTACTATCAGGACTT+GGG 0.627841 7:-99533295 MsaT040368.1:CDS
GCAAAGACTTCAAGGAGACC+GGG 0.633254 7:-99532618 MsaT040368.1:CDS
AATTGCGGCCATGGATGTCG+AGG 0.639683 7:-99533720 MsaT040368.1:CDS
GAATGAAGCCGAGAAGAGGA+GGG 0.646762 7:-99532515 MsaT040368.1:CDS
GGATGATTGGAGTTCAATGG+CGG 0.648745 7:-99533460 MsaT040368.1:CDS
ATCCGTGGGTCATACTCACA+CGG 0.649413 7:-99532703 MsaT040368.1:CDS
GTGTGAGTATGACCCACGGA+TGG 0.652577 7:+99532705 None:intergenic
AAACTGTATTCACCAGTGGT+GGG 0.659751 7:-99533414 MsaT040368.1:CDS
CAATATTATGGAGAGTGCAA+GGG 0.660822 7:-99533390 MsaT040368.1:CDS
GACCGTGTGAGTATGACCCA+CGG 0.674066 7:+99532701 None:intergenic
AGTGAAACTGTATTCACCAG+TGG 0.687068 7:-99533418 MsaT040368.1:CDS
ATATGAGTCGAAGGTCTGAG+AGG 0.697705 7:+99532679 None:intergenic
GAGGCGACTACAAGTCCGGG+TGG 0.737253 7:-99532555 MsaT040368.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 99532507 99533750 99532507 ID=MsaG040368
Chr7 mRNA 99532507 99533750 99532507 ID=MsaT040368.1;Parent=MsaG040368
Chr7 exon 99532507 99532920 99532507 ID=MsaT040368.1.exon3;Parent=MsaT040368.1
Chr7 CDS 99532507 99532920 99532507 ID=cds.MsaT040368.1;Parent=MsaT040368.1
Chr7 exon 99533275 99533482 99533275 ID=MsaT040368.1.exon2;Parent=MsaT040368.1
Chr7 CDS 99533275 99533482 99533275 ID=cds.MsaT040368.1;Parent=MsaT040368.1
Chr7 exon 99533617 99533750 99533617 ID=MsaT040368.1.exon1;Parent=MsaT040368.1
Chr7 CDS 99533617 99533750 99533617 ID=cds.MsaT040368.1;Parent=MsaT040368.1
Gene Sequence

>MsaT040368.1

ATGGAAGCAATTGCGGCCATGGATGTCGAGGAACAACGACCTTTTCCCATACCCAACAACGTTAAACGCTTCGGTCTTAAAAACTCTATCCAAACTAATTTCGGTGACGATTATGTTTTCCAAATCATCCCAAAGGATGATTGGAGTTCAATGGCGGTTTCACTTTCGACGAACGCAGTGAAACTGTATTCACCAGTGGTGGGTCAATATTATGGAGAGTGCAAGGGTCACACTGCAACTATCAATCAGATTTTGTTTTCGGGTCATTCTAATCCCAATATTCTAAGCTCTTGTTCTTCAGATGGTACTATCAGGACTTGGGACACAAGAACATTTCAACAGGTTTCTATTATCAATGCAAATAGGCCCATGATCTCTTTGATGATGAATGTTGAGAAAAAGAACATGAAGAAGGCTGACAGTAATGAAGAATCCGAGAAGCCCAACTTTCATTTTGAGTCTTCAAAAGAGATTCAAGTTCAACATGATAGCAAAGCAACAGCAACTTTGGAGACTGAGACTCATTTTTCAAGTTCCATCCGTGGGTCATACTCACACGGTCCTCTCAGACCTTCGACTCATATTAGAGTTTCATCAAGAATCGATTATCAACCTGACATATGCAAAGACTTCAAGGAGACCGGGTATTGTGGCTACGGCGATTCATGCAAGTTTCTTCACGACCGAGGCGACTACAAGTCCGGGTGGCAGTTGGACAAAGAATGGAATGAAGCCGAGAAGAGGAGGGTGCGCTGA
Protein sequence

>MsaT040368.1

MEAIAAMDVEEQRPFPIPNNVKRFGLKNSIQTNFGDDYVFQIIPKDDWSSMAVSLSTNAVKLYSPVVGQYYGECKGHTATINQILFSGHSNPNILSSCSSDGTIRTWDTRTFQQVSIINANRPMISLMMNVEKKNMKKADSNEESEKPNFHFESSKEIQVQHDSKATATLETETHFSSSIRGSYSHGPLRPSTHIRVSSRIDYQPDICKDFKETGYCGYGDSCKFLHDRGDYKSGWQLDKEWNEAEKRRVR*