AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG003007

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003007 MtrunA17_Chr1g0180581 66.045 268 34 5 1 267 5 216 3.05e-108 317
MsaG003007 MtrunA17_Chr1g0180581 70.588 51 12 1 338 388 173 220 4.42e-12 65.1
MsaG003007 MtrunA17_Chr7g0214511 54.255 282 68 10 5 239 14 281 1.04e-77 241
MsaG003007 MtrunA17_Chr1g0193731 53.704 324 76 15 6 304 15 289 3.28e-77 240
MsaG003007 MtrunA17_Chr1g0193731 60.194 103 35 3 286 388 199 295 3.01e-19 87.4
MsaG003007 MtrunA17_Chr1g0180571 73.944 142 37 0 169 310 1 142 1.48e-56 182
MsaG003007 MtrunA17_Chr1g0180571 77.011 87 20 0 300 386 54 140 5.99e-33 120
MsaG003007 MtrunA17_Chr1g0169561 41.739 230 78 8 53 239 94 310 2.63e-34 129
MsaG003007 MtrunA17_Chr1g0169521 41.739 230 78 9 53 239 94 310 6.97e-33 125
MsaG003007 MtrunA17_Chr1g0174001 42.487 193 74 7 79 239 2 189 2.56e-30 115
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 46 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAAGAGAAAGAAGGGTATT+TGG 0.170547 1:-50433726 None:intergenic
AATGAAGGTGAAACAGAATT+AGG 0.205798 1:+50434310 MsaT003007.1:CDS
CTTAGCGCTTGCCGTTTCTT+AGG 0.266834 1:-50434001 None:intergenic
AACCAAGACGAGTAACTAAT+TGG 0.277922 1:-50434824 None:intergenic
AAAGAGAAAGAAGGGTATTT+GGG 0.313760 1:-50433725 None:intergenic
TGAATCACCGTGGTGCTAAA+AGG 0.329449 1:+50434128 MsaT003007.1:CDS
TCTTGCCTTTAGCACTTGTT+AGG 0.330732 1:-50434219 None:intergenic
TAATAATAAGAAGAAGAATA+AGG 0.392213 1:+50434183 MsaT003007.1:CDS
TCATCTTCAAAATCATCATT+TGG 0.396579 1:-50434799 None:intergenic
ACTTCTAACAAAGCTTTGAA+TGG 0.400226 1:+50433908 MsaT003007.1:CDS
ATGAAGGTGAAACAGAATTA+GGG 0.423059 1:+50434311 MsaT003007.1:CDS
ACGGTGATTCACATTGATAT+TGG 0.425196 1:-50434116 None:intergenic
TATTCTGTTCCTAATGATGC+TGG 0.432407 1:+50433842 MsaT003007.1:CDS
TCTTCAACAACTAATGATGC+TGG 0.461941 1:+50433791 MsaT003007.1:CDS
GAAGCTATGATGAACATGAT+TGG 0.471650 1:-50433693 None:intergenic
CTGGAAAACAGAAGATCATA+TGG 0.475072 1:+50433810 MsaT003007.1:CDS
GAACTTGCTGCTTCTAATCA+TGG 0.484514 1:+50434268 MsaT003007.1:CDS
AAATTCTTTACATCATAACT+TGG 0.493765 1:-50434370 None:intergenic
GAAGAGAAGAAGATTAATGA+AGG 0.510676 1:+50434295 MsaT003007.1:CDS
AATCAATGAAAGAGAAAGAA+GGG 0.516168 1:-50433733 None:intergenic
TCAAACATCACATGATTGCA+AGG 0.516927 1:+50434246 MsaT003007.1:CDS
AAATTCTTCACACCATCACT+TGG 0.521646 1:-50434682 None:intergenic
ATCTTCCTCTGCAAGCTATG+AGG 0.522500 1:+50433964 MsaT003007.1:CDS
TATATCTCGTGGCAGTTTCG+AGG 0.528199 1:+50434084 MsaT003007.1:CDS
GCGTTCCTAACAAGTGCTAA+AGG 0.537225 1:+50434214 MsaT003007.1:CDS
CTTCAAAATCATCATTTGGA+AGG 0.542987 1:-50434795 None:intergenic
TAATCAATGAAAGAGAAAGA+AGG 0.544898 1:-50433734 None:intergenic
TCATAGCTTGCAGAGGAAGA+TGG 0.548781 1:-50433962 None:intergenic
AAATTCTTCAAATCATCACT+TGG 0.555556 1:-50434487 None:intergenic
AAATTCTTCAAATCATCACT+TGG 0.555556 1:-50434604 None:intergenic
AAATTCTTCAAATCATCACT+TGG 0.555556 1:-50434721 None:intergenic
ACTTTCTACCACCTAAGAAA+CGG 0.555851 1:+50433990 MsaT003007.1:CDS
AGATTCTTCACATCATCACT+TGG 0.563672 1:-50434409 None:intergenic
AAATTCTTCACATCATCACT+TGG 0.564670 1:-50434526 None:intergenic
AAATTCTTCACATCATCACT+TGG 0.564670 1:-50434565 None:intergenic
AAATTCTTCACATCATCACT+TGG 0.564670 1:-50434643 None:intergenic
AAATTCTTCACATCATCACT+TGG 0.564670 1:-50434760 None:intergenic
TTCATGTGATGTTTGCAACA+AGG 0.571040 1:+50433880 MsaT003007.1:CDS
AAGTTCTTCACATCTTCACT+TGG 0.571410 1:-50434448 None:intergenic
AGCGCTTGCCGTTTCTTAGG+TGG 0.574629 1:-50433998 None:intergenic
ATATCTCGTGGCAGTTTCGA+GGG 0.586568 1:+50434085 MsaT003007.1:CDS
TTGAACGAGCTTCCAAGTGA+TGG 0.606720 1:+50434670 MsaT003007.1:CDS
GAGGAAGATGGTGCAACAGT+TGG 0.627306 1:-50433950 None:intergenic
ACTCTGTTGCATATATCTCG+TGG 0.667189 1:+50434073 MsaT003007.1:CDS
GTGATCCTCATAGCTTGCAG+AGG 0.672732 1:-50433969 None:intergenic
AATATCAATGTGAATCACCG+TGG 0.777866 1:+50434118 MsaT003007.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 50433665 50434831 50433665 ID=MsaG003007
Chr1 mRNA 50433665 50434831 50433665 ID=MsaT003007.1;Parent=MsaG003007
Chr1 exon 50433665 50434831 50433665 ID=MsaT003007.1.exon1;Parent=MsaT003007.1
Chr1 CDS 50433665 50434831 50433665 ID=cds.MsaT003007.1;Parent=MsaT003007.1
Gene Sequence

>MsaT003007.1

ATGTCCTTTTCCGATCATAAACCAAAAACCAATCATGTTCATCATAGCTTCCTTCAAAAACCCAAATACCCTTCTTTCTCTTTCATTGATTATTCAAACCCTAATCATAACAAAACCAAAAACTTTTCTTCAACAACTAATGATGCTGGAAAACAGAAGATCATATGGTTTTTTTCTTATTCTGTTCCTAATGATGCTGGAAAACAAAAGAAACATTCATGTGATGTTTGCAACAAGGTTTTTACTTCTAACAAAGCTTTGAATGGACATATGATATGTCACTCACCAACTGTTGCACCATCTTCCTCTGCAAGCTATGAGGATCACTTTCTACCACCTAAGAAACGGCAAGCGCTAAGAAGTAGAAGAAGTTATGTGAGTAATGATGATGATACTATTGCAGCTGAAACTCTGTTGCATATATCTCGTGGCAGTTTCGAGGGATCAACTACCAATATCAATGTGAATCACCGTGGTGCTAAAAGGAAAAAACTTTTTTGCAATATGATGAATGATGATAATAATAAGAAGAAGAATAAGGAACAAGATGCGTTCCTAACAAGTGCTAAAGGCAAGATTTTTCAAACATCACATGATTGCAAGGAACTTGCTGCTTCTAATCATGGTATTGAAGAGAAGAAGATTAATGAAGGTGAAACAGAATTAGGGTCAAAAGTTGTGAAGAATTTTGATTTGAACGAGCTTCCAAGTTATGATGTAAAGAATTTTGATTTGAACGAGCTTCCAAGTGATGATGTGAAGAATCTTGATTTGAACGAGCTTCCAAGTGAAGATGTGAAGAACTTTGATTTAAACGAGCTTCCAAGTGATGATTTGAAGAATTTTTATTTGAACGAGCTTCCAAGTGATGATGTGAAGAATTTTGATTTGAACGAGCTTCCAAGTGATGATGTGAAGAATTTTGATTTAAACGAGCTTCCAAGTGATGATTTGAAGAATTTTTATTTGAACGAGCTTCCAAGTGATGATGTGAAGAATTTTGATTTGAACGAGCTTCCAAGTGATGGTGTGAAGAATTTTGATTTGAACGAGCTTCCAAGTGATGATTTGAAGAATTTTTATTTGAACGAGCTTCCAAGTGATGATGTGAAGAATTTTGATTTGAACGACCTTCCAAATGATGATTTTGAAGATGAAACCAATTAG
Protein sequence

>MsaT003007.1

MSFSDHKPKTNHVHHSFLQKPKYPSFSFIDYSNPNHNKTKNFSSTTNDAGKQKIIWFFSYSVPNDAGKQKKHSCDVCNKVFTSNKALNGHMICHSPTVAPSSSASYEDHFLPPKKRQALRSRRSYVSNDDDTIAAETLLHISRGSFEGSTTNINVNHRGAKRKKLFCNMMNDDNNKKKNKEQDAFLTSAKGKIFQTSHDCKELAASNHGIEEKKINEGETELGSKVVKNFDLNELPSYDVKNFDLNELPSDDVKNLDLNELPSEDVKNFDLNELPSDDLKNFYLNELPSDDVKNFDLNELPSDDVKNFDLNELPSDDLKNFYLNELPSDDVKNFDLNELPSDGVKNFDLNELPSDDLKNFYLNELPSDDVKNFDLNDLPNDDFEDETN*