AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG032539

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG032539 MtrunA17_Chr3g0081131 57.778 315 113 4 1 314 1 296 2.86e-105 309
MsaG032539 MtrunA17_Chr3g0081121 58.224 304 112 5 13 314 13 303 2.41e-101 299
MsaG032539 MtrunA17_Chr3g0081141 53.583 321 126 7 1 314 1 305 8.08e-94 280
MsaG032539 MtrunA17_Chr3g0079671 50.482 311 127 8 14 314 14 307 5.16e-83 253
MsaG032539 MtrunA17_Chr7g0224221 42.254 355 135 13 1 304 1 336 2.95e-67 214
MsaG032539 MtrunA17_Chr7g0222661 43.789 322 139 10 1 314 1 288 1.04e-62 200
MsaG032539 MtrunA17_Chr7g0222671 42.791 215 76 7 1 213 1 170 1.79e-41 142
MsaG032539 MtrunA17_Chr5g0396031 37.872 235 80 7 95 276 40 261 1.62e-30 118
MsaG032539 MtrunA17_Chr5g0396031 48.611 144 65 5 177 314 247 387 2.86e-20 90.1
MsaG032539 MtrunA17_Chr7g0224071 44.667 150 73 7 172 314 14 160 1.55e-19 84.3
MsaG032539 MtrunA17_Chr7g0224061 43.333 150 76 6 172 314 14 161 2.61e-18 80.9
MsaG032539 MtrunA17_Chr1g0207451 37.349 83 36 1 59 125 71 153 5.33e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG032539 AT2G37430.1 37.500 88 40 2 60 132 36 123 5.23e-12 63.9
MsaG032539 AT5G43170.1 38.462 91 41 3 46 125 54 140 6.34e-11 61.2

Find 64 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTTGTGTCGTTGAGAAATA+TGG 0.220817 6:-54989061 MsaT032539.1:CDS
TTGGCGGCGCAGCTAATTTA+AGG 0.235719 6:-54989005 MsaT032539.1:CDS
AATATGGGAATCGGTAATAA+TGG 0.273402 6:-54989045 MsaT032539.1:CDS
CATGGTTCAAATAATAAAAT+TGG 0.279681 6:-54988976 MsaT032539.1:CDS
AGGTATGATCGCGGTGCTTT+TGG 0.305418 6:-54989270 MsaT032539.1:CDS
CCAAGTGACCTATAATTATA+AGG 0.345502 6:+54989192 None:intergenic
ATATGGGAATCGGTAATAAT+GGG 0.352530 6:-54989044 MsaT032539.1:CDS
ATGGTTACCCCAGACAGTTT+TGG 0.361060 6:-54989126 MsaT032539.1:CDS
GATAGAATCACAAAATCAAT+AGG 0.366739 6:+54989585 None:intergenic
CAACTATACCCAAAACTGTC+TGG 0.371704 6:+54989117 None:intergenic
GTACTTGAATAACTACGATA+TGG 0.394297 6:+54989225 None:intergenic
ACCGTCCGATTCTGACTCTT+CGG 0.398491 6:-54988815 MsaT032539.1:CDS
AGAATATCGTTTCTTGCAAA+AGG 0.407785 6:+54989395 None:intergenic
AGAATATCGTTTATTGCAAA+AGG 0.407785 6:+54989491 None:intergenic
GGGTAACCATAGGGTTATAA+GGG 0.408071 6:+54989139 None:intergenic
AATAATGGGGTTGAAAATCT+AGG 0.417861 6:-54989030 MsaT032539.1:CDS
GGTAGAGAAGCTGGAGGATT+CGG 0.421870 6:+54989704 None:intergenic
CCTTATAATTATAGGTCACT+TGG 0.424341 6:-54989192 MsaT032539.1:CDS
TTGTTGTTCTCATCTATCCC+TGG 0.426466 6:+54989552 None:intergenic
CAACAAAGAAGAGAAGAATT+CGG 0.431264 6:-54989535 MsaT032539.1:CDS
CCGTCCGATTCTGACTCTTC+GGG 0.445756 6:-54988814 MsaT032539.1:CDS
AACTATACCCAAAACTGTCT+GGG 0.447137 6:+54989118 None:intergenic
GGACGGTTCTTCTTCAATGT+TGG 0.455013 6:+54988831 None:intergenic
GGGGTAACCATAGGGTTATA+AGG 0.462880 6:+54989138 None:intergenic
GGGGTTGAAAATCTAGGTAT+TGG 0.472243 6:-54989024 MsaT032539.1:CDS
CTTATAATTATAGGTCACTT+GGG 0.475163 6:-54989191 MsaT032539.1:CDS
AGAAAGAACAAGTTCAATCC+TGG 0.480384 6:-54989626 MsaT032539.1:CDS
TTGTGAAGTGGTAGAGAAGC+TGG 0.481970 6:+54989695 None:intergenic
TATTCTACTGCACAAGCGTT+GGG 0.488486 6:-54989378 MsaT032539.1:CDS
TATTCTACTGCACAAGCGTT+GGG 0.488486 6:-54989474 MsaT032539.1:CDS
AAAGGAGCATGAGAAAGATC+TGG 0.489039 6:+54989509 None:intergenic
ATTCTATCGAAAGACGATCC+AGG 0.500043 6:-54989570 MsaT032539.1:CDS
CTTGTGTCGTTGAGAAATAT+GGG 0.502020 6:-54989060 MsaT032539.1:CDS
GGTAACCATAGGGTTATAAG+GGG 0.503842 6:+54989140 None:intergenic
AAACTGTCTGGGGTAACCAT+AGG 0.512619 6:+54989129 None:intergenic
TAGAGAAAAGCAAGTTATTG+TGG 0.525521 6:-54988896 MsaT032539.1:CDS
TCTCCTTCCTATGAGCGCTC+TGG 0.526806 6:+54989445 None:intergenic
TCGTTGAGAAATATGGGAAT+CGG 0.528845 6:-54989054 MsaT032539.1:CDS
GAGGACACCAGAGCGCTCAT+AGG 0.532993 6:-54989452 MsaT032539.1:CDS
GTTGAAAATCTAGGTATTGG+CGG 0.536047 6:-54989021 MsaT032539.1:CDS
AACTGTCTGGGGTAACCATA+GGG 0.541676 6:+54989130 None:intergenic
GAGGACACAAGACCGCTCAT+AGG 0.547668 6:-54989356 MsaT032539.1:CDS
ATATTCTACTGCACAAGCGT+TGG 0.562358 6:-54989379 MsaT032539.1:CDS
ATATTCTACTGCACAAGCGT+TGG 0.562358 6:-54989475 MsaT032539.1:CDS
ACACCAGAGCGCTCATAGGA+AGG 0.562791 6:-54989448 MsaT032539.1:CDS
TGTGGCTTCTAATTCTTCCG+AGG 0.565742 6:-54988878 MsaT032539.1:CDS
ATCACTTTGATCTTGTGAAG+TGG 0.572961 6:+54989683 None:intergenic
ACACAAGACCGCTCATAGGA+AGG 0.576634 6:-54989352 MsaT032539.1:CDS
TTCTATCGAAAGACGATCCA+GGG 0.582119 6:-54989569 MsaT032539.1:CDS
AAGACCCGAAGAGTCAGAAT+CGG 0.585396 6:+54988810 None:intergenic
TTATAATTATAGGTCACTTG+GGG 0.595180 6:-54989190 MsaT032539.1:CDS
ATATTTCTCAACGACACAAG+TGG 0.599388 6:+54989063 None:intergenic
TTGATCACGAATGTCATCCT+CGG 0.606030 6:+54988861 None:intergenic
ATCAAGTTCCTTCCTATGAG+CGG 0.624825 6:+54989344 None:intergenic
TATGGGAATCGGTAATAATG+GGG 0.627225 6:-54989043 MsaT032539.1:CDS
ACTATACCCAAAACTGTCTG+GGG 0.630550 6:+54989119 None:intergenic
GTAACCATAGGGTTATAAGG+GGG 0.632981 6:+54989141 None:intergenic
GCTAATTTAAGGATCGAACA+TGG 0.633859 6:-54988994 MsaT032539.1:CDS
TTCTCAACGACACAAGTGGA+TGG 0.638065 6:+54989067 None:intergenic
CCCGAAGAGTCAGAATCGGA+CGG 0.672283 6:+54988814 None:intergenic
TCTACTGCACAAGCGTTGGG+AGG 0.691089 6:-54989375 MsaT032539.1:CDS
TCTACTGCACAAGCGTTGGG+AGG 0.691089 6:-54989471 MsaT032539.1:CDS
TGAAGTGGTAGAGAAGCTGG+AGG 0.727401 6:+54989698 None:intergenic
CATAAACAAAGGTATGATCG+CGG 0.728571 6:-54989279 MsaT032539.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 54988789 54989733 54988789 ID=MsaG032539
Chr6 mRNA 54988789 54989733 54988789 ID=MsaT032539.1;Parent=MsaG032539
Chr6 exon 54988789 54989733 54988789 ID=MsaT032539.1.exon1;Parent=MsaT032539.1
Chr6 CDS 54988789 54989733 54988789 ID=cds.MsaT032539.1;Parent=MsaT032539.1
Gene Sequence

>MsaT032539.1

ATGGTATCCGAATCCTCCAGCTTCTCTACCACTTCACAAGATCAAAGTGATTCTTCTCACTCGAAAAAAGTAGTGGACATGAAGGAGAAAGAACAAGTTCAATCCTGGAAATCAAAATCCAAAAAGCCTATTGATTTTGTGATTCTATCGAAAGACGATCCAGGGATAGATGAGAACAACAAAGAAGAGAAGAATTCGGATTCCAGATCTTTCTCATGCTCCTTTTGCAATAAACGATATTCTACTGCACAAGCGTTGGGAGGACACCAGAGCGCTCATAGGAAGGAGAATTCAGATTCAAGATCTTTCTCATGCTCCTTTTGCAAGAAACGATATTCTACTGCACAAGCGTTGGGAGGACACAAGACCGCTCATAGGAAGGAACTTGATTTAGAAAAAGCTCACAAGAAGGAACAAGCTTTAGAAAAACAACATAAACAAAGGTATGATCGCGGTGCTTTTGGTTTAGGGAAATCTTACTTTGATCCATATCGTAGTTATTCAAGTACTCTTTTTACACCTTATAATTATAGGTCACTTGGGGTTAGCACAGACTCAATGATTCGAAAACCCCCTTATAACCCTATGGTTACCCCAGACAGTTTTGGGTATAGTTGTTCTTCTTTGTTGCAAGAGATAACACACCATCCACTTGTGTCGTTGAGAAATATGGGAATCGGTAATAATGGGGTTGAAAATCTAGGTATTGGCGGCGCAGCTAATTTAAGGATCGAACATGGTTCAAATAATAAAATTGGTGCTATTATGAAATTTAGAGATTCGTCTACAAATATTGCTACAAGTTCAAATTCAAATAGAGAAAAGCAAGTTATTGTGGCTTCTAATTCTTCCGAGGATGACATTCGTGATCAATCAAAGTCCAACATTGAAGAAGAACCGTCCGATTCTGACTCTTCGGGTCTTGATTTATCACTTAAGCTTTAA
Protein sequence

>MsaT032539.1

MVSESSSFSTTSQDQSDSSHSKKVVDMKEKEQVQSWKSKSKKPIDFVILSKDDPGIDENNKEEKNSDSRSFSCSFCNKRYSTAQALGGHQSAHRKENSDSRSFSCSFCKKRYSTAQALGGHKTAHRKELDLEKAHKKEQALEKQHKQRYDRGAFGLGKSYFDPYRSYSSTLFTPYNYRSLGVSTDSMIRKPPYNPMVTPDSFGYSCSSLLQEITHHPLVSLRNMGIGNNGVENLGIGGAANLRIEHGSNNKIGAIMKFRDSSTNIATSSNSNREKQVIVASNSSEDDIRDQSKSNIEEEPSDSDSSGLDLSLKL*