AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG015006

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015006 MtrunA17_Chr3g0113131 88.197 305 24 2 15 319 85 377 2.31e-174 488
MsaG015006 MtrunA17_Chr2g0280431 35.855 304 158 10 16 304 124 405 5.37e-37 137
MsaG015006 MtrunA17_Chr1g0191021 35.294 119 73 2 66 181 73 190 1.11e-14 73.9
MsaG015006 MtrunA17_Chr7g0273821 33.036 112 67 2 91 194 111 222 1.46e-13 70.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015006 AT4G25210.1 34.641 306 159 12 31 315 83 368 5.60e-25 103
MsaG015006 AT1G11510.1 39.597 149 84 2 46 191 93 238 1.10e-23 99.8
MsaG015006 AT4G00390.1 38.462 143 82 3 58 199 124 261 5.74e-23 98.2
MsaG015006 AT1G61730.1 38.509 161 79 5 32 189 111 254 6.90e-23 98.2
MsaG015006 AT1G11510.2 43.182 132 64 3 63 191 86 209 5.74e-22 94.7
MsaG015006 AT4G01260.1 35.754 179 97 6 23 186 33 208 5.84e-19 86.3
MsaG015006 AT4G00250.1 33.880 183 111 3 28 205 52 229 1.33e-18 85.1
MsaG015006 AT2G25650.1 30.769 156 100 2 93 245 67 217 2.17e-16 79.7
MsaG015006 AT5G14280.1 41.748 103 55 2 84 181 52 154 8.09e-15 74.3
MsaG015006 AT1G66420.1 30.882 136 90 1 47 182 43 174 2.75e-14 72.4
MsaG015006 AT4G00238.1 32.051 156 98 3 6 153 47 202 3.16e-14 72.8
MsaG015006 AT4G00270.1 33.929 112 71 1 93 201 66 177 1.38e-13 70.5
MsaG015006 AT5G28040.2 30.601 183 106 7 32 202 75 248 3.51e-13 70.1
MsaG015006 AT5G28040.1 30.601 183 106 7 32 202 75 248 3.51e-13 70.1
MsaG015006 AT2G01370.1 35.714 98 62 1 85 181 74 171 3.66e-13 68.6
MsaG015006 AT1G44810.1 32.847 137 72 4 47 182 93 210 9.29e-13 68.2
MsaG015006 AT3G04930.2 34.615 104 58 4 91 186 138 239 1.29e-11 65.5
MsaG015006 AT3G04930.1 34.694 98 55 3 91 181 138 233 1.48e-11 65.5
MsaG015006 AT4G00610.1 30.935 139 80 5 44 181 110 233 5.74e-11 63.2

Find 83 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTCAATGCATCCCTTATTT+TGG 0.209798 3:+81453736 None:intergenic
AGGAAACAGCTACCAAAATA+AGG 0.258688 3:-81453748 MsaT015006.1:CDS
GAAGAGAATGGGAAAGTTAA+TGG 0.265828 3:-81454082 MsaT015006.1:CDS
GGAGGATACTGGTTTGAGTT+TGG 0.293728 3:-81453927 MsaT015006.1:CDS
TTGAGCTTTCGAAGAAGATT+TGG 0.299730 3:-81454135 MsaT015006.1:CDS
GTTGATTTCACTGCCAAATC+AGG 0.313777 3:-81454334 MsaT015006.1:CDS
GGCAGGTGCTATGGAGGATT+TGG 0.320231 3:+81454543 None:intergenic
TGAGCTTTCGAAGAAGATTT+GGG 0.331143 3:-81454134 MsaT015006.1:CDS
AGCGAGGACAACTAAGAAAT+TGG 0.352971 3:-81454017 MsaT015006.1:CDS
AGTAGGATCATTCCCTGATT+TGG 0.362230 3:+81454321 None:intergenic
AGCAGCCGGTTCCTTCTTCC+CGG 0.367777 3:+81454054 None:intergenic
AAAACCACCAATGGTGAATC+AGG 0.369727 3:+81453986 None:intergenic
AGGACGTTTGGTTCCAGATC+TGG 0.379033 3:+81454522 None:intergenic
ATCAATTGCGCGATAAGGTT+CGG 0.379484 3:-81454237 MsaT015006.1:CDS
TCCATAGCACCTGCCAGATC+TGG 0.379820 3:-81454535 MsaT015006.1:CDS
GAATTCATCATCAAGCCATT+AGG 0.384003 3:-81453717 None:intergenic
GTCTTTGACGGCGGCGGTGG+CGG 0.397838 3:+81454846 None:intergenic
GCTTGATCAATTGCGCGATA+AGG 0.398297 3:-81454242 MsaT015006.1:CDS
TAAGTACAGAATTGCTGAAA+TGG 0.402227 3:-81453801 MsaT015006.1:CDS
CTCTTCACCACATCTATAAC+CGG 0.406554 3:+81453878 None:intergenic
CGGTGGTGGGTCGTCTTTGA+CGG 0.412587 3:+81454834 None:intergenic
TCCAGATCTGGCAGGTGCTA+TGG 0.412895 3:+81454534 None:intergenic
CTTCTTCTTGTTCTTCTCCT+CGG 0.418262 3:+81454456 None:intergenic
GGAATCAAAGAAGGGTGAAT+TGG 0.425083 3:-81453837 MsaT015006.1:CDS
GCGGCTGCTTTCTTAGCAGC+CGG 0.430843 3:+81454040 None:intergenic
GATGAGGTTGCAATTCTTCA+AGG 0.431860 3:-81454361 MsaT015006.1:CDS
GTCGTCTTTGACGGCGGCGG+TGG 0.432622 3:+81454843 None:intergenic
TTGTTATTGTCATCCTCCTC+CGG 0.454682 3:+81454424 None:intergenic
AAGAGAATGGGAAAGTTAAT+GGG 0.461323 3:-81454081 MsaT015006.1:CDS
GGAAACAGCTACCAAAATAA+GGG 0.466999 3:-81453747 MsaT015006.1:CDS
AGGAAGGTGGACCGTGGTAA+TGG 0.469415 3:-81453953 MsaT015006.1:CDS
GGTAATGGAAAGGAGGATAC+TGG 0.473524 3:-81453938 MsaT015006.1:CDS
GAAGGCCGGGAAGAAGGAAC+CGG 0.476484 3:-81454059 MsaT015006.1:CDS
CTCCTCTACCGGCTTCGAAA+AGG 0.495702 3:+81454165 None:intergenic
GCGATAAGGTTCGGAGGTTG+AGG 0.498254 3:-81454228 MsaT015006.1:CDS
AAAGCCGATAGATGCTTAGT+AGG 0.500619 3:+81454304 None:intergenic
TCAAACATTGTCTCCTCTAC+CGG 0.506681 3:+81454154 None:intergenic
TGGTGGGTCGTCTTTGACGG+CGG 0.508266 3:+81454837 None:intergenic
CGAGGAGAAGAACAAGAAGA+AGG 0.508520 3:-81454455 MsaT015006.1:CDS
TTTGAGAATAAATGTAAGAG+TGG 0.508621 3:-81454199 MsaT015006.1:CDS
CAAGAAGAAGGAGAAAGAGC+CGG 0.511218 3:-81454443 MsaT015006.1:CDS
GTCGATCGAGGAATCAAAGA+AGG 0.512248 3:-81453846 MsaT015006.1:CDS
TCGAAGAAGATTTGGGGTGG+TGG 0.514670 3:-81454127 MsaT015006.1:CDS
GGGAAAGTTAATGGGAAGGC+CGG 0.514683 3:-81454073 MsaT015006.1:CDS
TTAATGAAGGTGAAGAGAAT+GGG 0.515992 3:-81454093 MsaT015006.1:CDS
TAATGGGAAGGCCGGGAAGA+AGG 0.516314 3:-81454065 MsaT015006.1:CDS
GGTTATAGATGTGGTGAAGA+GGG 0.520148 3:-81453876 MsaT015006.1:CDS
AGATGTGGTGAAGAGGGGAG+TGG 0.520696 3:-81453870 MsaT015006.1:CDS
GTTAATGAAGGTGAAGAGAA+TGG 0.522303 3:-81454094 MsaT015006.1:CDS
GGAGCCTGATTCACCATTGG+TGG 0.527617 3:-81453990 MsaT015006.1:CDS
GAAGGAGAAAGAGCCGGAGG+AGG 0.534312 3:-81454437 MsaT015006.1:CDS
TTGATTTCACTGCCAAATCA+GGG 0.541120 3:-81454333 MsaT015006.1:CDS
GTTTATGCAGAAAACTGAGT+TGG 0.544369 3:-81453774 MsaT015006.1:CDS
TGGGTCGTCTTTGACGGCGG+CGG 0.548251 3:+81454840 None:intergenic
CGGTTATAGATGTGGTGAAG+AGG 0.554197 3:-81453877 MsaT015006.1:CDS
TTGAGAATAAATGTAAGAGT+GGG 0.554852 3:-81454198 MsaT015006.1:CDS
TGATCCTACTAAGCATCTAT+CGG 0.559423 3:-81454308 MsaT015006.1:CDS
GCAGAAAACTGAGTTGGCTA+AGG 0.559486 3:-81453768 MsaT015006.1:CDS
ATGAGGTTGCAATTCTTCAA+GGG 0.562519 3:-81454360 MsaT015006.1:CDS
GACAACTAAGAAATTGGTGA+TGG 0.569729 3:-81454011 MsaT015006.1:CDS
GAAGAAACTTCATCAGAAGC+AGG 0.578349 3:-81454775 MsaT015006.1:intron
GATGGAGCCTGATTCACCAT+TGG 0.580880 3:-81453993 MsaT015006.1:CDS
GAAGAAGGAGAAAGAGCCGG+AGG 0.582776 3:-81454440 MsaT015006.1:CDS
GGAAAGTTAATGGGAAGGCC+GGG 0.583565 3:-81454072 MsaT015006.1:CDS
CGTTTGGTTCCAGATCTGGC+AGG 0.590921 3:+81454526 None:intergenic
CTTTCGAAGAAGATTTGGGG+TGG 0.593102 3:-81454130 MsaT015006.1:CDS
GGTAAAGTTGATGTTAATGA+AGG 0.597345 3:-81454106 MsaT015006.1:CDS
AGATCTGGCAGGTGCTATGG+AGG 0.603253 3:+81454537 None:intergenic
GTTATAGATGTGGTGAAGAG+GGG 0.624491 3:-81453875 MsaT015006.1:CDS
CTAAGAAAGCAGCCGCAGCG+AGG 0.632166 3:-81454033 MsaT015006.1:CDS
GGTGGACCGTGGTAATGGAA+AGG 0.637313 3:-81453948 MsaT015006.1:CDS
TATCCTCCTTTCCATTACCA+CGG 0.639577 3:+81453942 None:intergenic
GAGCTTTCGAAGAAGATTTG+GGG 0.640229 3:-81454133 MsaT015006.1:CDS
GAATGGGAAAGTTAATGGGA+AGG 0.645155 3:-81454077 MsaT015006.1:CDS
GAGGGGAGTGGAGTCGATCG+AGG 0.647001 3:-81453858 MsaT015006.1:CDS
TTTGAAGGAAAATAGGAAGG+TGG 0.647969 3:-81453966 MsaT015006.1:CDS
TCGATCGAGGAATCAAAGAA+GGG 0.651934 3:-81453845 MsaT015006.1:CDS
GGACCGTGGTAATGGAAAGG+AGG 0.655825 3:-81453945 MsaT015006.1:CDS
TTTCTTAGTTGTCCTCGCTG+CGG 0.659586 3:+81454021 None:intergenic
AATTGCGCGATAAGGTTCGG+AGG 0.671494 3:-81454234 MsaT015006.1:CDS
TCTACCGGCTTCGAAAAGGT+AGG 0.695810 3:+81454169 None:intergenic
GAAAATAGGAAGGTGGACCG+TGG 0.713258 3:-81453959 MsaT015006.1:CDS
GAATAAGAAGAAAACAACCG+AGG 0.718310 3:-81454473 MsaT015006.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 81453718 81454884 81453718 ID=MsaG015006
Chr3 mRNA 81453718 81454884 81453718 ID=MsaT015006.1;Parent=MsaG015006
Chr3 exon 81453718 81454568 81453718 ID=MsaT015006.1.exon2;Parent=MsaT015006.1
Chr3 CDS 81453718 81454568 81453718 ID=cds.MsaT015006.1;Parent=MsaT015006.1
Chr3 exon 81454776 81454884 81454776 ID=MsaT015006.1.exon1;Parent=MsaT015006.1
Chr3 CDS 81454776 81454884 81454776 ID=cds.MsaT015006.1;Parent=MsaT015006.1
Gene Sequence

>MsaT015006.1

ATGGCAAAGAAAAACTCCGCCACCGCCGCCGTCAAAGACGACCCACCACCGCAAGAAGACAAAATCGAACAACAAGATGAAAACGACGAAGAAACTTCATCAGAAGCAGGAACCAAATCCTCCATAGCACCTGCCAGATCTGGAACCAAACGTCCTGCTGAAAACAACGACGCGAAACAATCGAATAAGAAGAAAACAACCGAGGAGAAGAACAAGAAGAAGGAGAAAGAGCCGGAGGAGGATGACAATAACAATAACAAGAAAGCGTCGTTTCAGAGAGTTTTCACGGAGGATGATGAGGTTGCAATTCTTCAAGGGCTTGTTGATTTCACTGCCAAATCAGGGAATGATCCTACTAAGCATCTATCGGCTTTTTACCAAATTGTGAAAAAGTCAGTTCATTTTAAAGTTACGCTTGATCAATTGCGCGATAAGGTTCGGAGGTTGAGGCTGAAGTTTGAGAATAAATGTAAGAGTGGGAAGACTCCTACCTTTTCGAAGCCGGTAGAGGAGACAATGTTTGAGCTTTCGAAGAAGATTTGGGGTGGTGGTAAAGTTGATGTTAATGAAGGTGAAGAGAATGGGAAAGTTAATGGGAAGGCCGGGAAGAAGGAACCGGCTGCTAAGAAAGCAGCCGCAGCGAGGACAACTAAGAAATTGGTGATGGAGCCTGATTCACCATTGGTGGTTTTGAAGGAAAATAGGAAGGTGGACCGTGGTAATGGAAAGGAGGATACTGGTTTGAGTTTGGATTCGAATGAAATGATTCATTTTGAGCCGGTTATAGATGTGGTGAAGAGGGGAGTGGAGTCGATCGAGGAATCAAAGAAGGGTGAATTGGAGAGATTGATGAATAAGTACAGAATTGCTGAAATGGAGCTGTTTATGCAGAAAACTGAGTTGGCTAAGGAAACAGCTACCAAAATAAGGGATGCATTGAATTCATCATCAAGCCATTAG
Protein sequence

>MsaT015006.1

MAKKNSATAAVKDDPPPQEDKIEQQDENDEETSSEAGTKSSIAPARSGTKRPAENNDAKQSNKKKTTEEKNKKKEKEPEEDDNNNNKKASFQRVFTEDDEVAILQGLVDFTAKSGNDPTKHLSAFYQIVKKSVHFKVTLDQLRDKVRRLRLKFENKCKSGKTPTFSKPVEETMFELSKKIWGGGKVDVNEGEENGKVNGKAGKKEPAAKKAAAARTTKKLVMEPDSPLVVLKENRKVDRGNGKEDTGLSLDSNEMIHFEPVIDVVKRGVESIEESKKGELERLMNKYRIAEMELFMQKTELAKETATKIRDALNSSSSH*