AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG003347

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003347 MtrunA17_Chr1g0184271 94.737 190 5 1 1 185 45 234 2.18e-133 372
MsaG003347 MtrunA17_Chr7g0261031 61.413 184 56 7 1 175 41 218 7.85e-63 193
MsaG003347 MtrunA17_Chr7g0260971 69.444 72 22 0 1 72 47 118 1.00e-30 111
MsaG003347 MtrunA17_Chr1g0184281 67.647 68 22 0 1 68 48 115 4.55e-26 99.0
MsaG003347 MtrunA17_Chr8g0351701 64.286 70 25 0 1 70 56 125 7.46e-26 99.4
MsaG003347 MtrunA17_Chr7g0245871 60.256 78 25 1 1 78 60 131 1.73e-25 98.6
MsaG003347 MtrunA17_Chr5g0435641 61.429 70 27 0 1 70 40 109 2.00e-25 97.1
MsaG003347 MtrunA17_Chr6g0460951 39.355 155 81 4 1 149 73 220 2.96e-23 92.4
MsaG003347 MtrunA17_Chr8g0351721 58.571 70 29 0 1 70 51 120 4.09e-23 91.7
MsaG003347 MtrunA17_Chr3g0114061 42.727 110 57 3 1 107 40 146 1.34e-19 80.9
MsaG003347 MtrunA17_Chr7g0245861 63.636 55 20 0 1 55 47 101 1.59e-19 80.5
MsaG003347 MtrunA17_Chr2g0311601 58.730 63 26 0 1 63 45 107 4.05e-18 77.0
MsaG003347 MtrunA17_Chr4g0043421 53.623 69 32 0 1 69 47 115 9.75e-18 76.6
MsaG003347 MtrunA17_Chr5g0437571 58.730 63 26 0 1 63 38 100 1.15e-17 76.3
MsaG003347 MtrunA17_Chr4g0030001 35.484 124 70 2 2 118 58 178 1.18e-17 76.6
MsaG003347 MtrunA17_Chr5g0437401 49.296 71 36 0 1 71 43 113 3.96e-17 75.1
MsaG003347 MtrunA17_Chr3g0106101 55.556 63 28 0 1 63 39 101 4.13e-17 75.1
MsaG003347 MtrunA17_Chr5g0438091 51.471 68 33 0 1 68 71 138 1.39e-16 73.9
MsaG003347 MtrunA17_Chr3g0113891 49.254 67 34 0 1 67 46 112 2.82e-16 72.8
MsaG003347 MtrunA17_Chr3g0129071 53.030 66 31 0 1 66 79 144 5.83e-16 73.2
MsaG003347 MtrunA17_Chr7g0227511 35.385 130 76 1 1 122 43 172 7.20e-16 71.6
MsaG003347 MtrunA17_Chr1g0200201 52.941 68 30 1 2 69 105 170 2.50e-15 71.2
MsaG003347 MtrunA17_Chr3g0097221 47.143 70 37 0 1 70 39 108 3.83e-15 71.6
MsaG003347 MtrunA17_Chr3g0115431 50.000 70 35 0 1 70 41 110 3.91e-15 70.5
MsaG003347 MtrunA17_Chr4g0058651 40.625 96 52 1 1 96 43 133 3.14e-14 67.4
MsaG003347 MtrunA17_Chr6g0460941 58.182 55 23 0 1 55 40 94 3.92e-14 65.1
MsaG003347 MtrunA17_Chr7g0225111 44.286 70 39 0 1 70 37 106 7.06e-14 65.1
MsaG003347 MtrunA17_Chr6g0449641 46.774 62 33 0 1 62 41 102 1.08e-13 65.1
MsaG003347 MtrunA17_Chr3g0117121 50.000 62 31 0 1 62 42 103 1.36e-13 65.9
MsaG003347 MtrunA17_Chr5g0402611 47.143 70 37 0 1 70 40 109 2.33e-13 67.0
MsaG003347 MtrunA17_Chr5g0444351 43.243 74 40 1 1 74 37 108 5.15e-13 63.5
MsaG003347 MtrunA17_Chr6g0449651 45.161 62 34 0 1 62 99 160 6.47e-12 61.6
MsaG003347 MtrunA17_Chr5g0432451 56.250 48 21 0 1 48 75 122 2.32e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG003347 AT3G58190.1 46.277 188 80 5 1 184 44 214 1.35e-42 142
MsaG003347 AT2G42440.1 66.327 98 30 2 1 97 40 135 1.51e-34 122
MsaG003347 AT2G31310.1 47.101 138 59 3 1 137 40 164 6.19e-34 119
MsaG003347 AT2G42430.1 71.429 70 20 0 1 70 48 117 6.15e-30 110
MsaG003347 AT2G45420.1 70.000 70 21 0 1 70 70 139 8.58e-29 107
MsaG003347 AT4G00220.1 67.143 70 23 0 1 70 50 119 2.87e-26 100
MsaG003347 AT4G00210.1 64.706 68 24 0 1 68 44 111 6.20e-26 99.4
MsaG003347 AT3G03760.1 67.647 68 22 0 1 68 84 151 1.99e-25 99.4
MsaG003347 AT5G06080.1 63.235 68 25 0 1 68 40 107 7.69e-24 92.8
MsaG003347 AT2G45410.1 54.412 68 31 0 1 68 49 116 4.63e-21 85.9
MsaG003347 AT2G30130.1 57.143 63 27 0 1 63 40 102 2.42e-16 73.6
MsaG003347 AT1G07900.1 53.226 62 29 0 2 63 66 127 2.97e-16 73.6
MsaG003347 AT3G11090.1 38.384 99 60 1 1 99 43 140 3.56e-16 72.8
MsaG003347 AT1G16530.1 38.710 93 57 0 1 93 47 139 6.34e-16 72.0
MsaG003347 AT2G28500.1 53.226 62 29 0 2 63 88 149 1.21e-15 72.4
MsaG003347 AT3G27650.1 50.000 62 31 0 1 62 71 132 4.76e-15 69.3
MsaG003347 AT2G30340.1 44.304 79 44 0 1 79 84 162 1.93e-14 69.7
MsaG003347 AT2G30340.2 44.304 79 44 0 1 79 85 163 2.03e-14 69.7
MsaG003347 AT1G31320.1 52.727 55 26 0 1 55 45 99 2.62e-14 67.8
MsaG003347 AT5G63090.4 51.613 62 30 0 1 62 43 104 1.66e-13 65.9
MsaG003347 AT5G63090.3 51.613 62 30 0 1 62 43 104 1.66e-13 65.9
MsaG003347 AT5G63090.2 51.613 62 30 0 1 62 43 104 1.66e-13 65.9
MsaG003347 AT5G63090.1 51.613 62 30 0 1 62 43 104 1.66e-13 65.9
MsaG003347 AT2G23660.2 47.059 68 36 0 1 68 37 104 6.85e-13 65.9
MsaG003347 AT2G23660.3 47.059 68 36 0 1 68 37 104 6.85e-13 65.9
MsaG003347 AT2G23660.1 47.059 68 36 0 1 68 37 104 6.85e-13 65.9
MsaG003347 AT3G26660.1 40.000 70 42 0 1 70 37 106 9.55e-13 62.4
MsaG003347 AT3G26620.1 40.000 70 42 0 1 70 37 106 1.20e-12 62.0
MsaG003347 AT2G40470.2 56.250 48 21 0 1 48 52 99 9.31e-12 61.6
MsaG003347 AT2G40470.1 56.250 48 21 0 1 48 77 124 9.61e-12 62.0
MsaG003347 AT5G66870.1 45.714 70 38 0 1 70 39 108 3.58e-11 61.2

Find 32 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGACTTCAAGATCCTATTTA+TGG 0.149642 1:+55196838 MsaT003347.1:CDS
TCCCTAACAACACAATATTA+TGG 0.175683 1:+55197320 MsaT003347.1:CDS
TTGCCCAAGTTGGTGATTAT+TGG 0.182263 1:-55197267 None:intergenic
GACCTACATTCAGTGGCTTT+TGG 0.265454 1:+55197479 MsaT003347.1:CDS
TCCCATAATATTGTGTTGTT+AGG 0.288317 1:-55197322 None:intergenic
TGTGAAACACATCCATAAAT+AGG 0.289533 1:-55196850 None:intergenic
CCCTAACAACACAATATTAT+GGG 0.308981 1:+55197321 MsaT003347.1:CDS
GCTTCGCAACGATCACTTAC+AGG 0.338863 1:-55196784 None:intergenic
CCCATAATATTGTGTTGTTA+GGG 0.384449 1:-55197321 None:intergenic
GGTCAATTTACAAACACAAC+TGG 0.458520 1:+55197118 MsaT003347.1:CDS
GAAATTAAGAAACCTGTTGT+TGG 0.459258 1:-55196885 None:intergenic
AATTCCAATAATCACCAACT+TGG 0.477226 1:+55197263 MsaT003347.1:CDS
TTGAGGAGATGGAAACAAAC+AGG 0.496303 1:+55197429 MsaT003347.1:CDS
TCCCTCAAGATCTTCAAACT+TGG 0.513604 1:+55197228 MsaT003347.1:CDS
TAAGAAATTCTTGCCCAAGT+TGG 0.515236 1:-55197277 None:intergenic
ATTAAGAAACCTGTTGTTGG+AGG 0.525469 1:-55196882 None:intergenic
TGGAAACAAACAGGAGGACA+TGG 0.530351 1:+55197438 MsaT003347.1:CDS
ACATGGATCTAGACCCTATG+AGG 0.533013 1:+55197357 MsaT003347.1:CDS
AACCAAGTTTGAAGATCTTG+AGG 0.542420 1:-55197230 None:intergenic
ACCAAGTTTGAAGATCTTGA+GGG 0.556027 1:-55197229 None:intergenic
ATGGGGATTTGATGAAGTTG+AGG 0.564323 1:+55197457 MsaT003347.1:CDS
ATTCCAATAATCACCAACTT+GGG 0.570241 1:+55197264 MsaT003347.1:CDS
TTAAGAAACCTGTTGTTGGA+GGG 0.580635 1:-55196881 None:intergenic
CTTCGCAACGATCACTTACA+GGG 0.583775 1:-55196783 None:intergenic
GGAAACAAACAGGAGGACAT+GGG 0.607981 1:+55197439 MsaT003347.1:CDS
AGTTGAGGACCTACATTCAG+TGG 0.617361 1:+55197472 MsaT003347.1:CDS
TTCATAAGAGATTGTAACAG+CGG 0.623464 1:-55196806 None:intergenic
TCTTCAAACTTGGTTCCATG+TGG 0.625091 1:+55197238 MsaT003347.1:CDS
ATCCAAAAGCCACTGAATGT+AGG 0.630404 1:-55197481 None:intergenic
GAAACAAACAGGAGGACATG+GGG 0.658640 1:+55197440 MsaT003347.1:CDS
TGGGAACAATACTCTCAACA+TGG 0.666386 1:+55197340 MsaT003347.1:CDS
AGGAGATGGAAACAAACAGG+AGG 0.707810 1:+55197432 MsaT003347.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 55196704 55197511 55196704 ID=MsaG003347
Chr1 mRNA 55196704 55197511 55196704 ID=MsaT003347.1;Parent=MsaG003347
Chr1 exon 55196704 55196712 55196704 ID=MsaT003347.1.exon1;Parent=MsaT003347.1
Chr1 CDS 55196704 55196712 55196704 ID=cds.MsaT003347.1;Parent=MsaT003347.1
Chr1 exon 55196742 55196894 55196742 ID=MsaT003347.1.exon2;Parent=MsaT003347.1
Chr1 CDS 55196742 55196894 55196742 ID=cds.MsaT003347.1;Parent=MsaT003347.1
Chr1 exon 55197116 55197511 55197116 ID=MsaT003347.1.exon3;Parent=MsaT003347.1
Chr1 CDS 55197116 55197511 55197116 ID=cds.MsaT003347.1;Parent=MsaT003347.1
Gene Sequence

>MsaT003347.1

ATGAACAAGGTTTTTGGTGCAAGCAATGTCTCAAAGCTTCTTGCTCATCTCCCTGTAAGTGATCGTTGCGAAGCCGCTGTTACAATCTCTTATGAAGCTCAAGCTAGACTTCAAGATCCTATTTATGGATGTGTTTCACATATTTTTGCCCTCCAACAACAGGTGGTCAATTTACAAACACAACTGGCTTATCTCAAAGAACAAGCAGCACAAAATTGTCACATTAATGCATCTACCAATGAAAACCCTAATGAAAAATCTAATTCTCTTACTATCCCTCAAGATCTTCAAACTTGGTTCCATGTGGAAAATTCCAATAATCACCAACTTGGGCAAGAATTTCTTACTAATAACTTGTCTAATATTTCCCTAACAACACAATATTATGGGAACAATACTCTCAACATGGATCTAGACCCTATGAGGAATTATGAAAATTCAAGAGTCATTGAAGAAAACACTTCATTTTCTAGCTTTGAGGAGATGGAAACAAACAGGAGGACATGGGGATTTGATGAAGTTGAGGACCTACATTCAGTGGCTTTTGGATACAGTTGA
Protein sequence

>MsaT003347.1

MNKVFGASNVSKLLAHLPVSDRCEAAVTISYEAQARLQDPIYGCVSHIFALQQQVVNLQTQLAYLKEQAAQNCHINASTNENPNEKSNSLTIPQDLQTWFHVENSNNHQLGQEFLTNNLSNISLTTQYYGNNTLNMDLDPMRNYENSRVIEENTSFSSFEEMETNRRTWGFDEVEDLHSVAFGYS*