AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005242

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005242 MtrunA17_Chr1g0205801 96.429 112 4 0 1 112 1 112 1.39e-74 216
MsaG005242 MtrunA17_Chr1g0205811 62.376 101 36 1 1 99 1 101 7.47e-40 129
MsaG005242 MtrunA17_Chr1g0205821 55.357 112 47 1 4 112 5 116 2.98e-33 114
MsaG005242 MtrunA17_Chr1g0205821 59.459 74 30 0 13 86 100 173 1.38e-24 91.7
MsaG005242 MtrunA17_Chr1g0205831 60.000 70 28 0 12 81 2 71 1.78e-24 91.7
MsaG005242 MtrunA17_Chr1g0205831 55.128 78 35 0 14 91 75 152 5.20e-22 85.1
MsaG005242 MtrunA17_Chr1g0206781 47.436 78 41 0 13 90 12 89 9.85e-19 75.1
MsaG005242 MtrunA17_Chr8g0364231 48.718 78 40 0 10 87 40 117 2.17e-18 79.3
MsaG005242 MtrunA17_Chr5g0415031 42.500 80 46 0 10 89 41 120 1.09e-17 77.0
MsaG005242 MtrunA17_Chr6g0452001 47.436 78 41 0 10 87 61 138 1.53e-17 76.6
MsaG005242 MtrunA17_Chr3g0077881 50.602 83 40 1 10 91 6 88 2.17e-17 73.2
MsaG005242 MtrunA17_Chr3g0077891 53.333 75 34 1 10 83 6 80 1.87e-16 70.9
MsaG005242 MtrunA17_Chr3g0077891 43.421 76 42 1 12 86 99 174 2.00e-11 57.8
MsaG005242 MtrunA17_Chr6g0452021 43.023 86 48 1 12 97 43 127 2.86e-16 73.2
MsaG005242 MtrunA17_Chr3g0077941 51.613 93 40 2 10 97 6 98 5.62e-16 69.7
MsaG005242 MtrunA17_Chr1g0206771 50.000 72 36 0 13 84 17 88 5.84e-16 69.7
MsaG005242 MtrunA17_Chr1g0206771 47.826 69 36 0 12 80 95 163 6.41e-12 58.9
MsaG005242 MtrunA17_Chr1g0205861 48.718 78 37 1 12 89 16 90 1.98e-15 66.6
MsaG005242 MtrunA17_Chr7g0218891 43.038 79 43 1 5 81 6 84 1.15e-14 67.8
MsaG005242 MtrunA17_Chr7g0218891 42.857 77 42 1 13 87 186 262 2.20e-11 58.5
MsaG005242 MtrunA17_Chr4g0075861 39.394 99 60 0 12 110 89 187 1.66e-14 67.8
MsaG005242 MtrunA17_Chr4g0075861 44.286 70 39 0 15 84 175 244 1.49e-11 59.7
MsaG005242 MtrunA17_Chr4g0075971 38.384 99 61 0 12 110 89 187 5.39e-14 66.6
MsaG005242 MtrunA17_Chr4g0075971 44.286 70 39 0 15 84 175 244 2.68e-12 61.6
MsaG005242 MtrunA17_Chr3g0077911 41.379 87 48 1 11 97 7 90 1.31e-12 60.5
MsaG005242 MtrunA17_Chr3g0077911 50.000 66 32 1 10 74 88 153 1.61e-12 60.1
MsaG005242 MtrunA17_Chr8g0364021 42.254 71 41 0 12 82 44 114 4.48e-12 60.1
MsaG005242 MtrunA17_Chr3g0077861 48.485 66 33 1 10 74 88 153 1.15e-11 58.2
MsaG005242 MtrunA17_Chr7g0256011 40.580 69 41 0 12 80 16 84 1.81e-11 56.6
MsaG005242 MtrunA17_Chr3g0077811 42.308 78 44 1 7 83 8 85 1.87e-11 56.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005242 AT3G01320.2 46.316 95 49 1 4 96 47 141 1.56e-19 82.8
MsaG005242 AT3G01320.1 46.316 95 49 1 4 96 47 141 1.57e-19 82.8
MsaG005242 AT5G15020.2 48.684 76 37 1 12 87 52 125 8.77e-16 72.0
MsaG005242 AT5G15020.1 48.684 76 37 1 12 87 52 125 8.78e-16 72.0
MsaG005242 AT1G70060.2 44.872 78 43 0 10 87 12 89 1.45e-15 71.6
MsaG005242 AT1G70060.1 44.872 78 43 0 10 87 12 89 1.45e-15 71.6
MsaG005242 AT1G24190.1 44.737 76 42 0 10 85 12 87 4.53e-15 70.1
MsaG005242 AT1G24190.2 44.737 76 42 0 10 85 12 87 4.57e-15 70.1
MsaG005242 AT1G24190.3 44.737 76 42 0 10 85 12 87 4.71e-15 70.1
MsaG005242 AT5G15025.1 45.455 77 40 1 12 88 47 121 1.31e-14 65.1
MsaG005242 AT5G15040.1 46.753 77 39 1 10 86 1 75 1.62e-14 63.9
MsaG005242 AT5G15040.3 46.753 77 39 1 10 86 1 75 1.62e-14 63.9
MsaG005242 AT5G15040.2 46.753 77 39 1 10 86 1 75 1.62e-14 63.9
MsaG005242 AT1G24200.1 47.143 70 37 0 11 80 13 82 2.26e-14 66.2
MsaG005242 AT1G27220.1 42.466 73 42 0 8 80 10 82 3.07e-14 65.5
MsaG005242 AT1G23810.1 38.636 88 53 1 5 92 102 188 2.44e-13 63.9
MsaG005242 AT1G59890.1 37.179 78 49 0 12 89 45 122 1.75e-12 62.8
MsaG005242 AT1G59890.3 38.158 76 47 0 12 87 45 120 1.79e-12 62.8
MsaG005242 AT1G59890.2 37.179 78 49 0 12 89 45 122 1.79e-12 62.8
MsaG005242 AT1G59890.4 38.158 76 47 0 12 87 45 120 1.86e-12 62.8
MsaG005242 AT1G24250.1 39.773 88 52 1 5 92 113 199 1.94e-12 61.6
MsaG005242 AT1G24230.1 51.515 66 31 1 10 74 12 77 2.21e-12 61.6
MsaG005242 AT1G24230.1 41.935 62 36 0 15 76 89 150 6.27e-12 60.5
MsaG005242 AT1G24210.1 38.961 77 45 1 1 75 1 77 3.63e-12 59.7
MsaG005242 AT5G35610.1 42.500 80 43 1 20 99 18 94 5.20e-12 59.3
MsaG005242 AT1G70030.3 40.230 87 51 1 12 98 22 107 8.03e-12 58.2
MsaG005242 AT1G70030.2 40.230 87 51 1 12 98 22 107 1.45e-11 57.8
MsaG005242 AT1G70030.1 40.230 87 51 1 12 98 11 96 2.22e-11 57.8
MsaG005242 AT1G27260.1 37.209 86 53 1 7 92 88 172 2.34e-11 58.5
MsaG005242 AT1G27250.1 39.706 68 41 0 12 79 21 88 3.17e-11 56.6
MsaG005242 AT1G10450.3 36.047 86 54 1 12 97 84 168 5.85e-11 58.5
MsaG005242 AT1G27280.1 43.478 69 39 0 7 75 76 144 7.30e-11 57.4
MsaG005242 AT1G10450.2 36.047 86 54 1 12 97 33 117 7.36e-11 58.2
MsaG005242 AT1G10450.1 36.047 86 54 1 12 97 33 117 7.36e-11 58.2

Find 18 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGACACTGCTTCACCAATCT+TGG 0.362408 1:-79380118 None:intergenic
GAAAATTCTAGATGATTTCT+CGG 0.377556 1:+79380200 MsaT005242.1:CDS
TGAAGCAGTGTCGTTTGTTA+TGG 0.413384 1:+79380128 MsaT005242.1:CDS
TAAAACATGTGTTTCAAGAT+AGG 0.427626 1:+79380154 MsaT005242.1:CDS
AGCTGCTCGATCAATTCTTT+CGG 0.448838 1:-79380223 None:intergenic
CGCAGAGTAGATGCCAAGAT+TGG 0.484518 1:+79380105 MsaT005242.1:CDS
TATTGTTGCTGATCATCAAA+TGG 0.491825 1:-79380411 None:intergenic
TTCAACATCTTCTTGCCACC+AGG 0.516818 1:+79380300 MsaT005242.1:CDS
AACATGTGTTTCAAGATAGG+AGG 0.520327 1:+79380157 MsaT005242.1:CDS
GAGTTGTTAAAAGATCATAA+AGG 0.526893 1:+79380264 MsaT005242.1:CDS
ACAAGAAATCTCACTTACAT+TGG 0.536387 1:+79380323 MsaT005242.1:CDS
GATCGAGCAGCTGTGAAAGA+AGG 0.542586 1:+79380234 MsaT005242.1:CDS
GTAAGTGAGATTTCTTGTCC+TGG 0.568387 1:-79380318 None:intergenic
ACATGTGTTTCAAGATAGGA+GGG 0.571664 1:+79380158 MsaT005242.1:CDS
GATGATGAACAACAAGGTGA+TGG 0.587348 1:+79380348 MsaT005242.1:CDS
AGCTGTGAAAGAAGGAATGA+CGG 0.588334 1:+79380242 MsaT005242.1:CDS
AGTGAGATTTCTTGTCCTGG+TGG 0.701974 1:-79380315 None:intergenic
TTGGATGATGATGAACAACA+AGG 0.780029 1:+79380342 MsaT005242.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 79380096 79380434 79380096 ID=MsaG005242
Chr1 mRNA 79380096 79380434 79380096 ID=MsaT005242.1;Parent=MsaG005242
Chr1 exon 79380096 79380434 79380096 ID=MsaT005242.1.exon1;Parent=MsaT005242.1
Chr1 CDS 79380096 79380434 79380096 ID=cds.MsaT005242.1;Parent=MsaT005242.1
Gene Sequence

>MsaT005242.1

ATGAGGAGACGCAGAGTAGATGCCAAGATTGGTGAAGCAGTGTCGTTTGTTATGGAAGTAAAACATGTGTTTCAAGATAGGAGGGAGAAGTATGATGAGTTTTTGAAAATTCTAGATGATTTCTCGGCCGAAAGAATTGATCGAGCAGCTGTGAAAGAAGGAATGACGGAGTTGTTAAAAGATCATAAAGGTTTAATTTCAAGATTCAACATCTTCTTGCCACCAGGACAAGAAATCTCACTTACATTGGATGATGATGAACAACAAGGTGATGGATTAGCATTCGAAGATGAACAGAAACATGAAATCTCACTTCCATTTGATGATCAGCAACAATAA
Protein sequence

>MsaT005242.1

MRRRRVDAKIGEAVSFVMEVKHVFQDRREKYDEFLKILDDFSAERIDRAAVKEGMTELLKDHKGLISRFNIFLPPGQEISLTLDDDEQQGDGLAFEDEQKHEISLPFDDQQQ*