AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG029652


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029652 MtrunA17_Chr5g0446491 94.681 188 5 2 1 187 1 184 6.62e-130 362
MsaG029652 MtrunA17_Chr3g0102351 73.980 196 36 5 1 187 1 190 2.69e-84 247
MsaG029652 MtrunA17_Chr2g0290491 83.051 118 14 1 1 118 1 112 2.46e-67 203
MsaG029652 MtrunA17_Chr8g0382931 80.342 117 21 1 10 124 13 129 3.93e-64 196
MsaG029652 MtrunA17_Chr7g0263601 81.731 104 19 0 22 125 25 128 7.32e-61 187
MsaG029652 MtrunA17_Chr4g0076321 74.167 120 27 2 1 120 1 116 6.92e-59 180
MsaG029652 MtrunA17_Chr1g0185911 67.424 132 35 2 1 126 1 130 7.08e-59 182
MsaG029652 MtrunA17_Chr8g0384451 70.833 120 28 1 22 141 39 151 3.63e-56 176
MsaG029652 MtrunA17_Chr4g0076381 66.990 103 34 0 16 118 51 153 3.77e-50 162
MsaG029652 MtrunA17_Chr1g0195851 71.875 96 27 0 22 117 35 130 8.76e-50 159
MsaG029652 MtrunA17_Chr1g0165041 61.818 110 42 0 22 131 5 114 3.36e-47 152
MsaG029652 MtrunA17_Chr2g0296321 60.526 114 35 1 4 117 57 160 7.99e-47 154
MsaG029652 MtrunA17_Chr4g0067091 61.261 111 34 1 4 114 12 113 8.60e-46 150
MsaG029652 MtrunA17_Chr1g0191981 53.279 122 48 2 23 135 4 125 9.56e-40 131
MsaG029652 MtrunA17_Chr1g0159271 53.750 80 37 0 37 116 1 80 1.16e-24 92.8
MsaG029652 MtrunA17_Chr5g0446601 47.368 95 47 1 20 111 18 112 1.88e-22 89.4
MsaG029652 MtrunA17_Chr1g0159291 43.421 76 43 0 28 103 7 82 3.07e-19 78.2
MsaG029652 MtrunA17_Chr1g0158951 45.349 86 43 1 53 134 19 104 4.01e-19 78.6
MsaG029652 MtrunA17_Chr2g0307551 36.250 80 51 0 24 103 12 91 5.17e-16 71.6
MsaG029652 MtrunA17_Chr4g0062271 36.250 80 51 0 24 103 12 91 1.04e-15 70.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG029652 AT4G14540.1 70.625 160 42 3 1 157 1 158 1.37e-74 221
MsaG029652 AT5G47640.1 88.889 108 12 0 19 126 23 130 1.23e-67 205
MsaG029652 AT2G38880.3 70.732 123 36 0 4 126 2 124 2.91e-60 184
MsaG029652 AT2G38880.2 70.732 123 36 0 4 126 2 124 3.54e-60 184
MsaG029652 AT2G38880.1 70.732 123 36 0 4 126 2 124 3.54e-60 184
MsaG029652 AT2G38880.5 70.732 123 36 0 4 126 2 124 3.54e-60 184
MsaG029652 AT3G53340.5 58.710 155 58 2 19 172 25 174 1.52e-59 184
MsaG029652 AT3G53340.1 58.710 155 58 2 19 172 25 174 1.52e-59 184
MsaG029652 AT2G37060.2 68.462 130 39 1 6 135 15 142 3.58e-59 183
MsaG029652 AT2G37060.3 68.462 130 39 1 6 135 15 142 3.58e-59 183
MsaG029652 AT2G37060.1 68.462 130 39 1 6 135 15 142 3.58e-59 183
MsaG029652 AT2G38880.4 75.455 110 27 0 4 113 2 111 1.75e-57 176
MsaG029652 AT2G38880.7 69.919 123 35 1 4 126 2 122 3.08e-57 177
MsaG029652 AT2G38880.11 75.455 110 27 0 4 113 2 111 6.98e-57 177
MsaG029652 AT2G38880.8 75.455 110 27 0 4 113 2 111 6.98e-57 177
MsaG029652 AT2G38880.9 75.455 110 27 0 4 113 2 111 8.13e-57 176
MsaG029652 AT2G38880.10 75.455 110 27 0 4 113 2 111 8.13e-57 176
MsaG029652 AT2G38880.6 75.455 110 27 0 4 113 2 111 8.13e-57 176
MsaG029652 AT3G53340.4 80.000 95 19 0 19 113 25 119 1.24e-56 174
MsaG029652 AT2G13570.1 78.218 101 22 0 22 122 35 135 3.60e-56 177
MsaG029652 AT3G53340.3 80.208 96 19 0 19 114 25 120 4.01e-56 174
MsaG029652 AT3G53340.2 80.208 96 19 0 19 114 25 120 4.01e-56 174
MsaG029652 AT5G47670.2 49.697 165 78 1 6 165 12 176 2.36e-54 172
MsaG029652 AT5G47670.1 49.697 165 78 1 6 165 41 205 6.27e-54 171
MsaG029652 AT5G47670.3 49.697 165 78 1 6 165 41 205 6.27e-54 171
MsaG029652 AT2G47810.1 72.917 96 26 0 22 117 50 145 1.00e-49 158
MsaG029652 AT1G21970.1 63.366 101 37 0 22 122 58 158 1.05e-46 153
MsaG029652 AT1G09030.1 60.417 96 38 0 23 118 3 98 9.99e-42 137
MsaG029652 AT5G08190.2 38.272 81 50 0 23 103 11 91 8.19e-17 74.3
MsaG029652 AT5G08190.1 38.272 81 50 0 23 103 11 91 8.19e-17 74.3
MsaG029652 AT5G23090.4 37.179 78 49 0 24 101 12 89 2.29e-16 73.2
MsaG029652 AT5G23090.5 37.179 78 49 0 24 101 12 89 2.34e-16 73.2
MsaG029652 AT5G23090.2 37.179 78 49 0 24 101 12 89 2.34e-16 73.2
MsaG029652 AT5G23090.1 37.179 78 49 0 24 101 12 89 2.34e-16 73.2
MsaG029652 AT5G23090.3 35.938 64 41 0 40 103 15 78 5.60e-12 61.2

Find 47 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCCGCATTAGTTTCAGCATT+AGG 0.327218 5:-79741446 None:intergenic
TTTCTCTCTCTGACACTTAT+CGG 0.341007 5:-79741129 None:intergenic
AGTTTCAGCATTAGGATAAC+CGG 0.355328 5:-79741438 None:intergenic
AATAATGAAGAAGGCGTTAC+CGG 0.357624 5:+79741022 MsaT029652.1:CDS
ATTCTGCTCACGTTTGCTAT+TGG 0.361435 5:-79741002 None:intergenic
CGGTGATAACTCGCTGTTCC+CGG 0.363693 5:-79740958 None:intergenic
CAGGGACACGTGTACGGTTC+TGG 0.366578 5:+79741389 MsaT029652.1:CDS
AACTCGCTGTTCCCGGCGTT+CGG 0.373131 5:-79740951 None:intergenic
GGCTGATTCCGACAATGAAT+CGG 0.393443 5:+79740920 MsaT029652.1:CDS
TCAGCATCAGCATCAGCATC+AGG 0.402922 5:+79741370 MsaT029652.1:CDS
TTCGAGATCTTCGCGTTCGC+CGG 0.412847 5:-79741041 None:intergenic
TCAACGGCGACGATCTACTT+TGG 0.416392 5:+79741162 MsaT029652.1:CDS
CGGGAGGAGCACCGAACGCC+GGG 0.420650 5:+79740940 MsaT029652.1:CDS
ACTAATAAGCTTGTTCTACC+TGG 0.429128 5:-79741474 None:intergenic
CGTTGAAGATAAATCTTCAA+TGG 0.432633 5:-79741221 None:intergenic
CATCAAGTGCCTGGTGGGCC+CGG 0.439513 5:+79741419 MsaT029652.1:CDS
AGACGCGAAGGAAACAGTTC+AGG 0.459480 5:+79741064 MsaT029652.1:CDS
CAACGGCGACGATCTACTTT+GGG 0.462526 5:+79741163 MsaT029652.1:CDS
CTTTGGGCGATGACTACGTT+AGG 0.467469 5:+79741179 MsaT029652.1:CDS
TGCTCCTCCCGATTCATTGT+CGG 0.482065 5:-79740928 None:intergenic
CGTTTGCTATTGGTAAGAAT+CGG 0.499147 5:-79740992 None:intergenic
GCTGATTCCGACAATGAATC+GGG 0.501404 5:+79740921 MsaT029652.1:CDS
ACAGAAGACGAAGAAGAAGA+AGG 0.510989 5:-79741302 None:intergenic
ACACTTATCGGAAGCTTCGC+CGG 0.521889 5:-79741117 None:intergenic
ATCTTTATCACGTGCAGCAA+CGG 0.524172 5:-79741270 None:intergenic
TATAGTGCTCCTCCTCAAGT+TGG 0.530482 5:+79741332 MsaT029652.1:CDS
TTAGGATAACCGGGCCCACC+AGG 0.536533 5:-79741428 None:intergenic
CCTAATGCTGAAACTAATGC+GGG 0.543861 5:+79741446 MsaT029652.1:CDS
TCGGGAGGAGCACCGAACGC+CGG 0.558380 5:+79740939 MsaT029652.1:CDS
CGTGAGCAGAATAATGAAGA+AGG 0.569587 5:+79741013 MsaT029652.1:CDS
CAGCATCAGGGACACGTGTA+CGG 0.574817 5:+79741383 MsaT029652.1:CDS
AACAGTTCAGGAATGTGTAT+CGG 0.575632 5:+79741076 MsaT029652.1:CDS
GTTTCAGCATTAGGATAACC+GGG 0.577286 5:-79741437 None:intergenic
TCCTAATGCTGAAACTAATG+CGG 0.577317 5:+79741445 MsaT029652.1:CDS
GAGAAACGAAAGACGATCAA+CGG 0.592030 5:+79741146 MsaT029652.1:CDS
CTAATAAGCTTGTTCTACCT+GGG 0.593198 5:-79741473 None:intergenic
AAACTAATGCGGGTAGACCC+AGG 0.595538 5:+79741456 MsaT029652.1:CDS
CAGCATCAGCATCAGCATCA+GGG 0.606009 5:+79741371 MsaT029652.1:CDS
GAGTTCATCAGCTTCATCAC+CGG 0.608726 5:+79741098 MsaT029652.1:CDS
TGCATGATCATTCCAACTTG+AGG 0.615795 5:-79741344 None:intergenic
GGACACGTGTACGGTTCTGG+TGG 0.628725 5:+79741392 MsaT029652.1:CDS
GAAGATCTCGAAAGACGCGA+AGG 0.642019 5:+79741052 MsaT029652.1:CDS
AAGAATCGGTCTTGTTCTCG+CGG 0.644860 5:-79740978 None:intergenic
CAACGATTCAGAGAGATCGA+AGG 0.645752 5:+79741239 MsaT029652.1:CDS
ATGATCATTCCAACTTGAGG+AGG 0.661433 5:-79741341 None:intergenic
GTTGCTGCACGTGATAAAGA+TGG 0.679086 5:+79741272 MsaT029652.1:CDS
GATTCCGACAATGAATCGGG+AGG 0.690680 5:+79740924 MsaT029652.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 79740918 79741481 79740918 ID=MsaG029652
Chr5 mRNA 79740918 79741481 79740918 ID=MsaT029652.1;Parent=MsaG029652
Chr5 exon 79740918 79741481 79740918 ID=MsaT029652.1.exon1;Parent=MsaT029652.1
Chr5 CDS 79740918 79741481 79740918 ID=cds.MsaT029652.1;Parent=MsaT029652.1
Gene Sequence

>MsaT029652.1

ATGGCTGATTCCGACAATGAATCGGGAGGAGCACCGAACGCCGGGAACAGCGAGTTATCACCGCGAGAACAAGACCGATTCTTACCAATAGCAAACGTGAGCAGAATAATGAAGAAGGCGTTACCGGCGAACGCGAAGATCTCGAAAGACGCGAAGGAAACAGTTCAGGAATGTGTATCGGAGTTCATCAGCTTCATCACCGGCGAAGCTTCCGATAAGTGTCAGAGAGAGAAACGAAAGACGATCAACGGCGACGATCTACTTTGGGCGATGACTACGTTAGGATTTGAAGAGTACGTTGAACCATTGAAGATTTATCTTCAACGATTCAGAGAGATCGAAGGTGAGAAAACCGTTGCTGCACGTGATAAAGATGGTGTTGCTCCTTCTTCTTCTTCGTCTTCTGTTTTCGATTATAGTGCTCCTCCTCAAGTTGGAATGATCATGCATCATCAGCATCAGCATCAGCATCAGGGACACGTGTACGGTTCTGGTGGTTTTCATCAAGTGCCTGGTGGGCCCGGTTATCCTAATGCTGAAACTAATGCGGGTAGACCCAGGTAG

Protein sequence

>MsaT029652.1

MADSDNESGGAPNAGNSELSPREQDRFLPIANVSRIMKKALPANAKISKDAKETVQECVSEFISFITGEASDKCQREKRKTINGDDLLWAMTTLGFEEYVEPLKIYLQRFREIEGEKTVAARDKDGVAPSSSSSSVFDYSAPPQVGMIMHHQHQHQHQGHVYGSGGFHQVPGGPGYPNAETNAGRPR*