AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG014501

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014501 MtrunA17_Chr3g0106421 79.630 216 14 1 1 186 1 216 2.95e-110 313
MsaG014501 MtrunA17_Chr2g0283941 37.619 210 100 2 1 179 29 238 4.02e-41 139
MsaG014501 MtrunA17_Chr3g0106501 48.889 135 69 0 1 135 1 135 6.75e-39 130
MsaG014501 MtrunA17_Chr3g0107461 46.512 129 69 0 1 129 29 157 1.29e-33 117
MsaG014501 MtrunA17_Chr4g0031421 40.136 147 83 1 1 147 1 142 3.84e-30 107
MsaG014501 MtrunA17_Chr3g0107381 36.471 170 98 3 1 166 29 192 1.20e-29 108
MsaG014501 MtrunA17_Chr3g0105791 40.441 136 81 0 1 136 1 136 2.88e-28 103
MsaG014501 MtrunA17_Chr3g0110131 41.129 124 72 1 4 127 32 154 5.18e-28 105
MsaG014501 MtrunA17_Chr4g0014321 32.836 201 114 3 1 181 29 228 3.88e-27 102
MsaG014501 MtrunA17_Chr4g0013041 34.973 183 113 3 2 183 28 205 1.48e-25 97.8
MsaG014501 MtrunA17_Chr4g0014131 39.024 123 75 0 6 128 34 156 3.07e-24 95.1
MsaG014501 MtrunA17_Chr4g0014031 36.800 125 79 0 4 128 32 156 6.18e-23 91.7
MsaG014501 MtrunA17_Chr4g0014121 35.772 123 79 0 6 128 62 184 2.09e-21 86.7
MsaG014501 MtrunA17_Chr8g0351751 36.232 138 86 1 1 136 29 166 1.73e-20 85.5
MsaG014501 MtrunA17_Chr2g0296831 44.318 88 49 0 6 93 34 121 2.24e-20 82.0
MsaG014501 MtrunA17_Chr3g0107351 33.077 130 86 1 2 131 29 157 1.92e-19 80.9
MsaG014501 MtrunA17_Chr5g0432691 34.921 126 81 1 1 126 29 153 1.99e-19 80.9
MsaG014501 MtrunA17_Chr3g0107361 33.077 130 86 1 2 131 29 157 8.59e-19 79.0
MsaG014501 MtrunA17_Chr3g0107331 33.835 133 87 1 1 133 28 159 1.38e-17 75.9
MsaG014501 MtrunA17_Chr3g0107341 32.308 130 87 1 2 131 29 157 1.61e-17 75.9
MsaG014501 MtrunA17_Chr2g0296861 39.231 130 78 1 2 131 30 158 1.94e-17 75.5
MsaG014501 MtrunA17_Chr1g0188651 32.283 127 76 3 6 129 34 153 8.18e-15 68.6
MsaG014501 MtrunA17_Chr1g0193311 30.952 126 85 2 4 129 32 155 1.78e-14 67.4
MsaG014501 MtrunA17_Chr5g0420351 29.457 129 89 2 1 129 29 155 4.90e-14 66.2
MsaG014501 MtrunA17_Chr1g0197321 30.233 129 89 1 1 129 29 156 5.80e-13 63.5
MsaG014501 MtrunA17_Chr1g0197261 30.534 131 85 4 1 129 29 155 1.75e-12 62.4
MsaG014501 MtrunA17_Chr1g0188681 30.597 134 81 4 1 129 29 155 2.48e-12 62.0
MsaG014501 MtrunA17_Chr1g0197461 31.579 133 85 4 1 131 28 156 2.81e-12 61.6
MsaG014501 MtrunA17_Chr1g0188661 30.400 125 83 3 6 129 34 155 4.19e-12 61.2
MsaG014501 MtrunA17_Chr7g0218151 30.645 124 84 2 6 129 34 155 1.20e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014501 AT5G48670.1 34.783 138 89 1 6 143 34 170 2.56e-19 84.0
MsaG014501 AT5G27810.1 42.697 89 51 0 1 89 1 89 2.60e-17 74.3
MsaG014501 AT1G65300.1 29.775 178 119 2 2 174 29 205 6.43e-17 76.6
MsaG014501 AT3G05860.3 32.353 136 87 2 1 134 29 161 4.24e-15 71.2
MsaG014501 AT3G05860.1 32.353 136 87 2 1 134 29 161 5.37e-15 71.2
MsaG014501 AT3G05860.2 32.353 136 87 2 1 134 29 161 6.55e-15 70.1
MsaG014501 AT5G26630.1 30.159 126 83 2 4 127 32 154 1.76e-13 66.6
MsaG014501 AT5G26650.1 32.237 152 94 4 2 144 28 179 2.41e-13 67.4
MsaG014501 AT1G65330.1 38.202 89 55 0 1 89 28 116 3.32e-13 66.6
MsaG014501 AT5G27960.1 32.237 152 94 4 2 144 28 179 5.49e-13 66.2

Find 40 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATGAGACTAACATGAATTA+TGG 0.238809 3:+74050817 MsaT014501.1:CDS
TGCTTTCTCATACTTCTCTT+TGG 0.254440 3:-74050491 None:intergenic
TGGTGGATCTATATAGCTTT+TGG 0.311230 3:+74050449 MsaT014501.1:CDS
TTACAACCTGCTCATGGGCT+TGG 0.331639 3:-74050678 None:intergenic
TAGATAGATCCAAATCCATT+TGG 0.374885 3:-74050913 None:intergenic
TTCAATAAGTATAATGAAGA+AGG 0.376914 3:+74050273 None:intergenic
TACAACCTGCTCATGGGCTT+GGG 0.383623 3:-74050677 None:intergenic
ATCATGGTCAAGCAGAAGTT+TGG 0.397626 3:+74050353 MsaT014501.1:CDS
GAAGTATGAGAAAGCAATGA+TGG 0.430824 3:+74050498 MsaT014501.1:CDS
CAATCAGAGGTTGGATTCAA+TGG 0.439661 3:+74050651 MsaT014501.1:CDS
AGATAGATCCAAATCCATTT+GGG 0.447437 3:-74050912 None:intergenic
CTTCATTTACAACCTGCTCA+TGG 0.458888 3:-74050684 None:intergenic
GAGGTAGGTGTAATAATCTA+TGG 0.465342 3:+74050325 MsaT014501.1:CDS
AAGTGATGAGCAACTACCTA+TGG 0.489610 3:+74050846 MsaT014501.1:CDS
TCAAAATCAAAATCATCAAA+TGG 0.490798 3:-74050883 None:intergenic
TTCATTTACAACCTGCTCAT+GGG 0.507437 3:-74050683 None:intergenic
ATAATCTATGGTGAAAATCA+TGG 0.511237 3:+74050337 MsaT014501.1:CDS
AGGAGATATGCAGGATAACA+TGG 0.513708 3:+74050771 MsaT014501.1:intron
ACCTACCTCTACTCCACAAA+GGG 0.515797 3:-74050311 None:intergenic
CTTAATTGATGAAAATATGA+AGG 0.521607 3:+74050624 MsaT014501.1:CDS
AGTGAATTGAGCACCCTTTG+TGG 0.521846 3:+74050298 MsaT014501.1:CDS
CCTACTCGTAACTATAATGT+TGG 0.540983 3:+74050565 MsaT014501.1:CDS
GGTAACCCAAGCCCATGAGC+AGG 0.557566 3:+74050672 MsaT014501.1:CDS
GAAGGAAGTCAATCAGAGGT+TGG 0.560602 3:+74050642 MsaT014501.1:CDS
GAAGTTTGGCCACCCGCGAT+AGG 0.561174 3:+74050367 MsaT014501.1:CDS
TCATGTTAGTCTCATAACCA+TGG 0.584822 3:-74050810 None:intergenic
GAGCACCCTTTGTGGAGTAG+AGG 0.592281 3:+74050306 MsaT014501.1:CDS
CATGTTAGTCTCATAACCAT+GGG 0.600840 3:-74050809 None:intergenic
TATGCAGGATAACATGGATG+AGG 0.601307 3:+74050777 MsaT014501.1:intron
AATCATCAAATGGTGGCATG+AGG 0.619303 3:-74050873 None:intergenic
AAATCAAAATCATCAAATGG+TGG 0.629108 3:-74050880 None:intergenic
CCAACATTATAGTTACGAGT+AGG 0.633928 3:-74050565 None:intergenic
CACCTACCTCTACTCCACAA+AGG 0.639768 3:-74050312 None:intergenic
CACACGTTCTAGTCCTATCG+CGG 0.645712 3:-74050380 None:intergenic
ACACGTTCTAGTCCTATCGC+GGG 0.647206 3:-74050379 None:intergenic
ACCCTTTGTGGAGTAGAGGT+AGG 0.653228 3:+74050310 MsaT014501.1:CDS
GGTGGCATGAGGAAGTCCAT+AGG 0.659527 3:-74050862 None:intergenic
ATATGAAGGAAGTCAATCAG+AGG 0.667679 3:+74050638 MsaT014501.1:CDS
CGTTCTAGTCCTATCGCGGG+TGG 0.679992 3:-74050376 None:intergenic
GATGAGGTTGCTGATACCCA+TGG 0.682185 3:+74050793 MsaT014501.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 74050286 74050936 74050286 ID=MsaG014501
Chr3 mRNA 74050286 74050936 74050286 ID=MsaT014501.1;Parent=MsaG014501
Chr3 exon 74050286 74050693 74050286 ID=MsaT014501.1.exon1;Parent=MsaT014501.1
Chr3 CDS 74050286 74050693 74050286 ID=cds.MsaT014501.1;Parent=MsaT014501.1
Chr3 exon 74050784 74050936 74050784 ID=MsaT014501.1.exon2;Parent=MsaT014501.1
Chr3 CDS 74050784 74050936 74050784 ID=cds.MsaT014501.1;Parent=MsaT014501.1
Gene Sequence

>MsaT014501.1

ATGAAGAAGGCTAGTGAATTGAGCACCCTTTGTGGAGTAGAGGTAGGTGTAATAATCTATGGTGAAAATCATGGTCAAGCAGAAGTTTGGCCACCCGCGATAGGACTAGAACGTGTGTTGCACAAGTTTGAGAGTTTGTCTGAACTCAAAAGAAACAAAAATATGGTGGATCTATATAGCTTTTGGATGCAAAGGATTGAAAAAGCCAAAGAGAAGTATGAGAAAGCAATGATGGAAAACAAGAAGAAAGAAATGACTAATTTTATACGTCAATTTATTCCTACTCGTAACTATAATGTTGGTGATCTGAGCTTAAATGATATCAATTATCTGACGACCTTAATTGATGAAAATATGAAGGAAGTCAATCAGAGGTTGGATTCAATGGTAACCCAAGCCCATGAGCAGGATAACATGGATGAGGTTGCTGATACCCATGGTTATGAGACTAACATGAATTATGGTTTGCAAAGTGATGAGCAACTACCTATGGACTTCCTCATGCCACCATTTGATGATTTTGATTTTGATTTTGACCCAAATGGATTTGGATCTATCTAG
Protein sequence

>MsaT014501.1

MKKASELSTLCGVEVGVIIYGENHGQAEVWPPAIGLERVLHKFESLSELKRNKNMVDLYSFWMQRIEKAKEKYEKAMMENKKKEMTNFIRQFIPTRNYNVGDLSLNDINYLTTLIDENMKEVNQRLDSMVTQAHEQDNMDEVADTHGYETNMNYGLQSDEQLPMDFLMPPFDDFDFDFDPNGFGSI*