AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG011197

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011197 MtrunA17_Chr2g0333741 97.571 247 6 0 1 247 1 247 0.0 499
MsaG011197 MtrunA17_Chr4g0001081 52.083 240 80 11 19 247 9 224 1.37e-57 182
MsaG011197 MtrunA17_Chr1g0149811 35.563 284 124 13 1 247 1 262 1.49e-34 124
MsaG011197 MtrunA17_Chr3g0137111 44.379 169 76 8 34 187 25 190 1.75e-32 118
MsaG011197 MtrunA17_Chr8g0376021 45.638 149 64 5 10 158 2 133 2.72e-30 112
MsaG011197 MtrunA17_Chr5g0434121 67.532 77 17 3 80 155 86 155 7.47e-27 103
MsaG011197 MtrunA17_Chr1g0161901 64.935 77 22 2 81 157 97 168 1.74e-26 103
MsaG011197 MtrunA17_Chr3g0110091 61.728 81 23 3 76 155 80 153 6.73e-25 98.6
MsaG011197 MtrunA17_Chr4g0072571 54.667 75 23 2 78 152 42 105 1.29e-17 77.8
MsaG011197 MtrunA17_Chr1g0207691 36.232 138 69 4 24 159 12 132 2.79e-16 74.7
MsaG011197 MtrunA17_Chr7g0254221 49.254 67 27 2 60 119 5 71 1.11e-12 63.9
MsaG011197 MtrunA17_Chr4g0053691 45.570 79 22 3 81 159 67 124 1.99e-12 63.9
MsaG011197 MtrunA17_Chr5g0396031 42.000 100 49 3 69 164 34 128 3.66e-12 65.5
MsaG011197 MtrunA17_Chr3g0081131 38.356 146 63 9 34 164 44 177 5.24e-12 64.3
MsaG011197 MtrunA17_Chr7g0251581 75.758 33 8 0 81 113 39 71 8.30e-12 62.4
MsaG011197 MtrunA17_Chr3g0081141 41.414 99 46 3 73 164 90 183 4.76e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011197 AT5G10970.1 39.526 253 120 11 13 247 35 272 6.48e-38 134
MsaG011197 AT1G80730.1 41.026 234 93 11 32 247 22 228 5.01e-34 122
MsaG011197 AT5G25160.1 41.475 217 97 9 48 247 32 235 1.70e-33 121
MsaG011197 AT1G24625.1 41.538 130 40 4 28 157 29 122 2.95e-21 89.0
MsaG011197 AT1G66140.1 55.682 88 25 2 81 154 83 170 9.91e-21 88.6
MsaG011197 AT5G57520.1 57.143 63 24 1 79 138 48 110 6.22e-17 75.9
MsaG011197 AT5G14010.1 76.471 34 8 0 81 114 36 69 7.38e-13 65.1
MsaG011197 AT5G01860.1 57.778 45 19 0 70 114 54 98 4.31e-12 63.9

Find 36 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTCCAAGAAAGGTGCAAAA+TGG 0.323012 2:-82492616 MsaT011197.1:CDS
GGCAGCTTCTGCCACTGGTT+TGG 0.325271 2:+82492739 None:intergenic
TGAACACAGGTACTCAAGTA+TGG 0.334170 2:-82492887 MsaT011197.1:CDS
ACCATCATCACTTGGAATTC+AGG 0.350325 2:-82492830 MsaT011197.1:CDS
GAAAATTTCCCTGATCTTGT+AGG 0.357308 2:+82492637 None:intergenic
AGAAAGGTGCAAAATGGATT+TGG 0.360298 2:-82492610 MsaT011197.1:CDS
TTTCCCTGATCTTGTAGGTA+TGG 0.467787 2:+82492642 None:intergenic
AACATGGCTCTAATCTTAGA+AGG 0.477004 2:+82493253 None:intergenic
ATATAGGCAGCTTCTGCCAC+TGG 0.477130 2:+82492734 None:intergenic
ACACAAAAGAGAAAGAACTA+TGG 0.484621 2:-82492947 MsaT011197.1:CDS
GTAAAAGCACTCAGAGTTTG+AGG 0.499487 2:+82492527 None:intergenic
AAGGTGCAAAATGGATTTGG+AGG 0.500419 2:-82492607 MsaT011197.1:CDS
ACATGAAGATTCCTTGATGC+TGG 0.502045 2:+82492703 None:intergenic
TCATCACAAGAATCTTTACT+AGG 0.516480 2:+82493144 None:intergenic
GATGCTGGTTGTGAATATAT+AGG 0.519086 2:+82492718 None:intergenic
TCTTCATCGGAATCTAATCA+TGG 0.524262 2:-82493057 MsaT011197.1:CDS
CATGTTGAGGCAGAAACTGA+TGG 0.531135 2:-82492685 MsaT011197.1:CDS
ATGGCTTCTCTACCTTTGCA+TGG 0.537338 2:-82492868 MsaT011197.1:CDS
AGTGCCATACCTACAAGATC+AGG 0.538472 2:-82492646 MsaT011197.1:CDS
CGATGAAGAGTTTATCGACA+TGG 0.551961 2:+82493071 None:intergenic
TTCGGTTTGTCGCGTTACTG+TGG 0.557649 2:-82492763 MsaT011197.1:CDS
ACCTGAATTCCAAGTGATGA+TGG 0.560861 2:+82492829 None:intergenic
TATAGTTCACAGGCACTTGG+TGG 0.564578 2:-82492982 MsaT011197.1:CDS
TGTAGGTATGGCACTAGTCA+AGG 0.572932 2:+82492654 None:intergenic
TATATTCACAACCAGCATCA+AGG 0.576962 2:-82492714 MsaT011197.1:CDS
TAGTTGCATGAGAAAATCCT+TGG 0.584802 2:+82493021 None:intergenic
AAAAGATCACCATCATCACT+TGG 0.591415 2:-82492838 MsaT011197.1:CDS
CATGTCGATAAACTCTTCAT+CGG 0.592241 2:-82493070 MsaT011197.1:CDS
ATCAAGGAATCTTCATGTTG+AGG 0.598145 2:-82492698 MsaT011197.1:CDS
TAAAAGCACTCAGAGTTTGA+GGG 0.622554 2:+82492528 None:intergenic
ATGGTAATGAATTAGAGCCA+AGG 0.629515 2:-82493038 MsaT011197.1:CDS
GTTACTGTGGTCCAAACCAG+TGG 0.634342 2:-82492750 MsaT011197.1:CDS
GAAGAGTTTATCGACATGGA+CGG 0.645110 2:+82493075 None:intergenic
TTCAAATTATTAGATAAACA+TGG 0.647436 2:+82493237 None:intergenic
AAGTTTGAAGAATAAACAAG+AGG 0.648051 2:-82492572 MsaT011197.1:CDS
GTGCCATACCTACAAGATCA+GGG 0.648274 2:-82492645 MsaT011197.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 82492537 82493280 82492537 ID=MsaG011197
Chr2 mRNA 82492537 82493280 82492537 ID=MsaT011197.1;Parent=MsaG011197
Chr2 exon 82492537 82493280 82492537 ID=MsaT011197.1.exon1;Parent=MsaT011197.1
Chr2 CDS 82492537 82493280 82492537 ID=cds.MsaT011197.1;Parent=MsaT011197.1
Gene Sequence

>MsaT011197.1

ATGGACCTTCTAAGATTAGAGCCATGTTTATCTAATAATTTGAACATCTCATTTTCTGAGAAGAGACAAACAGAAAATGAAGAGAAAAAACATCTTGTACTAGATTTAACTCTTCCTAGTAAAGATTCTTGTGATGATGAGTCAAAACAAGAACTCAATCTCATAAACTGTTTCGATACAGAACCGTCCATGTCGATAAACTCTTCATCGGAATCTAATCATGGTAATGAATTAGAGCCAAGGATTTTCTCATGCAACTATTGTCAAAGAAAGTTTTATAGTTCACAGGCACTTGGTGGACACCAAAATGCACACAAAAGAGAAAGAACTATGGCAAAAAGAGGGCACAAATCTGTGGCTTCGCTAGATTTTGAACACAGGTACTCAAGTATGGCTTCTCTACCTTTGCATGGCTCTTATAAAAGATCACCATCATCACTTGGAATTCAGGTGCACTCTTCTATGATTCAAAAACCTTCTTATCAAACACCGTTTTTCGGTTTGTCGCGTTACTGTGGTCCAAACCAGTGGCAGAAGCTGCCTATATATTCACAACCAGCATCAAGGAATCTTCATGTTGAGGCAGAAACTGATGGATCATCATCCTTGACTAGTGCCATACCTACAAGATCAGGGAAATTTTCTCCAAGAAAGGTGCAAAATGGATTTGGAGGTTATAATGCTACAAGTTTGAAGAATAAACAAGAGGAGTTGCAGAAGCTTGACTTGTCCCTCAAACTCTGA
Protein sequence

>MsaT011197.1

MDLLRLEPCLSNNLNISFSEKRQTENEEKKHLVLDLTLPSKDSCDDESKQELNLINCFDTEPSMSINSSSESNHGNELEPRIFSCNYCQRKFYSSQALGGHQNAHKRERTMAKRGHKSVASLDFEHRYSSMASLPLHGSYKRSPSSLGIQVHSSMIQKPSYQTPFFGLSRYCGPNQWQKLPIYSQPASRNLHVEAETDGSSSLTSAIPTRSGKFSPRKVQNGFGGYNATSLKNKQEELQKLDLSLKL*