AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010817

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010817 MtrunA17_Chr2g0329421 94.083 169 10 0 69 237 1 169 1.61e-116 332
MsaG010817 MtrunA17_Chr4g0033611 66.507 209 66 3 21 227 3 209 1.09e-92 273
MsaG010817 MtrunA17_Chr3g0078041 42.308 156 81 3 91 242 46 196 5.28e-32 117
MsaG010817 MtrunA17_Chr7g0233911 43.066 137 68 3 64 196 7 137 1.67e-27 105
MsaG010817 MtrunA17_Chr2g0329361 39.456 147 78 4 94 231 60 204 2.35e-26 103
MsaG010817 MtrunA17_Chr5g0448761 54.128 109 45 3 94 197 59 167 2.43e-21 93.2
MsaG010817 MtrunA17_Chr2g0287061 39.450 109 54 1 94 202 182 278 5.58e-21 92.0
MsaG010817 MtrunA17_Chr2g0287061 41.176 102 48 1 94 195 28 117 1.22e-17 82.0
MsaG010817 MtrunA17_Chr6g0458391 39.048 105 63 1 95 198 225 329 4.81e-20 89.4
MsaG010817 MtrunA17_Chr6g0458391 39.423 104 62 1 95 197 91 194 6.15e-16 77.0
MsaG010817 MtrunA17_Chr3g0082121 37.063 143 76 5 95 231 43 177 3.56e-19 86.7
MsaG010817 MtrunA17_Chr1g0202341 38.596 114 58 3 94 200 50 158 3.75e-19 86.7
MsaG010817 MtrunA17_Chr5g0401121 39.815 108 59 3 95 198 56 161 5.11e-18 79.0
MsaG010817 MtrunA17_Chr1g0203721 39.796 98 58 1 97 193 65 162 1.38e-17 82.0
MsaG010817 MtrunA17_Chr2g0291591 31.325 166 104 3 67 230 39 196 1.52e-15 75.9
MsaG010817 MtrunA17_Chr5g0440451 36.190 105 55 2 92 196 40 132 2.57e-14 72.4
MsaG010817 MtrunA17_Chr8g0363841 30.088 113 75 2 93 201 12 124 1.30e-12 67.4
MsaG010817 MtrunA17_Chr2g0291581 38.235 102 58 2 95 195 71 168 1.37e-12 67.4
MsaG010817 MtrunA17_Chr3g0080351 31.707 123 66 3 94 200 75 195 1.99e-12 66.6
MsaG010817 MtrunA17_Chr7g0258861 35.577 104 64 2 94 195 9 111 1.81e-11 63.2
MsaG010817 MtrunA17_Chr1g0171741 29.825 171 106 7 38 196 68 236 1.81e-11 62.8
MsaG010817 MtrunA17_Chr2g0329031 31.858 113 71 3 91 201 10 118 2.58e-11 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010817 AT3G59470.3 61.850 173 59 3 62 227 30 202 7.14e-73 223
MsaG010817 AT3G59470.1 61.850 173 59 3 62 227 30 202 7.14e-73 223
MsaG010817 AT3G59470.2 61.850 173 59 3 62 227 42 214 1.14e-72 223
MsaG010817 AT3G07500.1 44.785 163 79 4 86 237 17 179 1.21e-36 129
MsaG010817 AT4G12850.1 37.500 136 72 3 92 223 8 134 1.91e-25 99.4
MsaG010817 AT2G43280.1 36.264 182 95 4 63 240 2 166 2.05e-25 100
MsaG010817 AT4G38180.1 56.481 108 43 2 94 197 72 179 8.15e-25 103
MsaG010817 AT4G12850.4 44.231 104 56 1 92 195 8 109 4.18e-24 94.7
MsaG010817 AT4G12850.2 44.231 104 56 1 92 195 8 109 5.03e-24 94.4
MsaG010817 AT3G06250.2 44.118 102 45 1 94 195 27 116 4.06e-21 92.8
MsaG010817 AT3G06250.2 41.509 106 50 1 94 199 189 282 5.24e-21 92.4
MsaG010817 AT3G06250.1 44.118 102 45 1 94 195 27 116 4.06e-21 92.8
MsaG010817 AT3G06250.1 41.509 106 50 1 94 199 189 282 5.24e-21 92.4
MsaG010817 AT3G06250.3 44.118 102 45 1 94 195 27 116 4.06e-21 92.8
MsaG010817 AT3G06250.3 41.509 106 50 1 94 199 189 282 5.24e-21 92.4
MsaG010817 AT2G43280.2 39.259 135 73 3 110 240 2 131 6.10e-21 87.0
MsaG010817 AT5G18960.2 43.137 102 46 1 94 195 42 131 8.58e-21 92.0
MsaG010817 AT5G18960.2 40.566 106 51 1 94 199 210 303 1.54e-20 91.3
MsaG010817 AT5G18960.1 43.137 102 46 1 94 195 42 131 8.58e-21 92.0
MsaG010817 AT5G18960.1 40.566 106 51 1 94 199 210 303 1.54e-20 91.3
MsaG010817 AT1G52520.1 29.240 171 107 4 34 195 17 182 2.63e-16 78.6
MsaG010817 AT1G80010.1 36.449 107 65 1 95 201 95 198 5.55e-15 74.7
MsaG010817 AT4G19990.7 30.000 150 75 3 92 227 35 168 4.14e-14 72.0
MsaG010817 AT4G19990.3 30.000 150 75 3 92 227 21 154 4.20e-14 72.0
MsaG010817 AT4G19990.4 30.000 150 75 3 92 227 21 154 4.20e-14 72.0
MsaG010817 AT4G19990.5 30.000 150 75 3 92 227 21 154 4.36e-14 72.0
MsaG010817 AT4G19990.6 30.000 150 75 3 92 227 21 154 4.96e-14 72.0
MsaG010817 AT4G19990.2 30.000 150 75 3 92 227 21 154 4.96e-14 72.0
MsaG010817 AT2G32250.6 31.915 141 88 3 61 197 2 138 7.36e-14 71.6
MsaG010817 AT2G32250.1 31.915 141 88 3 61 197 2 138 7.36e-14 71.6
MsaG010817 AT2G32250.3 31.915 141 88 3 61 197 2 138 7.36e-14 71.6
MsaG010817 AT2G32250.2 31.915 141 88 3 61 197 2 138 7.50e-14 71.2
MsaG010817 AT2G32250.4 31.915 141 88 3 61 197 2 138 7.50e-14 71.2
MsaG010817 AT2G32250.5 31.915 141 88 3 61 197 2 138 7.74e-14 71.2
MsaG010817 AT5G28530.3 31.707 123 78 4 78 195 38 159 1.95e-12 67.0
MsaG010817 AT5G28530.2 31.707 123 78 4 78 195 38 159 1.95e-12 67.0
MsaG010817 AT5G28530.4 30.597 134 85 5 69 195 27 159 1.96e-12 67.0
MsaG010817 AT5G28530.1 30.597 134 85 5 69 195 27 159 1.98e-12 67.0
MsaG010817 AT5G28530.5 30.597 134 85 5 69 195 27 159 2.00e-12 67.0
MsaG010817 AT2G27110.2 33.333 171 82 6 41 205 7 151 4.46e-12 66.2
MsaG010817 AT2G27110.1 33.333 171 82 6 41 205 7 151 4.46e-12 66.2
MsaG010817 AT3G22170.2 30.137 146 85 4 70 200 46 189 1.40e-11 64.7
MsaG010817 AT3G22170.1 30.137 146 85 4 70 200 46 189 1.40e-11 64.7
MsaG010817 AT2G32250.7 35.000 100 59 2 100 197 2 97 2.18e-11 63.9
MsaG010817 AT2G32250.8 35.000 100 59 2 100 197 2 97 2.24e-11 63.9
MsaG010817 AT1G10240.2 31.579 152 79 7 58 195 14 154 2.58e-11 63.9
MsaG010817 AT1G10240.1 31.579 152 79 7 58 195 14 154 2.58e-11 63.9

Find 57 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCTAATGCCTCACCATTAC+TGG 0.248927 2:+78167784 None:intergenic
AGGCGTGATGGATCTGTTAT+TGG 0.276667 2:-78167476 MsaT010817.1:CDS
GTAATAACCATCTGGAATTC+TGG 0.278538 2:-78168973 MsaT010817.1:CDS
TGGTTGCAGGGCAATGATTA+TGG 0.280378 2:-78167369 MsaT010817.1:CDS
CAGAAACAAGGGTTGGTTGC+AGG 0.300475 2:-78167382 MsaT010817.1:CDS
CAGGAACTATTGAGGTGATT+TGG 0.320322 2:+78167636 None:intergenic
AGCGAGCTGAAACCTATAAA+AGG 0.338658 2:-78166480 MsaT010817.1:CDS
GTTCTCATAACCGATGTTAC+AGG 0.348049 2:+78167617 None:intergenic
AAGTCCCTTCTGCCTCTTCC+AGG 0.350515 2:+78167278 None:intergenic
AATATGACTCAAGATTCTTC+TGG 0.372511 2:-78167665 MsaT010817.1:CDS
TTTCGATCCAACTGATGAAC+AGG 0.398044 2:-78167699 MsaT010817.1:CDS
GCATTAGCAAATGCTACTAT+TGG 0.399597 2:-78167770 MsaT010817.1:CDS
GGAAATTAAATTCTGGTCTA+TGG 0.402271 2:-78167343 MsaT010817.1:CDS
ATGGTGAGGAAATTAAATTC+TGG 0.421065 2:-78167350 MsaT010817.1:CDS
ATGGTTATTACTGAGTTATA+AGG 0.427405 2:+78168985 None:intergenic
GGCGTGATGGATCTGTTATT+GGG 0.455689 2:-78167475 MsaT010817.1:CDS
CTTCGTTTATGAGCAATATC+CGG 0.471781 2:-78167258 MsaT010817.1:intron
GCTCTAGTTTGTAACAAAGA+AGG 0.478666 2:-78167449 MsaT010817.1:CDS
ATAACTCAGTAATAACCATC+TGG 0.481933 2:-78168981 MsaT010817.1:CDS
AAATGCATGTGCTTCAGCTT+CGG 0.486804 2:+78167559 None:intergenic
GGTGCAGTGGAGATTGAGAT+TGG 0.489609 2:-78167812 MsaT010817.1:intron
AATTCATATGCTACACGTGT+TGG 0.492545 2:-78167533 MsaT010817.1:CDS
TGATGGATCTGTTATTGGGC+GGG 0.492905 2:-78167471 MsaT010817.1:CDS
TCTTGATCCTGTTCATCAGT+TGG 0.497177 2:+78167692 None:intergenic
AGAAACAAGGGTTGGTTGCA+GGG 0.508414 2:-78167381 MsaT010817.1:CDS
CTGCCTCTTCCAGGTGTCAG+AGG 0.510409 2:+78167287 None:intergenic
CTCAATAGTTCCTGTAACAT+CGG 0.518345 2:-78167627 MsaT010817.1:CDS
TACAAACTCCTGGCCGATGT+AGG 0.525221 2:+78167583 None:intergenic
ACAAGCGGGAAAAGATTGTA+AGG 0.526019 2:-78167412 MsaT010817.1:CDS
CACACACATCCTCTGACACC+TGG 0.532917 2:-78167296 MsaT010817.1:CDS
CTCTCAAGATCAAGGCGTGA+TGG 0.535255 2:-78167488 MsaT010817.1:CDS
ACAAACTCCTGGCCGATGTA+GGG 0.537780 2:+78167584 None:intergenic
TTTCAGAATGCCTGACAAGC+GGG 0.539722 2:-78167426 MsaT010817.1:CDS
CATCCTCTGACACCTGGAAG+AGG 0.555269 2:-78167290 MsaT010817.1:CDS
GACTCAAGATTCTTCTGGAG+TGG 0.558618 2:-78167660 MsaT010817.1:CDS
TAAGTAAGCTCTCAAGATCA+AGG 0.559347 2:-78167496 MsaT010817.1:CDS
TAAGGCAAAGGGCAGAAACA+AGG 0.561852 2:-78167394 MsaT010817.1:CDS
TCGAGAACTAACTCAACAGT+TGG 0.562574 2:-78166514 MsaT010817.1:CDS
TGACACCTGGAAGAGGCAGA+AGG 0.566441 2:-78167283 MsaT010817.1:CDS
TGATGAACCCTACATCGGCC+AGG 0.568038 2:-78167591 MsaT010817.1:CDS
GGGAAAAGATTGTAAGGCAA+AGG 0.569600 2:-78167406 MsaT010817.1:CDS
GGAAAAGATTGTAAGGCAAA+GGG 0.570713 2:-78167405 MsaT010817.1:CDS
CAGCTTCGGATACAAACTCC+TGG 0.571675 2:+78167573 None:intergenic
CGATGTTACAGGAACTATTG+AGG 0.587098 2:+78167628 None:intergenic
GACACCTGGAAGAGGCAGAA+GGG 0.590498 2:-78167282 MsaT010817.1:CDS
TGTACTCATATAACAAGTCA+AGG 0.602934 2:+78166455 None:intergenic
GTGATGGATCTGTTATTGGG+CGG 0.611640 2:-78167472 MsaT010817.1:CDS
CAAAGGGCAGAAACAAGGGT+TGG 0.628129 2:-78167389 MsaT010817.1:CDS
AGCAAATGCTACTATTGGAG+AGG 0.632541 2:-78167765 MsaT010817.1:CDS
GTTTCAGAATGCCTGACAAG+CGG 0.633841 2:-78167427 MsaT010817.1:CDS
GAGATTGGTGACTCCAGTAA+TGG 0.635105 2:-78167797 MsaT010817.1:CDS
ACAATTGATGAACCCTACAT+CGG 0.643960 2:-78167596 MsaT010817.1:CDS
TGGTGACTCCAGTAATGGTG+AGG 0.657202 2:-78167792 MsaT010817.1:CDS
AAGGCAAAGGGCAGAAACAA+GGG 0.671184 2:-78167393 MsaT010817.1:CDS
ACGGCATCCAGAATTCCAGA+TGG 0.673974 2:+78168966 None:intergenic
GCAGGGCAATGATTATGGTG+AGG 0.678028 2:-78167364 MsaT010817.1:CDS
CTTGTTATATGAGTACATCG+AGG 0.731335 2:-78166449 MsaT010817.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 78166410 78169028 78166410 ID=MsaG010817
Chr2 mRNA 78166410 78169028 78166410 ID=MsaT010817.1;Parent=MsaG010817
Chr2 exon 78166410 78166553 78166410 ID=MsaT010817.1.exon3;Parent=MsaT010817.1
Chr2 CDS 78166410 78166553 78166410 ID=cds.MsaT010817.1;Parent=MsaT010817.1
Chr2 exon 78167259 78167827 78167259 ID=MsaT010817.1.exon2;Parent=MsaT010817.1
Chr2 CDS 78167259 78167827 78167259 ID=cds.MsaT010817.1;Parent=MsaT010817.1
Chr2 exon 78168968 78169028 78168968 ID=MsaT010817.1.exon1;Parent=MsaT010817.1
Chr2 CDS 78168968 78169028 78168968 ID=cds.MsaT010817.1;Parent=MsaT010817.1
Gene Sequence

>MsaT010817.1

ATGAAGAACATATTTTTGAGACCTTATAACTCAGTAATAACCATCTGGAATTCTGGATGCCTGGAGATTGAGATTGGTGACTCCAGTAATGGTGAGGCATTAGCAAATGCTACTATTGGAGAGGTCAATAGTAGCATAGCTGACAAAGAAATAATTGAATGCAGTTCTTTCGATCCAACTGATGAACAGGATCAAGATGATAATATGACTCAAGATTCTTCTGGAGTGGACCAAATCACCTCAATAGTTCCTGTAACATCGGTTATGAGAACAATTGATGAACCCTACATCGGCCAGGAGTTTGTATCCGAAGCTGAAGCACATGCATTTTATAATTCATATGCTACACGTGTTGGATTCGTCATACGTGTAAGTAAGCTCTCAAGATCAAGGCGTGATGGATCTGTTATTGGGCGGGCTCTAGTTTGTAACAAAGAAGGTTTCAGAATGCCTGACAAGCGGGAAAAGATTGTAAGGCAAAGGGCAGAAACAAGGGTTGGTTGCAGGGCAATGATTATGGTGAGGAAATTAAATTCTGGTCTATGGTCTATAACAAAGTTTGTAAAAGAGCACACACATCCTCTGACACCTGGAAGAGGCAGAAGGGACTTCGTTTATGAGCAATATCCGAGTGGACACGACAGAGTTCGAGAACTAACTCAACAGTTGGCTATAGAGAAAAGCGAGCTGAAACCTATAAAAGGAACCTTGACTTGTTATATGAGTACATCGAGGAGCATAATGAAGCTGTTTCAAAGAAGATACAGCACATAG
Protein sequence

>MsaT010817.1

MKNIFLRPYNSVITIWNSGCLEIEIGDSSNGEALANATIGEVNSSIADKEIIECSSFDPTDEQDQDDNMTQDSSGVDQITSIVPVTSVMRTIDEPYIGQEFVSEAEAHAFYNSYATRVGFVIRVSKLSRSRRDGSVIGRALVCNKEGFRMPDKREKIVRQRAETRVGCRAMIMVRKLNSGLWSITKFVKEHTHPLTPGRGRRDFVYEQYPSGHDRVRELTQQLAIEKSELKPIKGTLTCYMSTSRSIMKLFQRRYST*