AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG026847

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026847 MtrunA17_Chr5g0417571 87.387 333 29 3 1 331 1 322 0.0 539
MsaG026847 MtrunA17_Chr5g0417551 63.472 386 71 8 1 331 1 371 1.52e-146 417
MsaG026847 MtrunA17_Chr5g0417601 58.122 394 89 6 1 331 1 381 2.15e-134 387
MsaG026847 MtrunA17_Chr5g0417561 58.808 386 81 10 1 331 1 363 8.09e-131 377
MsaG026847 MtrunA17_Chr4g0042481 36.250 400 120 15 2 301 4 368 3.87e-54 184
MsaG026847 MtrunA17_Chr7g0217581 40.149 269 104 9 4 243 103 343 6.86e-44 158
MsaG026847 MtrunA17_Chr6g0453321 39.167 240 113 7 6 220 8 239 4.69e-40 147
MsaG026847 MtrunA17_Chr3g0092111 38.889 234 113 7 7 216 9 236 3.07e-36 136
MsaG026847 MtrunA17_Chr7g0254161 54.918 122 32 4 120 220 86 205 5.05e-35 132
MsaG026847 MtrunA17_Chr6g0460731 55.340 103 42 2 97 195 53 155 3.03e-33 126
MsaG026847 MtrunA17_Chr8g0355261 73.529 68 18 0 125 192 106 173 4.86e-32 124
MsaG026847 MtrunA17_Chr6g0460721 54.167 96 41 1 98 190 47 142 2.21e-30 117
MsaG026847 MtrunA17_Chr2g0283811 71.667 60 17 0 131 190 41 100 1.37e-29 110
MsaG026847 MtrunA17_Chr2g0326001 65.152 66 22 1 126 190 28 93 1.55e-25 103
MsaG026847 MtrunA17_Chr3g0127201 58.571 70 29 0 124 193 14 83 3.71e-25 102
MsaG026847 MtrunA17_Chr8g0374111 49.451 91 35 1 129 208 21 111 2.22e-24 99.4
MsaG026847 MtrunA17_Chr2g0328021 57.143 70 30 0 121 190 46 115 3.66e-24 100
MsaG026847 MtrunA17_Chr8g0341671 62.500 64 23 1 126 188 8 71 8.89e-24 97.4
MsaG026847 MtrunA17_Chr4g0010151 50.000 76 38 0 115 190 60 135 1.05e-23 100
MsaG026847 MtrunA17_Chr8g0346551 62.712 59 22 0 132 190 19 77 1.19e-23 98.2
MsaG026847 MtrunA17_Chr8g0374251 58.667 75 30 1 135 208 66 140 2.63e-23 98.6
MsaG026847 MtrunA17_Chr4g0030051 61.538 65 24 1 126 189 29 93 3.26e-23 97.4
MsaG026847 MtrunA17_Chr4g0061761 67.925 53 17 0 135 187 38 90 1.82e-22 95.9
MsaG026847 MtrunA17_Chr1g0188851 59.375 64 25 1 127 189 32 95 1.92e-22 95.1
MsaG026847 MtrunA17_Chr8g0367161 54.167 72 33 0 119 190 14 85 2.75e-22 95.5
MsaG026847 MtrunA17_Chr7g0223311 70.588 51 15 0 139 189 79 129 2.96e-22 96.3
MsaG026847 MtrunA17_Chr4g0047001 71.154 52 15 0 139 190 57 108 3.73e-22 95.9
MsaG026847 MtrunA17_Chr3g0126201 56.338 71 29 2 122 190 34 104 4.25e-22 95.1
MsaG026847 MtrunA17_Chr4g0031411 61.404 57 22 0 133 189 71 127 7.99e-22 94.4
MsaG026847 MtrunA17_Chr2g0308011 68.000 50 16 0 136 185 36 85 1.34e-21 91.3
MsaG026847 MtrunA17_Chr1g0177251 61.667 60 22 1 132 190 6 65 1.40e-21 92.8
MsaG026847 MtrunA17_Chr5g0411951 65.455 55 19 0 133 187 39 93 1.41e-21 93.6
MsaG026847 MtrunA17_Chr2g0282051 67.857 56 17 1 135 190 44 98 1.86e-21 92.0
MsaG026847 MtrunA17_Chr4g0047761 66.038 53 18 0 139 191 74 126 2.38e-21 92.8
MsaG026847 MtrunA17_Chr7g0237921 65.385 52 18 0 139 190 78 129 8.75e-21 91.7
MsaG026847 MtrunA17_Chr2g0282511 66.000 50 17 0 136 185 44 93 3.83e-20 89.4
MsaG026847 MtrunA17_Chr3g0117601 38.136 118 55 2 70 187 12 111 4.04e-20 89.7
MsaG026847 MtrunA17_Chr2g0282441 70.000 50 15 0 139 188 27 76 4.86e-20 89.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026847 AT1G69570.1 41.969 193 72 7 131 297 126 304 1.56e-39 144
MsaG026847 AT5G62430.1 43.367 196 95 6 122 309 38 225 3.40e-39 140
MsaG026847 AT5G39660.3 32.787 366 164 12 2 297 1 354 4.82e-39 144
MsaG026847 AT5G39660.1 32.787 366 164 12 2 297 1 354 4.82e-39 144
MsaG026847 AT5G39660.2 32.787 366 164 12 2 297 1 354 4.82e-39 144
MsaG026847 AT1G26790.1 38.723 235 115 9 93 306 65 291 1.53e-37 138
MsaG026847 AT3G47500.1 54.955 111 37 1 86 196 72 169 3.76e-33 127
MsaG026847 AT1G29160.1 66.667 69 20 1 122 190 50 115 1.42e-31 117
MsaG026847 AT2G34140.1 46.903 113 50 3 85 190 2 111 6.27e-31 115
MsaG026847 AT5G60200.1 63.077 65 24 0 130 194 48 112 3.13e-25 102
MsaG026847 AT1G51700.1 59.722 72 27 2 125 194 20 91 1.08e-24 99.4
MsaG026847 AT3G45610.1 63.077 65 24 0 130 194 33 97 3.40e-24 99.4
MsaG026847 AT4G24060.1 60.606 66 26 0 125 190 41 106 3.95e-24 101
MsaG026847 AT3G61850.2 57.143 70 30 0 125 194 50 119 1.73e-23 98.6
MsaG026847 AT3G61850.3 57.143 70 30 0 125 194 50 119 1.73e-23 98.6
MsaG026847 AT3G55370.3 42.268 97 55 1 98 194 83 178 1.92e-23 99.8
MsaG026847 AT3G61850.1 57.143 70 30 0 125 194 62 131 2.01e-23 98.6
MsaG026847 AT2G28810.2 44.318 88 47 1 101 188 43 128 2.01e-23 99.0
MsaG026847 AT3G55370.1 42.268 97 55 1 98 194 38 133 2.03e-23 99.0
MsaG026847 AT2G37590.1 48.649 74 38 0 117 190 69 142 2.14e-23 99.0
MsaG026847 AT3G61850.5 57.143 70 30 0 125 194 50 119 2.42e-23 98.6
MsaG026847 AT2G28810.1 44.318 88 47 1 101 188 60 145 2.77e-23 99.0
MsaG026847 AT3G61850.4 57.143 70 30 0 125 194 62 131 2.78e-23 98.6
MsaG026847 AT3G55370.2 42.268 97 55 1 98 194 38 133 2.95e-23 99.0
MsaG026847 AT5G60850.1 65.000 60 21 0 135 194 49 108 5.69e-23 97.4
MsaG026847 AT3G50410.1 69.231 52 16 0 137 188 30 81 1.67e-22 95.1
MsaG026847 AT2G28510.1 67.857 56 18 0 139 194 50 105 2.88e-22 95.1
MsaG026847 AT3G21270.1 70.588 51 15 0 139 189 31 81 2.97e-22 93.2
MsaG026847 AT1G07640.1 68.627 51 16 0 139 189 23 73 3.98e-22 94.4
MsaG026847 AT1G07640.2 68.627 51 16 0 139 189 79 129 4.66e-22 95.5
MsaG026847 AT1G07640.3 68.627 51 16 0 139 189 87 137 5.43e-22 95.1
MsaG026847 AT5G66940.1 44.211 95 40 1 95 189 3 84 7.42e-22 92.4
MsaG026847 AT5G65590.1 49.462 93 45 1 100 192 6 96 1.62e-21 93.6
MsaG026847 AT1G28310.1 66.667 54 18 0 137 190 27 80 2.15e-21 93.2
MsaG026847 AT1G64620.1 56.250 64 27 1 122 185 35 97 2.87e-21 93.6
MsaG026847 AT1G28310.2 66.667 54 18 0 137 190 51 104 2.91e-21 93.2
MsaG026847 AT1G47655.1 48.718 78 37 1 108 185 3 77 3.76e-21 90.1
MsaG026847 AT4G38000.1 66.071 56 18 1 136 190 40 95 4.99e-21 90.9
MsaG026847 AT4G00940.1 59.322 59 24 0 132 190 63 121 7.39e-21 91.3
MsaG026847 AT4G00940.3 59.322 59 24 0 132 190 63 121 7.39e-21 91.3
MsaG026847 AT4G00940.2 59.322 59 24 0 132 190 63 121 7.39e-21 91.3
MsaG026847 AT5G02460.1 60.345 58 23 0 133 190 91 148 7.95e-21 92.8
MsaG026847 AT3G52440.1 47.778 90 41 2 135 223 22 106 1.03e-20 90.1
MsaG026847 AT3G52440.2 47.778 90 41 2 135 223 41 125 1.68e-20 89.7
MsaG026847 AT5G62940.1 40.984 122 48 2 139 236 75 196 2.28e-20 91.3
MsaG026847 AT1G21340.1 66.000 50 17 0 139 188 40 89 2.57e-20 89.4
MsaG026847 AT2G46590.1 60.377 53 21 0 132 184 63 115 6.71e-20 89.7
MsaG026847 AT2G46590.2 60.377 53 21 0 132 184 75 127 7.53e-20 89.7
MsaG026847 AT4G21050.1 54.545 66 30 0 125 190 12 77 3.05e-19 85.1
MsaG026847 AT4G21040.1 61.538 52 20 0 139 190 27 78 3.99e-17 79.7
MsaG026847 AT4G21080.1 61.538 52 20 0 139 190 27 78 1.52e-16 78.6

Find 51 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCCTTAAAGTTAGTTTATT+TGG 0.151164 5:+30224625 None:intergenic
AACCAAATAAACTAACTTTA+AGG 0.169523 5:-30224627 MsaT026847.1:CDS
CCACCATAGAATGCTATATT+TGG 0.230148 5:+30224700 None:intergenic
ACAACTTGGTCTGGTTTCTT+TGG 0.248772 5:+30225093 None:intergenic
CTCCAGAAGTCCAGTATCTT+TGG 0.293736 5:+30224980 None:intergenic
TGCCAAAGATACTGGACTTC+TGG 0.300675 5:-30224982 MsaT026847.1:CDS
AATGCTATATTTGGATAGAT+TGG 0.337846 5:+30224709 None:intergenic
ATGAGTACTGTCTTGACATT+TGG 0.342898 5:-30224868 MsaT026847.1:CDS
TATCCAAATATAGCATTCTA+TGG 0.352424 5:-30224703 MsaT026847.1:CDS
AGTGAAGTTGAAGACATAAT+AGG 0.361504 5:+30224835 None:intergenic
ACATGATGCAAAGAGATATA+AGG 0.388068 5:-30225973 MsaT026847.1:intron
ATTCTGAATCCTCTGTGGTT+TGG 0.395071 5:+30225232 None:intergenic
AGCATTCTATGGTGGTTGTT+TGG 0.399605 5:-30224692 MsaT026847.1:CDS
GGACATGGAACAACTTGGTC+TGG 0.406395 5:+30225084 None:intergenic
GTGGTTGTTTGGTACCATCT+TGG 0.412555 5:-30224681 MsaT026847.1:CDS
ACCACGAGAAATATGCTTAT+AGG 0.437951 5:-30224955 MsaT026847.1:CDS
ATCTTTCGTTCAAAGAATGA+TGG 0.447271 5:-30224580 MsaT026847.1:CDS
CTCAATAAGGCTTGAAGATG+TGG 0.447964 5:+30225206 None:intergenic
CTAACGCTGCAGCTTTATCA+AGG 0.467712 5:-30224534 MsaT026847.1:CDS
GTTGAAGAATTCACTTCAAG+TGG 0.481761 5:+30225999 None:intergenic
TAAGGAAACATTCAAGAGAT+GGG 0.488389 5:-30224609 MsaT026847.1:CDS
AAATCTTCATGAGCAATAGT+AGG 0.488963 5:+30226062 None:intergenic
TTCCAAATCAAATCATCTCA+TGG 0.489753 5:+30224500 None:intergenic
TACTGTCTTGACATTTGGAT+CGG 0.502009 5:-30224863 MsaT026847.1:CDS
AAAAGAACTCATCGAGGATG+AGG 0.512018 5:-30225262 MsaT026847.1:CDS
TTAAGGAAACATTCAAGAGA+TGG 0.512653 5:-30224610 MsaT026847.1:CDS
GACGTCTCTGTTTCAGATGA+GGG 0.514212 5:+30225171 None:intergenic
TTCATTAGACTGTGTTGAGA+TGG 0.528897 5:+30224648 None:intergenic
AGAAATATGCTTATAGGCGC+AGG 0.536173 5:-30224949 MsaT026847.1:CDS
ATATTTGGATAGATTGGCAC+AGG 0.538462 5:+30224715 None:intergenic
TAACACATAGCAGGATTCCA+TGG 0.544411 5:+30224739 None:intergenic
GAATGATGGAGGACTTTCCA+AGG 0.552945 5:-30224566 MsaT026847.1:CDS
AGACGTCTCTGTTTCAGATG+AGG 0.571871 5:+30225170 None:intergenic
ATCTTGGACATGGAACAACT+TGG 0.574876 5:+30225079 None:intergenic
GCCTATAAGCATATTTCTCG+TGG 0.581874 5:+30224954 None:intergenic
TCAATAAGGCTTGAAGATGT+GGG 0.585209 5:+30225207 None:intergenic
GGCACAGGATAACACATAGC+AGG 0.586834 5:+30224730 None:intergenic
GGATTCCATGGAAACTGTTG+AGG 0.594593 5:+30224751 None:intergenic
AATAGTAGGAGTAAATTCTG+AGG 0.595274 5:+30226076 None:intergenic
AATGATGGAGGACTTTCCAA+GGG 0.597993 5:-30224565 MsaT026847.1:CDS
AGCGTTAGAAGCAAAACCCT+TGG 0.603793 5:+30224549 None:intergenic
ATGGATTGTACGCTCCAAGA+TGG 0.605225 5:+30224667 None:intergenic
AAGGAAACATTCAAGAGATG+GGG 0.613145 5:-30224608 MsaT026847.1:CDS
TTTCGTTCAAAGAATGATGG+AGG 0.623392 5:-30224577 MsaT026847.1:CDS
CAAAGATACTGGACTTCTGG+AGG 0.634659 5:-30224979 MsaT026847.1:CDS
CCAAATATAGCATTCTATGG+TGG 0.645659 5:-30224700 MsaT026847.1:CDS
GGGAGATTCTGAATCCTCTG+TGG 0.656736 5:+30225227 None:intergenic
ATGTCCAAGATGCAAAAGCA+CGG 0.662046 5:-30225067 MsaT026847.1:CDS
ATCAAGAAAAGAACTCATCG+AGG 0.704142 5:-30225268 MsaT026847.1:CDS
GGCTTCATTCCAAACCACAG+AGG 0.724092 5:-30225241 MsaT026847.1:CDS
ACTCATTTGATGATGATGTG+AGG 0.757465 5:+30224885 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 30224507 30226180 30224507 ID=MsaG026847
Chr5 mRNA 30224507 30226180 30224507 ID=MsaT026847.1;Parent=MsaG026847
Chr5 exon 30224507 30225295 30224507 ID=MsaT026847.1.exon2;Parent=MsaT026847.1
Chr5 CDS 30224507 30225295 30224507 ID=cds.MsaT026847.1;Parent=MsaT026847.1
Chr5 exon 30225974 30226180 30225974 ID=MsaT026847.1.exon1;Parent=MsaT026847.1
Chr5 CDS 30225974 30226180 30225974 ID=cds.MsaT026847.1;Parent=MsaT026847.1
Gene Sequence

>MsaT026847.1

ATGATAAACAATTCAACCATAAAGCTTTTTGGGAGAACGATTTTTCAAACACACAACACTGATGTCTCTATCAATGATTCTTCCTCAGAATTTACTCCTACTATTGCTCATGAAGATTTCTCTGATCATAGTAGTCATTCATCTTTATCTGCATCTTCTCCACTTGAAGTGAATTCTTCAACTGAACATGATGCAAAGAGATATAAGGAAACATCAAGAAAAGAACTCATCGAGGATGAGGCTTCATTCCAAACCACAGAGGATTCAGAATCTCCCACATCTTCAAGCCTTATTGAGAACCTGAAAACTCCCTCATCTGAAACAGAGACGTCTCAATCAATTTCCACTAAAATTGATGAACAAACTGATATGTCACAAGAAAAATCTCCAAAGAAACCAGACCAAGTTGTTCCATGTCCAAGATGCAAAAGCACGGACACAAAATTTTGCTACTACAACAACTACAACGTCAAACAGCCTCGACACTTCTGCAAAAATTGCCAAAGATACTGGACTTCTGGAGGAACCACGAGAAATATGCTTATAGGCGCAGGTCGTCGTAAGAACAAAATATCTTCTTCTTTTCATTCTGATACCTCACATCATCATCAAATGAGTACTGTCTTGACATTTGGATCGGATTCTCCTATTATGTCTTCAACTTCACTTCACAAAAAAGGGAATGTTGGTTCACTTGAAAAAACATTTGACAAGAGTTATCAAAGTTTTCCTCAACAGTTTCCATGGAATCCTGCTATGTGTTATCCTGTGCCAATCTATCCAAATATAGCATTCTATGGTGGTTGTTTGGTACCATCTTGGAGCGTACAATCCATCTCAACACAGTCTAATGAACCAAATAAACTAACTTTAAGGAAACATTCAAGAGATGGGGACACTATCTTTCGTTCAAAGAATGATGGAGGACTTTCCAAGGGTTTTGCTTCTAACGCTGCAGCTTTATCAAGGTCACTTTTGTTCCATGAGATGATTTGA
Protein sequence

>MsaT026847.1

MINNSTIKLFGRTIFQTHNTDVSINDSSSEFTPTIAHEDFSDHSSHSSLSASSPLEVNSSTEHDAKRYKETSRKELIEDEASFQTTEDSESPTSSSLIENLKTPSSETETSQSISTKIDEQTDMSQEKSPKKPDQVVPCPRCKSTDTKFCYYNNYNVKQPRHFCKNCQRYWTSGGTTRNMLIGAGRRKNKISSSFHSDTSHHHQMSTVLTFGSDSPIMSSTSLHKKGNVGSLEKTFDKSYQSFPQQFPWNPAMCYPVPIYPNIAFYGGCLVPSWSVQSISTQSNEPNKLTLRKHSRDGDTIFRSKNDGGLSKGFASNAAALSRSLLFHEMI*