AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG044774

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044774 MtrunA17_Chr4g0055931 99.387 326 2 0 1 326 1 326 0.0 669
MsaG044774 MtrunA17_Chr2g0331031 51.744 344 139 11 1 323 1 338 2.52e-97 291
MsaG044774 MtrunA17_Chr5g0415191 48.768 203 65 5 1 183 3 186 1.98e-48 164
MsaG044774 MtrunA17_Chr6g0488471 47.568 185 75 4 1 173 1 175 7.88e-46 157
MsaG044774 MtrunA17_Chr8g0389241 48.889 180 70 6 3 167 4 176 3.00e-42 147
MsaG044774 MtrunA17_Chr4g0059701 54.902 153 58 5 15 162 5 151 2.36e-36 132
MsaG044774 MtrunA17_Chr1g0210471 52.800 125 43 2 49 173 93 201 2.14e-35 128
MsaG044774 MtrunA17_Chr3g0135671 41.622 185 94 4 1 180 3 178 2.96e-34 125
MsaG044774 MtrunA17_Chr4g0062741 58.654 104 36 1 89 192 132 228 1.68e-33 125
MsaG044774 MtrunA17_Chr3g0104071 60.000 100 38 1 71 168 121 220 2.93e-32 122
MsaG044774 MtrunA17_Chr1g0162081 47.727 132 57 2 37 168 76 195 1.51e-31 120
MsaG044774 MtrunA17_Chr5g0429521 73.239 71 19 0 89 159 126 196 4.19e-31 119
MsaG044774 MtrunA17_Chr7g0241761 66.667 81 27 0 87 167 132 212 4.77e-31 119
MsaG044774 MtrunA17_Chr3g0092621 67.647 68 22 0 95 162 84 151 4.77e-28 107
MsaG044774 MtrunA17_Chr5g0436501 64.198 81 27 1 90 168 120 200 7.48e-28 109
MsaG044774 MtrunA17_Chr5g0409841 36.111 144 86 3 47 184 42 185 6.05e-23 95.1
MsaG044774 MtrunA17_Chr6g0452791 47.368 95 42 1 96 190 81 167 1.69e-20 87.0
MsaG044774 MtrunA17_Chr5g0440731 40.678 118 58 4 47 158 60 171 5.61e-20 88.6
MsaG044774 MtrunA17_Chr5g0440741 41.379 116 55 5 47 158 60 166 1.33e-19 87.4
MsaG044774 MtrunA17_Chr5g0409831 47.368 76 39 1 68 142 49 124 3.32e-18 82.0
MsaG044774 MtrunA17_Chr1g0192061 36.719 128 65 5 43 157 1 125 2.73e-15 73.2
MsaG044774 MtrunA17_Chr8g0365011 41.237 97 37 3 92 168 83 179 3.09e-15 74.7
MsaG044774 MtrunA17_Chr8g0364731 58.621 58 22 1 104 159 10 67 6.94e-15 72.0
MsaG044774 MtrunA17_Chr5g0432921 39.583 96 43 4 76 157 83 177 2.45e-12 65.5
MsaG044774 MtrunA17_Chr3g0113121 35.088 114 62 3 97 201 97 207 2.20e-11 62.8
MsaG044774 MtrunA17_Chr8g0370121 28.244 131 89 2 92 220 97 224 4.91e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044774 AT5G47390.1 63.277 354 95 10 1 321 1 352 1.58e-135 389
MsaG044774 AT3G16350.1 45.288 382 131 15 1 318 1 368 4.74e-71 226
MsaG044774 AT5G61620.1 50.267 187 71 5 1 173 8 186 1.52e-49 168
MsaG044774 AT1G70000.1 50.244 205 59 7 1 185 1 182 2.39e-48 163
MsaG044774 AT1G70000.2 50.244 205 59 7 1 185 1 182 2.39e-48 163
MsaG044774 AT5G56840.1 44.751 181 57 6 1 161 1 158 2.82e-39 139
MsaG044774 AT2G38090.1 71.795 78 22 0 90 167 136 213 2.51e-33 125
MsaG044774 AT1G74840.2 52.667 150 55 5 21 162 22 163 4.71e-33 122
MsaG044774 AT1G19000.2 45.128 195 89 4 5 191 4 188 5.95e-33 123
MsaG044774 AT1G19000.1 45.128 195 89 4 5 191 4 188 5.95e-33 123
MsaG044774 AT1G74840.1 52.667 150 55 5 21 162 22 163 7.76e-33 122
MsaG044774 AT5G08520.1 52.336 107 51 0 62 168 85 191 8.76e-33 123
MsaG044774 AT1G49010.1 68.293 82 24 1 89 168 128 209 1.15e-32 123
MsaG044774 AT5G04760.1 62.195 82 31 0 83 164 87 168 1.23e-31 118
MsaG044774 AT5G58900.1 72.857 70 19 0 90 159 136 205 5.34e-31 118
MsaG044774 AT3G11280.2 55.000 100 45 0 60 159 92 191 8.52e-29 112
MsaG044774 AT3G11280.1 55.000 100 45 0 60 159 92 191 8.52e-29 112
MsaG044774 AT5G01200.1 63.636 77 28 0 89 165 140 216 3.38e-28 110
MsaG044774 AT5G05790.2 63.636 77 28 0 83 159 119 195 1.26e-26 106
MsaG044774 AT5G05790.1 63.636 77 28 0 83 159 119 195 1.26e-26 106
MsaG044774 AT3G10580.2 48.039 102 51 1 68 169 68 167 8.12e-24 98.6
MsaG044774 AT3G10580.1 48.039 102 51 1 68 169 68 167 1.29e-23 98.6
MsaG044774 AT4G09450.1 48.515 101 46 2 75 169 68 168 6.13e-22 92.0
MsaG044774 AT5G23650.1 51.948 77 37 0 83 159 108 184 1.53e-20 90.9
MsaG044774 AT3G10590.1 48.276 87 41 3 79 162 92 177 3.53e-18 82.0

Find 102 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTTCATGTGTTTCTTTCTT+AGG 0.230059 8:-64724314 None:intergenic
ATCGACATTGATTGGGCTCT+TGG 0.306199 8:-64724360 None:intergenic
GATCCGGAAAAGTGCTAGTA+TGG 0.310152 8:+64721708 MsaT044774.1:CDS
CATTGATGTCGGGCTTTAAT+GGG 0.332518 8:-64724193 None:intergenic
GCATTGATGTCGGGCTTTAA+TGG 0.338606 8:-64724194 None:intergenic
AACAGCTTCACACCACGATT+TGG 0.346847 8:-64721664 None:intergenic
ATTGGGCTCTTGGAATGTAC+TGG 0.350663 8:-64724350 None:intergenic
ACGAGTTCATCGACATTGAT+TGG 0.357821 8:-64724368 None:intergenic
CACTATAGCGGGTCCGGGTC+TGG 0.363851 8:+64721742 MsaT044774.1:CDS
GGTGAAACTATTGGTGATAC+TGG 0.369014 8:+64724413 MsaT044774.1:CDS
TTTCCTCTTCCATATTGGTC+TGG 0.369873 8:+64724272 MsaT044774.1:CDS
TGTGTTTCTTTCTTAGGAGC+TGG 0.373891 8:-64724308 None:intergenic
CCTTGATATAACATAGTTCC+TGG 0.379937 8:-64723205 None:intergenic
CTTAGCCACTATAGCGGGTC+CGG 0.398806 8:+64721736 MsaT044774.1:CDS
GATCATGGTGCTGATGGTTA+TGG 0.418054 8:+64721814 MsaT044774.1:CDS
TAACCATCAGCACCATGATC+AGG 0.421312 8:-64721811 None:intergenic
CTCTTGGAATGTACTGGGGT+TGG 0.426876 8:-64724344 None:intergenic
TTCATACAACTCCAGCTTGT+GGG 0.433206 8:+64724492 MsaT044774.1:CDS
TTGGGCTCTTGGAATGTACT+GGG 0.435041 8:-64724349 None:intergenic
GGAAGAGGAAAAGGGAAGAA+TGG 0.436557 8:-64724260 None:intergenic
GACCAATATGGAAGAGGAAA+AGG 0.441108 8:-64724269 None:intergenic
TGCGGTACCATTGAAGTATC+AGG 0.442348 8:-64724038 None:intergenic
CTGAGTTTAGGTGAAACTAT+TGG 0.449826 8:+64724404 MsaT044774.1:CDS
GCAGGCACCTGATACTTCAA+TGG 0.455907 8:+64724031 MsaT044774.1:intron
GACGCTTGTGCATTGATGTC+GGG 0.457053 8:-64724203 None:intergenic
GGACTGTATCCAGACCAATA+TGG 0.463662 8:-64724281 None:intergenic
AATCGTGGTGTGAAGCTGTT+TGG 0.464828 8:+64721667 MsaT044774.1:CDS
CGAGTTCATCGACATTGATT+GGG 0.465415 8:-64724367 None:intergenic
CATCTGCAACAATATCAAAC+AGG 0.473584 8:-64723308 None:intergenic
TGCACAAGCGTCGGCTTACC+CGG 0.477679 8:+64724214 MsaT044774.1:CDS
TGAAAAGCCGACTGTCTAGA+AGG 0.477844 8:-64724473 None:intergenic
ACAAGCTGGGCAAAGGTGAT+TGG 0.481462 8:+64723172 MsaT044774.1:CDS
GTTCTCATTGCAGCCACAAT+GGG 0.482827 8:+64721623 MsaT044774.1:CDS
TCATCGAGTGGAGGAGGAGC+AGG 0.484781 8:-64724116 None:intergenic
CTATGTTCCTCCTCAGTCCA+TGG 0.485937 8:-64723129 None:intergenic
GGCATGTCAAAACTGAGTTT+AGG 0.490022 8:+64724392 MsaT044774.1:CDS
TAAGATTAACCGATGGGATC+CGG 0.490318 8:+64721692 MsaT044774.1:CDS
TCTTTCTTAGGAGCTGGCTC+AGG 0.491218 8:-64724302 None:intergenic
AAGAATGGAGAATAATATGC+TGG 0.499540 8:-64724245 None:intergenic
GTTTGAGTTTGTAGAATCCA+TGG 0.503591 8:-64724150 None:intergenic
CGACGCTTGTGCATTGATGT+CGG 0.504753 8:-64724204 None:intergenic
GTGATTGGCGTGGAATTGCC+AGG 0.506530 8:+64723187 MsaT044774.1:CDS
CAGACCCGGACCCGCTATAG+TGG 0.508114 8:-64721741 None:intergenic
CACAGAACAGTCCCACAAGC+TGG 0.510753 8:-64724503 None:intergenic
TTACTTGGATTGAACAAGCT+GGG 0.512315 8:+64723159 MsaT044774.1:CDS
CATTCTTCATCGAGTGGAGG+AGG 0.516097 8:-64724122 None:intergenic
ACCAATATGGAAGAGGAAAA+GGG 0.517539 8:-64724268 None:intergenic
CCAGGAACTATGTTATATCA+AGG 0.521846 8:+64723205 MsaT044774.1:CDS
AGTGGAGGAGGAGCAGGCAA+AGG 0.525729 8:-64724110 None:intergenic
TTTACTTGGATTGAACAAGC+TGG 0.526943 8:+64723158 MsaT044774.1:CDS
TCAAATACTCCTGGTTCACC+TGG 0.529002 8:+64721781 MsaT044774.1:CDS
TAAGAAAGAAACACATGAAG+TGG 0.531198 8:+64724316 MsaT044774.1:CDS
TAATATGCTGGATATACTAC+CGG 0.533057 8:-64724233 None:intergenic
CGATGAAGAATGTGAGTCCA+TGG 0.537872 8:+64724133 MsaT044774.1:CDS
GTGGAGGAGGAGCAGGCAAA+GGG 0.545011 8:-64724109 None:intergenic
AACCCTGATCATGGTGCTGA+TGG 0.553194 8:+64721808 MsaT044774.1:CDS
GTCGGGCTTTAATGGGGCAG+AGG 0.557337 8:-64724186 None:intergenic
TGCAACAATATCAAACAGGC+TGG 0.557484 8:-64723304 None:intergenic
TGTTCTCATTGCAGCCACAA+TGG 0.558526 8:+64721622 MsaT044774.1:CDS
GGTAATCTTAGCCACTATAG+CGG 0.560908 8:+64721730 MsaT044774.1:CDS
TCTCGTAAACTACTTGAAGA+AGG 0.563354 8:+64724449 MsaT044774.1:CDS
GATTCTACAAACTCAAACGA+TGG 0.564664 8:+64724155 MsaT044774.1:CDS
TATCCAGACCAATATGGAAG+AGG 0.565662 8:-64724275 None:intergenic
TTAGCCACTATAGCGGGTCC+GGG 0.567360 8:+64721737 MsaT044774.1:CDS
TTTCATACAACTCCAGCTTG+TGG 0.570031 8:+64724491 MsaT044774.1:CDS
AGTTTACGAGACAGAGTCGA+GGG 0.572728 8:-64724437 None:intergenic
TCAGGCAAAGCAATGTGTCT+AGG 0.575738 8:+64723268 MsaT044774.1:CDS
AATACCGGGTCAAATACTCC+TGG 0.575888 8:+64721772 MsaT044774.1:CDS
TTGGAGTAAGATTAACCGAT+GGG 0.581339 8:+64721686 MsaT044774.1:CDS
TGCTGATGGTTATGGTTCTG+AGG 0.588306 8:+64721822 MsaT044774.1:CDS
GGATTGAACAAGCTGGGCAA+AGG 0.588333 8:+64723165 MsaT044774.1:CDS
AACCATCAGCACCATGATCA+GGG 0.589650 8:-64721810 None:intergenic
CCTGGTGAAAACCCTGATCA+TGG 0.590290 8:+64721799 MsaT044774.1:CDS
GTAATCTTAGCCACTATAGC+GGG 0.591144 8:+64721731 MsaT044774.1:CDS
CGGGAAGTAGAAGAAGAACC+AGG 0.591204 8:-64721853 None:intergenic
ATCAATGTCGATGAACTCGT+TGG 0.598709 8:+64724371 MsaT044774.1:CDS
GACTCACATTCTTCATCGAG+TGG 0.599669 8:-64724128 None:intergenic
AGAAGGTCCTTCTAGACAGT+CGG 0.599702 8:+64724466 MsaT044774.1:CDS
CAACTACAAACTGAAACAGA+AGG 0.603118 8:+64724080 MsaT044774.1:CDS
ATTGATGTCGGGCTTTAATG+GGG 0.617600 8:-64724192 None:intergenic
ATCCGGAAAAGTGCTAGTAT+GGG 0.617740 8:+64721709 MsaT044774.1:CDS
TTCTTGAGTTGTGCCCATTG+TGG 0.619382 8:-64721636 None:intergenic
ATCAAGGACACCTACTCAAG+TGG 0.620432 8:+64723221 MsaT044774.1:CDS
GCTGCAATGAGAACAACGAC+GGG 0.624049 8:-64721614 None:intergenic
CGACATCAATGCACAAGCGT+CGG 0.624911 8:+64724205 MsaT044774.1:CDS
CTGGGCAAAGGTGATTGGCG+TGG 0.626265 8:+64723177 MsaT044774.1:CDS
TTTGGAGTAAGATTAACCGA+TGG 0.628079 8:+64721685 MsaT044774.1:CDS
ATGTGTCTAGGCGGAAGAGA+CGG 0.634804 8:+64723280 MsaT044774.1:CDS
AATATGCTGGATATACTACC+GGG 0.636844 8:-64724232 None:intergenic
TGGGCTCTTGGAATGTACTG+GGG 0.642523 8:-64724348 None:intergenic
GCGTGACTGGCCACTTGAGT+AGG 0.645270 8:-64723231 None:intergenic
GGCTGCAATGAGAACAACGA+CGG 0.647502 8:-64721615 None:intergenic
TTAGCTGACAAGAAGTCTTG+CGG 0.653600 8:-64724056 None:intergenic
TGCAGGCACTCCATGGACTG+AGG 0.655185 8:+64723119 MsaT044774.1:intron
GGTATTCAAAAGTCCAGACC+CGG 0.655952 8:-64721755 None:intergenic
TCAAGAACTTGTCCAAATCG+TGG 0.664250 8:+64721652 MsaT044774.1:CDS
TAGTTTACGAGACAGAGTCG+AGG 0.668337 8:-64724438 None:intergenic
TCACATTCTTCATCGAGTGG+AGG 0.671641 8:-64724125 None:intergenic
AGGCACTCCATGGACTGAGG+AGG 0.685831 8:+64723122 MsaT044774.1:intron
GGCAAAGCAATGTGTCTAGG+CGG 0.687559 8:+64723271 MsaT044774.1:CDS
TGAACCAGGAGTATTTGACC+CGG 0.708436 8:-64721776 None:intergenic
GTTTACGAGACAGAGTCGAG+GGG 0.738520 8:-64724436 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 64721610 64724526 64721610 ID=MsaG044774
Chr8 mRNA 64721610 64724526 64721610 ID=MsaT044774.1;Parent=MsaG044774
Chr8 exon 64721610 64721889 64721610 ID=MsaT044774.1.exon1;Parent=MsaT044774.1
Chr8 CDS 64721610 64721889 64721610 ID=cds.MsaT044774.1;Parent=MsaT044774.1
Chr8 exon 64723124 64723332 64723124 ID=MsaT044774.1.exon2;Parent=MsaT044774.1
Chr8 CDS 64723124 64723332 64723124 ID=cds.MsaT044774.1;Parent=MsaT044774.1
Chr8 exon 64724035 64724526 64724035 ID=MsaT044774.1.exon3;Parent=MsaT044774.1
Chr8 CDS 64724035 64724526 64724035 ID=cds.MsaT044774.1;Parent=MsaT044774.1
Gene Sequence

>MsaT044774.1

ATGACCCGTCGTTGTTCTCATTGCAGCCACAATGGGCACAACTCAAGAACTTGTCCAAATCGTGGTGTGAAGCTGTTTGGAGTAAGATTAACCGATGGGATCCGGAAAAGTGCTAGTATGGGTAATCTTAGCCACTATAGCGGGTCCGGGTCTGGACTTTTGAATACCGGGTCAAATACTCCTGGTTCACCTGGTGAAAACCCTGATCATGGTGCTGATGGTTATGGTTCTGAGGATTTTGTTCCTGGTTCTTCTTCTACTTCCCGTGAAAGAAAAAAGGGCACTCCATGGACTGAGGAGGAACATAGAATGTTTTTACTTGGATTGAACAAGCTGGGCAAAGGTGATTGGCGTGGAATTGCCAGGAACTATGTTATATCAAGGACACCTACTCAAGTGGCCAGTCACGCTCAAAAATATTTCATCAGGCAAAGCAATGTGTCTAGGCGGAAGAGACGGTCCAGCCTGTTTGATATTGTTGCAGATGATGCACCTGATACTTCAATGGTACCGCAAGACTTCTTGTCAGCTAATCAACTACAAACTGAAACAGAAGGCAATAACCCTTTGCCTGCTCCTCCTCCACTCGATGAAGAATGTGAGTCCATGGATTCTACAAACTCAAACGATGGAGAGTCTGCCTCTGCCCCATTAAAGCCCGACATCAATGCACAAGCGTCGGCTTACCCGGTAGTATATCCAGCATATTATTCTCCATTCTTCCCTTTTCCTCTTCCATATTGGTCTGGATACAGTCCTGAGCCAGCTCCTAAGAAAGAAACACATGAAGTGGTGAAGCCAACCCCAGTACATTCCAAGAGCCCAATCAATGTCGATGAACTCGTTGGCATGTCAAAACTGAGTTTAGGTGAAACTATTGGTGATACTGGCCCCTCGACTCTGTCTCGTAAACTACTTGAAGAAGGTCCTTCTAGACAGTCGGCTTTTCATACAACTCCAGCTTGTGGGACTGTTCTGTGA
Protein sequence

>MsaT044774.1

MTRRCSHCSHNGHNSRTCPNRGVKLFGVRLTDGIRKSASMGNLSHYSGSGSGLLNTGSNTPGSPGENPDHGADGYGSEDFVPGSSSTSRERKKGTPWTEEEHRMFLLGLNKLGKGDWRGIARNYVISRTPTQVASHAQKYFIRQSNVSRRKRRSSLFDIVADDAPDTSMVPQDFLSANQLQTETEGNNPLPAPPPLDEECESMDSTNSNDGESASAPLKPDINAQASAYPVVYPAYYSPFFPFPLPYWSGYSPEPAPKKETHEVVKPTPVHSKSPINVDELVGMSKLSLGETIGDTGPSTLSRKLLEEGPSRQSAFHTTPACGTVL*