AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG034610

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG034610 MtrunA17_Chr6g0487481 96.316 380 11 2 1 380 1 377 0.0 756
MsaG034610 MtrunA17_Chr8g0389561 58.435 409 106 10 1 379 1 375 6.89e-150 428
MsaG034610 MtrunA17_Chr3g0135351 47.896 309 102 13 76 379 23 277 6.26e-81 249
MsaG034610 MtrunA17_Chr4g0040391 68.548 124 37 1 86 207 40 163 3.02e-61 199
MsaG034610 MtrunA17_Chr2g0324781 77.885 104 23 0 104 207 77 180 1.05e-60 201
MsaG034610 MtrunA17_Chr7g0257831 56.111 180 63 3 85 252 245 420 7.67e-59 203
MsaG034610 MtrunA17_Chr3g0088521 53.073 179 73 4 85 252 245 423 1.65e-56 196
MsaG034610 MtrunA17_Chr5g0437251 45.778 225 97 5 85 287 198 419 3.44e-54 189
MsaG034610 MtrunA17_Chr5g0430211 43.966 232 92 6 77 275 196 422 1.96e-53 188
MsaG034610 MtrunA17_Chr1g0187591 69.159 107 33 0 100 206 225 331 6.13e-51 180
MsaG034610 MtrunA17_Chr1g0171151 65.421 107 37 0 100 206 240 346 9.30e-50 176
MsaG034610 MtrunA17_Chr3g0092221 61.475 122 45 1 85 206 141 260 1.51e-49 171
MsaG034610 MtrunA17_Chr3g0113651 51.034 145 62 2 99 243 158 293 1.08e-47 169
MsaG034610 MtrunA17_Chr3g0092171 49.068 161 73 3 100 254 271 428 4.31e-46 164
MsaG034610 MtrunA17_Chr3g0105141 58.261 115 47 1 94 207 26 140 9.11e-46 154
MsaG034610 MtrunA17_Chr3g0105121 48.101 158 69 6 103 251 8 161 3.47e-39 143
MsaG034610 MtrunA17_Chr3g0105131 36.404 228 115 5 98 317 174 379 8.51e-36 137
MsaG034610 MtrunA17_Chr3g0105101 52.000 125 50 2 135 252 195 316 7.37e-35 132
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG034610 AT4G29190.1 51.621 401 116 12 4 379 8 355 2.23e-122 358
MsaG034610 AT2G19810.1 51.020 392 130 10 6 379 11 358 1.15e-115 341
MsaG034610 AT2G25900.2 46.045 354 138 8 4 352 9 314 1.43e-89 273
MsaG034610 AT2G25900.1 46.045 354 138 8 4 352 9 314 1.43e-89 273
MsaG034610 AT2G41900.1 66.165 133 42 1 74 206 234 363 8.44e-59 203
MsaG034610 AT1G03790.1 72.973 111 29 1 98 207 76 186 4.51e-58 194
MsaG034610 AT5G12850.1 52.486 181 79 1 79 252 232 412 4.88e-57 198
MsaG034610 AT5G44260.1 72.072 111 30 1 98 207 54 164 9.55e-57 190
MsaG034610 AT5G58620.1 52.514 179 70 3 85 251 190 365 1.54e-56 195
MsaG034610 AT2G40140.2 53.143 175 75 3 87 260 197 365 4.97e-53 185
MsaG034610 AT2G40140.1 53.143 175 75 3 87 260 197 365 4.97e-53 185
MsaG034610 AT3G55980.1 51.934 181 70 4 87 260 194 364 2.48e-52 183
MsaG034610 AT3G55980.2 51.934 181 70 4 87 260 261 431 6.18e-52 183
MsaG034610 AT5G07500.1 59.701 134 52 1 73 206 23 154 2.13e-50 169

Find 114 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAGATTCTTTCTTCTTATTT+TGG 0.118905 6:+115042880 MsaT034610.1:CDS
GGGTTGGTGGGTTTGATTTA+TGG 0.119649 6:+115043748 MsaT034610.1:CDS
CTTTCAACTCTCTCCATTAT+AGG 0.177073 6:-115043792 None:intergenic
TTGAAAGTGGAAGAGATATT+AGG 0.228511 6:+115043808 MsaT034610.1:CDS
ATAGTAACATTCCTATTAAT+TGG 0.241559 6:-115043621 None:intergenic
TGGGAATTCGGGTTTGGGTT+TGG 0.285586 6:+115043881 MsaT034610.1:CDS
GGTTGGTGGGTTTGATTTAT+GGG 0.285810 6:+115043749 MsaT034610.1:CDS
TGAGAATGGGAATTCGGGTT+TGG 0.308000 6:+115043875 MsaT034610.1:CDS
GAGAATGGGAATTCGGGTTT+GGG 0.321254 6:+115043876 MsaT034610.1:CDS
CCGGGTTTAGGCCGGGTTGG+TGG 0.326895 6:+115043735 MsaT034610.1:CDS
TGAAAACTATGCCAATTAAT+AGG 0.328736 6:+115043610 MsaT034610.1:CDS
TCCGGCATCGGCGGCGGCGG+CGG 0.332930 6:+115043071 MsaT034610.1:CDS
TCCACCGGTGATTACTCTTC+CGG 0.334046 6:+115042967 MsaT034610.1:CDS
GGAGAATGAGAATGGGAATT+CGG 0.344965 6:+115043869 MsaT034610.1:CDS
ATTAATAGGAATGTTACTAT+TGG 0.347132 6:+115043624 MsaT034610.1:CDS
GTCGTTTCGTAATTTACAAT+TGG 0.353057 6:+115043581 MsaT034610.1:CDS
TGAAAGTGGAAGAGATATTA+GGG 0.354237 6:+115043809 MsaT034610.1:CDS
GAGAATGAGAATGGGAATTC+GGG 0.361455 6:+115043870 MsaT034610.1:CDS
CAGTTTCCTTTACGAAAATC+AGG 0.366299 6:-115043264 None:intergenic
CGGTTCTCCGTTACGACAAA+TGG 0.366550 6:+115043491 MsaT034610.1:CDS
TCGGGTTTGGGTTTGGATGC+GGG 0.376728 6:+115043888 MsaT034610.1:CDS
TTCGGGTTTGGGTTTGGATG+CGG 0.380726 6:+115043887 MsaT034610.1:CDS
TCGTTTCGTAATTTACAATT+GGG 0.384486 6:+115043582 MsaT034610.1:CDS
GAATCGTTGAACTCATTTGA+TGG 0.384682 6:-115043036 None:intergenic
ATTAAGCAAAGAAAATTCAT+TGG 0.406900 6:+115043848 MsaT034610.1:CDS
GAAGCGCTGCAAGTGCTTCT+CGG 0.409877 6:-115043002 None:intergenic
ATCGGCGGCGAAGGAGATTC+TGG 0.412112 6:-115043531 None:intergenic
ATCTCCGGCATCGGCGGCGG+CGG 0.417722 6:+115043068 MsaT034610.1:CDS
GTCAACCCGGTCCTGATGTT+GGG 0.417880 6:+115043910 MsaT034610.1:CDS
TTGTGAAGAGGAGCCTATAA+TGG 0.419641 6:+115043779 MsaT034610.1:CDS
CGGCGGCGTGCTTTCTCGCC+GGG 0.433922 6:-115043204 None:intergenic
GCCGTTTGATCATCATGATT+CGG 0.436898 6:-115042856 None:intergenic
CGATTCTGATTTAGAATCTC+CGG 0.438051 6:+115043053 MsaT034610.1:CDS
GGTCAACCCGGTCCTGATGT+TGG 0.438292 6:+115043909 MsaT034610.1:CDS
AATTCATTGGAGAATGAGAA+TGG 0.446609 6:+115043861 MsaT034610.1:CDS
CGTAAAGGAAACTGTAAGAA+AGG 0.457732 6:+115043273 MsaT034610.1:CDS
GGAGAACCGTCATACGAATC+TGG 0.463298 6:-115043477 None:intergenic
CAACGGTTCATGTTCCTCCT+TGG 0.464865 6:+115042833 MsaT034610.1:CDS
AGAATCTCCGGCATCGGCGG+CGG 0.471287 6:+115043065 MsaT034610.1:CDS
CGGGTTTAGGCCGGGTTGGT+GGG 0.471920 6:+115043736 MsaT034610.1:CDS
ACGGCGGCGTGCTTTCTCGC+CGG 0.477321 6:-115043205 None:intergenic
ATCGGTGACATCGGCGGCGA+AGG 0.483470 6:-115043540 None:intergenic
CGTCTTTACACGGCTGAGTA+CGG 0.485485 6:-115043353 None:intergenic
ATTCATTGGAGAATGAGAAT+GGG 0.487170 6:+115043862 MsaT034610.1:CDS
GCAAACACGGCGGCGACAGC+TGG 0.489963 6:-115043379 None:intergenic
TCACAAACCCACCCAACATC+AGG 0.492003 6:-115043921 None:intergenic
GAATGTTACTATTGGTTCAC+CGG 0.498343 6:+115043632 MsaT034610.1:CDS
TTCTCGCCGGGATGTGCGTA+TGG 0.499904 6:-115043192 None:intergenic
TTTGGGTCACCGCTTCGGTC+CGG 0.502096 6:+115043678 MsaT034610.1:CDS
AACCCACCCAACATCAGGAC+CGG 0.507115 6:-115043916 None:intergenic
GGCGGCGGCGGCGGATTCAA+CGG 0.507475 6:+115043080 MsaT034610.1:CDS
GCCGAATCATGATGATCAAA+CGG 0.508151 6:+115042855 MsaT034610.1:CDS
ACCCGGTCCTGATGTTGGGT+GGG 0.513166 6:+115043914 MsaT034610.1:CDS
ACGTTAAGACGGAGCTGCTC+CGG 0.516425 6:-115043417 None:intergenic
CCACCAACCCGGCCTAAACC+CGG 0.518833 6:-115043735 None:intergenic
AGCAGAGTCCATCTTCCTCT+CGG 0.519878 6:+115043442 MsaT034610.1:CDS
AACCCGGTCCTGATGTTGGG+TGG 0.522130 6:+115043913 MsaT034610.1:CDS
GCCGGCGATCTCACCGGCGC+CGG 0.528291 6:+115042922 MsaT034610.1:CDS
GGTGAACCAGAACCGAAAAC+CGG 0.530214 6:-115043651 None:intergenic
TTAACACTCCGAGAGGAAGA+TGG 0.530641 6:-115043450 None:intergenic
AAAATCAGGACAAGCCGTAC+CGG 0.530716 6:-115043250 None:intergenic
CTGCAAGTGCTTCTCGGAGA+TGG 0.532581 6:-115042996 None:intergenic
AACAATGCCGGCGATCTCAC+CGG 0.537849 6:+115042916 MsaT034610.1:CDS
GGCAGTGTAATCTCCGGCGC+CGG 0.541747 6:-115042935 None:intergenic
GGTTTGGATGCGGGTCAACC+CGG 0.549221 6:+115043897 MsaT034610.1:CDS
TGATTTAGAATCTCCGGCAT+CGG 0.549413 6:+115043059 MsaT034610.1:CDS
AATGAAACTTCCTCGGATCA+CGG 0.551799 6:-115043224 None:intergenic
AACTCTCCAGATTCGTATGA+CGG 0.556291 6:+115043471 MsaT034610.1:CDS
CGTACTCAGCCGTGTAAAGA+CGG 0.559308 6:+115043354 MsaT034610.1:CDS
TACGATAACAATAACAATGC+CGG 0.559578 6:+115042904 MsaT034610.1:CDS
AAACCGGGTTTAGGCCGGGT+TGG 0.560051 6:+115043732 MsaT034610.1:CDS
GAAGTTTCATTACTCCGGTA+CGG 0.561534 6:+115043236 MsaT034610.1:CDS
CAGCTGGTTCCGTCTTTACA+CGG 0.564199 6:-115043363 None:intergenic
TCCGGCGCCGGTGAGATCGC+CGG 0.564683 6:-115042923 None:intergenic
TTCGTAATTTACAATTGGGG+AGG 0.566121 6:+115043586 MsaT034610.1:CDS
GGCTGAGTACGGTAACGAGC+AGG 0.567252 6:-115043342 None:intergenic
CCGAGGAAGTTTCATTACTC+CGG 0.569117 6:+115043231 MsaT034610.1:CDS
ATCTCCGGCAGTGTAATCTC+CGG 0.569727 6:-115042941 None:intergenic
CACGTGGAAGATCACATGAC+TGG 0.574790 6:+115043160 MsaT034610.1:CDS
TTCGCCATCGGTGACATCGG+CGG 0.580138 6:-115043546 None:intergenic
TTGCTTCTTTGCTCACACGC+CGG 0.580507 6:+115043398 MsaT034610.1:CDS
GACTCTGCTGAACGTTAAGA+CGG 0.581166 6:-115043428 None:intergenic
TGATCATCATGATTCGGCCA+AGG 0.582191 6:-115042850 None:intergenic
CGTTTCGTAATTTACAATTG+GGG 0.584271 6:+115043583 MsaT034610.1:CDS
TTCGCCGCCGATGTCACCGA+TGG 0.587560 6:+115043542 MsaT034610.1:CDS
GGCGCCGGAGATTACACTGC+CGG 0.590744 6:+115042937 MsaT034610.1:CDS
TTCTCGGAGATGGTAATCAC+CGG 0.596124 6:-115042986 None:intergenic
AAGCACGCCGCCGTGATCCG+AGG 0.597183 6:+115043214 MsaT034610.1:CDS
ATAGTAACCATTTGTCGTAA+CGG 0.598472 6:-115043498 None:intergenic
CCGGAGTAATGAAACTTCCT+CGG 0.604275 6:-115043231 None:intergenic
ATGGGATCAGAGTTGTGAAG+AGG 0.606158 6:+115043767 MsaT034610.1:CDS
TCATTCGCCATCGGTGACAT+CGG 0.607790 6:-115043549 None:intergenic
GAGTGTCCATACGCACATCC+CGG 0.612951 6:+115043186 MsaT034610.1:CDS
GTCACCATCTCATTCGCCAT+CGG 0.619203 6:-115043558 None:intergenic
TTTAGAATCTCCGGCATCGG+CGG 0.621860 6:+115043062 MsaT034610.1:CDS
GTCACCGATGGCGAATGAGA+TGG 0.627160 6:+115043554 MsaT034610.1:CDS
TTATCTTGAACTCGTACATG+CGG 0.628647 6:-115043128 None:intergenic
ATAATGGAGAGAGTTGAAAG+TGG 0.632760 6:+115043795 MsaT034610.1:CDS
CAAGGAGGAACATGAACCGT+TGG 0.633061 6:-115042832 None:intergenic
TGGAAGATCACATGACTGGA+CGG 0.635001 6:+115043164 MsaT034610.1:CDS
ATAAATCAAACCCACCAACC+CGG 0.643239 6:-115043746 None:intergenic
GACGCGTGTGAACACGCGCA+TGG 0.649749 6:+115043297 MsaT034610.1:CDS
ACCGGAAGAGTAATCACCGG+TGG 0.651463 6:-115042968 None:intergenic
ACCCACCCAACATCAGGACC+GGG 0.651526 6:-115043915 None:intergenic
AAGATAAGAAGATGCGCACG+TGG 0.652747 6:+115043144 MsaT034610.1:CDS
ATCACCGGAAGAGTAATCAC+CGG 0.655530 6:-115042971 None:intergenic
GGCGGCGGCGGATTCAACGG+TGG 0.670398 6:+115043083 MsaT034610.1:CDS
TGTGAGCAAAGAAGCAAACA+CGG 0.677552 6:-115043392 None:intergenic
GGCGGCGAAGGAGATTCTGG+TGG 0.678659 6:-115043528 None:intergenic
TCATCATGATTCGGCCAAGG+AGG 0.681712 6:-115042847 None:intergenic
TGGAGAGTTAACACTCCGAG+AGG 0.702069 6:-115043457 None:intergenic
GATGCTGAGAGCTAATCCAA+CGG 0.723355 6:+115042816 MsaT034610.1:CDS
GAAACTTCCTCGGATCACGG+CGG 0.765354 6:-115043221 None:intergenic
GAGCAAAGAAGCAAACACGG+CGG 0.856541 6:-115043389 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 115042814 115043956 115042814 ID=MsaG034610
Chr6 mRNA 115042814 115043956 115042814 ID=MsaT034610.1;Parent=MsaG034610
Chr6 exon 115042814 115043956 115042814 ID=MsaT034610.1.exon1;Parent=MsaT034610.1
Chr6 CDS 115042814 115043956 115042814 ID=cds.MsaT034610.1;Parent=MsaT034610.1
Gene Sequence

>MsaT034610.1

ATGATGCTGAGAGCTAATCCAACGGTTCATGTTCCTCCTTGGCCGAATCATGATGATCAAACGGCTGAGATTCTTTCTTCTTATTTTGGTTACGATAACAATAACAATGCCGGCGATCTCACCGGCGCCGGAGATTACACTGCCGGAGATTTTTCCACCGGTGATTACTCTTCCGGTGATTACCATCTCCGAGAAGCACTTGCAGCGCTTCAACGTTATCTTCCATCAAATGAGTTCAACGATTCTGATTTAGAATCTCCGGCATCGGCGGCGGCGGCGGATTCAACGGTGGATGCATATTCATGCGATCATTTCCGCATGTACGAGTTCAAGATAAGAAGATGCGCACGTGGAAGATCACATGACTGGACGGAGTGTCCATACGCACATCCCGGCGAGAAAGCACGCCGCCGTGATCCGAGGAAGTTTCATTACTCCGGTACGGCTTGTCCTGATTTTCGTAAAGGAAACTGTAAGAAAGGTGACGCGTGTGAACACGCGCATGGTGTTTTCGAGTGTTGGCTTCATCCTGCTCGTTACCGTACTCAGCCGTGTAAAGACGGAACCAGCTGTCGCCGCCGTGTTTGCTTCTTTGCTCACACGCCGGAGCAGCTCCGTCTTAACGTTCAGCAGAGTCCATCTTCCTCTCGGAGTGTTAACTCTCCAGATTCGTATGACGGTTCTCCGTTACGACAAATGGTTACTATAACGACGCCACCAGAATCTCCTTCGCCGCCGATGTCACCGATGGCGAATGAGATGGTGACGTCGTTTCGTAATTTACAATTGGGGAGGATGAAAACTATGCCAATTAATAGGAATGTTACTATTGGTTCACCGGTTTTCGGTTCTGGTTCACCGGTTTTTGGGTCACCGCTTCGGTCCGGTTTTTTAAGTTTGCCCAATACCCCAACTAAAAAACCGGGTTTAGGCCGGGTTGGTGGGTTTGATTTATGGGATCAGAGTTGTGAAGAGGAGCCTATAATGGAGAGAGTTGAAAGTGGAAGAGATATTAGGGCTAAGATGTTTGAGAAATTAAGCAAAGAAAATTCATTGGAGAATGAGAATGGGAATTCGGGTTTGGGTTTGGATGCGGGTCAACCCGGTCCTGATGTTGGGTGGGTTTGTGATTTGTTGAAGTGA
Protein sequence

>MsaT034610.1

MMLRANPTVHVPPWPNHDDQTAEILSSYFGYDNNNNAGDLTGAGDYTAGDFSTGDYSSGDYHLREALAALQRYLPSNEFNDSDLESPASAAAADSTVDAYSCDHFRMYEFKIRRCARGRSHDWTECPYAHPGEKARRRDPRKFHYSGTACPDFRKGNCKKGDACEHAHGVFECWLHPARYRTQPCKDGTSCRRRVCFFAHTPEQLRLNVQQSPSSSRSVNSPDSYDGSPLRQMVTITTPPESPSPPMSPMANEMVTSFRNLQLGRMKTMPINRNVTIGSPVFGSGSPVFGSPLRSGFLSLPNTPTKKPGLGRVGGFDLWDQSCEEEPIMERVESGRDIRAKMFEKLSKENSLENENGNSGLGLDAGQPGPDVGWVCDLLK*