AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG044338

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044338 MtrunA17_Chr8g0373341 55.908 347 87 5 1 307 1 321 1.66e-117 341
MsaG044338 MtrunA17_Chr8g0373001 67.143 210 57 3 1 204 1 204 3.88e-92 280
MsaG044338 MtrunA17_Chr8g0373001 48.000 125 42 3 204 306 279 402 3.37e-24 101
MsaG044338 MtrunA17_Chr8g0373361 64.706 204 64 2 1 204 11 206 4.78e-87 266
MsaG044338 MtrunA17_Chr8g0373331 45.115 348 150 9 1 308 1 347 1.51e-86 263
MsaG044338 MtrunA17_Chr5g0404321 55.660 212 80 4 1 204 1 206 3.34e-75 236
MsaG044338 MtrunA17_Chr5g0404321 43.382 136 70 3 173 306 276 406 3.16e-22 95.9
MsaG044338 MtrunA17_Chr1g0155301 51.101 227 83 5 1 204 1 222 5.99e-64 207
MsaG044338 MtrunA17_Chr1g0155301 53.488 86 37 2 223 306 328 412 7.96e-17 80.5
MsaG044338 MtrunA17_Chr1g0156151 48.571 210 98 4 1 204 1 206 2.33e-52 171
MsaG044338 MtrunA17_Chr2g0286441 39.916 238 132 3 13 247 4 233 9.01e-50 169
MsaG044338 MtrunA17_Chr2g0286441 41.463 82 47 1 225 306 303 383 1.50e-12 67.8
MsaG044338 MtrunA17_Chr1g0201891 41.964 224 109 5 1 213 1 214 2.21e-49 169
MsaG044338 MtrunA17_Chr2g0278511 40.807 223 114 5 1 213 1 215 6.21e-48 166
MsaG044338 MtrunA17_Chr2g0278511 41.111 90 44 2 225 306 329 417 2.06e-11 64.3
MsaG044338 MtrunA17_Chr1g0196071 39.224 232 120 5 1 221 1 222 7.27e-46 159
MsaG044338 MtrunA17_Chr1g0196071 45.263 95 50 2 212 306 300 392 2.78e-15 75.9
MsaG044338 MtrunA17_Chr2g0315641 50.633 158 69 2 50 204 42 193 9.52e-46 159
MsaG044338 MtrunA17_Chr8g0373351 35.938 320 120 13 34 306 3 284 6.51e-42 146
MsaG044338 MtrunA17_Chr2g0315651 43.713 167 85 2 38 201 25 185 8.58e-37 135
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044338 AT2G18280.2 52.133 211 80 5 1 203 1 198 1.51e-61 201
MsaG044338 AT2G18280.2 38.710 124 55 4 203 306 261 383 8.46e-15 74.7
MsaG044338 AT2G18280.1 52.133 211 80 5 1 203 1 198 1.51e-61 201
MsaG044338 AT2G18280.1 38.710 124 55 4 203 306 261 383 8.46e-15 74.7
MsaG044338 AT1G47270.3 51.955 179 78 2 43 218 37 210 1.32e-56 187
MsaG044338 AT1G47270.3 46.067 89 42 2 223 306 291 378 2.29e-14 73.6
MsaG044338 AT1G47270.2 51.955 179 78 2 43 218 61 234 1.78e-56 188
MsaG044338 AT1G47270.2 46.067 89 42 2 223 306 315 402 2.48e-14 73.6
MsaG044338 AT1G47270.1 51.955 179 78 2 43 218 62 235 1.93e-56 188
MsaG044338 AT1G47270.1 46.067 89 42 2 223 306 316 403 2.56e-14 73.6
MsaG044338 AT2G47900.2 45.238 210 105 4 1 205 1 205 3.70e-54 182
MsaG044338 AT2G47900.2 42.683 82 46 1 225 306 316 396 5.05e-12 66.6
MsaG044338 AT2G47900.1 45.238 210 105 4 1 205 1 205 3.70e-54 182
MsaG044338 AT2G47900.1 42.683 82 46 1 225 306 316 396 5.05e-12 66.6
MsaG044338 AT2G47900.3 44.762 210 107 4 1 205 1 206 3.03e-53 179
MsaG044338 AT2G47900.3 42.683 82 46 1 225 306 317 397 5.07e-12 66.6
MsaG044338 AT1G76900.2 49.701 167 70 3 45 205 52 210 6.31e-47 164
MsaG044338 AT1G76900.1 49.701 167 70 3 45 205 52 210 6.31e-47 164
MsaG044338 AT1G76900.3 49.701 167 70 3 45 205 52 210 6.31e-47 164
MsaG044338 AT1G25280.1 44.388 196 92 5 15 204 27 211 1.72e-42 152
MsaG044338 AT1G25280.1 41.584 101 45 2 219 306 336 435 2.15e-12 67.8
MsaG044338 AT1G53320.1 44.103 195 95 4 17 204 8 195 3.65e-42 150
MsaG044338 AT1G43640.1 38.967 213 117 5 1 205 1 208 6.72e-41 147
MsaG044338 AT3G06380.1 45.513 156 75 3 50 201 33 182 2.93e-36 134
MsaG044338 AT1G43640.2 44.218 147 74 2 62 205 1 142 2.86e-34 128
MsaG044338 AT5G18680.1 43.312 157 79 4 49 201 38 188 3.49e-33 126
MsaG044338 AT5G18680.1 41.379 87 46 1 225 306 293 379 3.39e-12 67.0
MsaG044338 AT1G61940.2 48.837 86 44 0 53 138 1 86 9.72e-21 90.1
MsaG044338 AT3G06380.2 41.304 92 45 2 113 201 5 90 3.46e-15 74.7
MsaG044338 AT5G18680.2 42.708 96 46 3 109 201 7 96 6.73e-15 74.3
MsaG044338 AT5G18680.2 41.379 87 46 1 225 306 201 287 2.08e-12 67.0
MsaG044338 AT1G25280.3 41.584 101 45 2 219 306 158 257 1.09e-12 67.4
MsaG044338 AT1G25280.2 41.584 101 45 2 219 306 158 257 1.09e-12 67.4
MsaG044338 AT1G61940.1 50.820 61 30 0 53 113 1 61 2.17e-12 66.2

Find 64 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTACATTCCTGATGTATT+TGG 0.141198 8:-58777236 MsaT044338.1:CDS
TTTCTCCTGCATTGCAAAAT+TGG 0.167272 8:-58776492 MsaT044338.1:CDS
ATTACCTGCTTCAATGAAAT+AGG 0.231585 8:+58777399 None:intergenic
CGCATTTAAGCAGTTTGTTT+TGG 0.270206 8:-58776984 MsaT044338.1:intron
TCTACCACATGAATTGCTTT+TGG 0.292282 8:-58777565 MsaT044338.1:CDS
TGGTTGGGGCGCTGACTTCA+TGG 0.327338 8:-58776575 MsaT044338.1:CDS
CATGGCATTGCTTTATTAAG+AGG 0.337844 8:-58777270 MsaT044338.1:CDS
TTGAAGAGAGTGAGAGATAT+TGG 0.344771 8:-58777527 MsaT044338.1:CDS
TGCTTTCCTACATGCAAGAT+TGG 0.359787 8:+58776469 None:intergenic
CCCTGTCGAATAGGTTCAAT+TGG 0.384099 8:+58777600 None:intergenic
GCAGATGGCAAAGGCTTGTA+AGG 0.435286 8:+58776399 None:intergenic
GGATGAGCAACACAATGGTT+GGG 0.438423 8:-58776590 MsaT044338.1:CDS
GCCCATTGTCCCTGTCGAAT+AGG 0.441616 8:+58777591 None:intergenic
GTGCTTCGGTATGTAAATCA+TGG 0.451227 8:-58777479 MsaT044338.1:CDS
TTTGCCATCTGCTTGATTCG+TGG 0.452748 8:-58776388 MsaT044338.1:CDS
ACCTATTCGACAGGGACAAT+GGG 0.460081 8:-58777592 MsaT044338.1:CDS
ATTTCCTATTTCATTGAAGC+AGG 0.465510 8:-58777403 MsaT044338.1:intron
TCCAATTGAACCTATTCGAC+AGG 0.466852 8:-58777601 MsaT044338.1:CDS
GTCAAACTCACATCTTGCTC+TGG 0.476106 8:-58777631 MsaT044338.1:CDS
TAAATTGCTCCAAATACATC+AGG 0.480012 8:+58777227 None:intergenic
AAGCATGGTCGGAGAAATCA+AGG 0.483624 8:-58777709 MsaT044338.1:CDS
TCTCACTCTCTTCAACCCTT+CGG 0.484378 8:+58777535 None:intergenic
GGTTGGGGCGCTGACTTCAT+GGG 0.486960 8:-58776574 MsaT044338.1:CDS
CATGGATAAGCACGGGGACC+AGG 0.488976 8:+58777289 None:intergenic
GGGATGAGCAACACAATGGT+TGG 0.490209 8:-58776591 MsaT044338.1:CDS
TTTGGTTGTAATTGCATGGC+AGG 0.495275 8:-58776961 MsaT044338.1:CDS
AGTTGTTATTAGCCGCGAAA+AGG 0.500183 8:-58776924 MsaT044338.1:CDS
CTGGTCCCCGTGCTTATCCA+TGG 0.526433 8:-58777288 MsaT044338.1:CDS
GGTCAAGGATATGACGAAGT+TGG 0.533662 8:+58776891 None:intergenic
AACCTATTCGACAGGGACAA+TGG 0.535821 8:-58777593 MsaT044338.1:CDS
TTGGTTTGGTTGTAATTGCA+TGG 0.539390 8:-58776965 MsaT044338.1:CDS
TCACAGTGGAAACTCTAAAA+CGG 0.540216 8:+58776551 None:intergenic
AATGAGACTTGGCTCAGTGC+TGG 0.542748 8:+58776649 None:intergenic
GACTCTTCCGCAATGTGGAA+TGG 0.557697 8:-58777430 MsaT044338.1:CDS
AACTTCGTCATATCCTTGAC+CGG 0.561301 8:-58776889 MsaT044338.1:CDS
TAAAGGTCTCAAATGAGACT+TGG 0.571910 8:+58776638 None:intergenic
GCAATGCCATGGATAAGCAC+GGG 0.572431 8:+58777282 None:intergenic
AAGACAACAGCAGAACGTGC+AGG 0.573108 8:+58777504 None:intergenic
CTCTTAATAAAGCAATGCCA+TGG 0.575671 8:+58777271 None:intergenic
AATGTCGTATATAGTAAACT+TGG 0.577346 8:+58776708 None:intergenic
GATGAGCAACACAATGGTTG+GGG 0.586136 8:-58776589 MsaT044338.1:CDS
ATGGCATTGAAAAGCATGGT+CGG 0.597357 8:-58777720 MsaT044338.1:CDS
AATTGGCCAATCTTGCATGT+AGG 0.601422 8:-58776475 MsaT044338.1:CDS
AAAGTAACATCAAATACAGA+AGG 0.603480 8:+58776682 None:intergenic
ACGAATCAAGCAGATGGCAA+AGG 0.605785 8:+58776390 None:intergenic
AGCAATGCCATGGATAAGCA+CGG 0.608496 8:+58777281 None:intergenic
ATCAAGACTCTTCCGCAATG+TGG 0.608567 8:-58777435 MsaT044338.1:CDS
ACTTGGCTCAGTGCTGGTGA+AGG 0.615559 8:+58776655 None:intergenic
TATGAGATCGATCAACTACA+AGG 0.618807 8:+58776518 None:intergenic
AAACATGGCATTGAAAAGCA+TGG 0.626528 8:-58777724 None:intergenic
ACAAATATGTTTGTAAACTG+CGG 0.627962 8:-58776843 MsaT044338.1:intron
TAGCCGCGAAAAGGATAAGA+CGG 0.633325 8:-58776915 MsaT044338.1:CDS
CATGCCACGAATCAAGCAGA+TGG 0.639936 8:+58776384 None:intergenic
CCAATTGAACCTATTCGACA+GGG 0.652941 8:-58777600 MsaT044338.1:CDS
TTGGTTGTAATTGCATGGCA+GGG 0.655128 8:-58776960 MsaT044338.1:CDS
AAGGCTTGTAAGGAAGAGAG+TGG 0.656514 8:+58776409 None:intergenic
GCATGGTCGGAGAAATCAAG+GGG 0.659382 8:-58777707 MsaT044338.1:CDS
AGCATGGTCGGAGAAATCAA+GGG 0.684102 8:-58777708 MsaT044338.1:CDS
ATGTCCAAAAGCAATTCATG+TGG 0.684608 8:+58777561 None:intergenic
CAATGCCATGGATAAGCACG+GGG 0.702540 8:+58777283 None:intergenic
ATATGGGATGAGCAACACAA+TGG 0.702664 8:-58776595 MsaT044338.1:CDS
AAGGTCAAAGTTTCTCACAG+TGG 0.704452 8:+58776537 None:intergenic
CTTCGGTATGTAAATCATGG+AGG 0.713760 8:-58777476 MsaT044338.1:CDS
AATGTGACCATTCCACATTG+CGG 0.767163 8:+58777423 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 58776381 58777742 58776381 ID=MsaG044338
Chr8 mRNA 58776381 58777742 58776381 ID=MsaT044338.1;Parent=MsaG044338
Chr8 exon 58776381 58776747 58776381 ID=MsaT044338.1.exon4;Parent=MsaT044338.1
Chr8 CDS 58776381 58776747 58776381 ID=cds.MsaT044338.1;Parent=MsaT044338.1
Chr8 exon 58776844 58776993 58776844 ID=MsaT044338.1.exon3;Parent=MsaT044338.1
Chr8 CDS 58776844 58776993 58776844 ID=cds.MsaT044338.1;Parent=MsaT044338.1
Chr8 exon 58777235 58777311 58777235 ID=MsaT044338.1.exon2;Parent=MsaT044338.1
Chr8 CDS 58777235 58777311 58777235 ID=cds.MsaT044338.1;Parent=MsaT044338.1
Chr8 exon 58777404 58777742 58777404 ID=MsaT044338.1.exon1;Parent=MsaT044338.1
Chr8 CDS 58777404 58777742 58777404 ID=cds.MsaT044338.1;Parent=MsaT044338.1
Gene Sequence

>MsaT044338.1

ATGGCATTGAAAAGCATGGTCGGAGAAATCAAGGGGATTAAAAATGGAATATCAAAGCGGGGTGCTGAGAGCGAGAATTTTCTCTATCAGTCAAACTCACATCTTGCTCTGGATGTATCTCCAATTGAACCTATTCGACAGGGACAATGGGCAAGTCTACCACATGAATTGCTTTTGGACATAATCCGAAGGGTTGAAGAGAGTGAGAGATATTGGCCTGCACGTTCTGCTGTTGTCTTTTGTGCTTCGGTATGTAAATCATGGAGGTCTGCCACAAAAGAGATCATCAAGACTCTTCCGCAATGTGGAATGGTCACATTTCCTATTTCATTGAAGCAGCCTGGTCCCCGTGCTTATCCATGGCATTGCTTTATTAAGAGGAAGAGAAAAATTTCTACATTCCTGATGTATTTGGATTTGTTTTGGTTTGGTTGTAATTGCATGGCAGGGAATGATAAGAGTAAGTTGTTATTAGCCGCGAAAAGGATAAGACGGTCCAACTTCGTCATATCCTTGACCGGAGATGATTTTTCTCAAGCAAATAACAAATATGTTTGTAAACTGCGGTCAAATTTTTGGGGGACCAAGTTTACTATATACGACATTCAACCTTCTGTATTTGATGTTACTTTTTCTCCTTCACCAGCACTGAGCCAAGTCTCATTTGAGACCTTTATACTCAAAAACAAGACTCTTATATGGGATGAGCAACACAATGGTTGGGGCGCTGACTTCATGGGCCGTTTTAGAGTTTCCACTGTGAGAAACTTTGACCTTGTAGTTGATCGATCTCATAATGTTTCTCCTGCATTGCAAAATTGGCCAATCTTGCATGTAGGAAAGCAGTTTAGAAAAGATATATTCTTAATGTACTACGCTTATCCACTCTCTTCCTTACAAGCCTTTGCCATCTGCTTGATTCGTGGCATGTAA
Protein sequence

>MsaT044338.1

MALKSMVGEIKGIKNGISKRGAESENFLYQSNSHLALDVSPIEPIRQGQWASLPHELLLDIIRRVEESERYWPARSAVVFCASVCKSWRSATKEIIKTLPQCGMVTFPISLKQPGPRAYPWHCFIKRKRKISTFLMYLDLFWFGCNCMAGNDKSKLLLAAKRIRRSNFVISLTGDDFSQANNKYVCKLRSNFWGTKFTIYDIQPSVFDVTFSPSPALSQVSFETFILKNKTLIWDEQHNGWGADFMGRFRVSTVRNFDLVVDRSHNVSPALQNWPILHVGKQFRKDIFLMYYAYPLSSLQAFAICLIRGM*