AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005157


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005157 MtrunA17_Chr1g0205011 89.340 197 21 0 132 328 4 200 4.17e-114 332
MsaG005157 MtrunA17_Chr1g0205031 50.450 333 98 9 95 409 193 476 1.83e-83 266
MsaG005157 MtrunA17_Chr5g0394661 35.962 317 143 9 108 411 292 561 1.35e-35 139
MsaG005157 MtrunA17_Chr1g0205021 46.988 166 66 3 51 204 68 223 1.15e-31 120
MsaG005157 MtrunA17_Chr1g0205001 34.188 117 63 1 261 377 107 209 1.29e-15 75.9
MsaG005157 MtrunA17_Chr1g0149101 43.902 82 42 2 322 400 480 560 2.15e-13 72.4
MsaG005157 MtrunA17_Chr6g0485811 45.882 85 35 4 330 408 114 193 3.73e-11 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005157 AT3G22760.2 52.525 99 43 2 310 405 175 272 5.80e-22 98.2
MsaG005157 AT3G22760.1 52.525 99 43 2 310 405 298 395 8.36e-22 98.2
MsaG005157 AT3G22780.1 55.952 84 34 1 325 405 385 468 1.11e-20 95.1
MsaG005157 AT4G14770.1 56.818 88 30 3 322 405 359 442 6.15e-20 92.8
MsaG005157 AT4G14770.2 56.818 88 30 3 322 405 339 422 6.46e-20 92.4
MsaG005157 AT4G14770.3 56.818 88 30 3 322 405 340 423 6.47e-20 92.4
MsaG005157 AT3G04850.1 52.113 71 31 1 338 405 450 520 3.24e-17 84.3

Find 78 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTTGCCCATGTTGCTTTAA+TGG 0.092114 1:-78314080 MsaT005157.1:CDS
GATGAAATTAACTATGTTCT+TGG 0.205080 1:-78314172 MsaT005157.1:CDS
CCGATGGATCCATCTTCTTC+TGG 0.296926 1:-78313131 MsaT005157.1:CDS
CTACACTTTCCTCTTCCTTT+GGG 0.315047 1:+78313058 None:intergenic
GAAAACGAAAATATGTCTTC+TGG 0.316083 1:-78313395 MsaT005157.1:CDS
ACTACACTTTCCTCTTCCTT+TGG 0.336631 1:+78313057 None:intergenic
GTATATAGCTTGCACATATT+AGG 0.337557 1:-78313637 MsaT005157.1:intron
TTGAGGGTGCAACAAATATT+CGG 0.338203 1:-78314126 MsaT005157.1:CDS
ATATCCTGATACAAAACTTC+AGG 0.339133 1:+78314286 None:intergenic
GTTCACAGCCAAGCAATTCA+TGG 0.367351 1:+78314350 None:intergenic
ATAGTTGTTCCTTTGCGAAT+TGG 0.377643 1:+78313571 None:intergenic
CCTTGCAAAACACAACTTTG+TGG 0.386938 1:+78313452 None:intergenic
TATTGTGAGTGCTTTGCTGC+TGG 0.387898 1:-78312575 MsaT005157.1:CDS
TCAAGGAAGGACTCAGTTGC+AGG 0.389511 1:-78314319 MsaT005157.1:CDS
TCATCATCCACTCTCTGAAA+TGG 0.397883 1:+78314049 None:intergenic
CGAGCTTCCAGATCTGTATC+AGG 0.402443 1:+78312506 None:intergenic
ATATTTGTTGCACCCTCAAT+TGG 0.411515 1:+78314130 None:intergenic
GCCATCAGAGAATGAAGTTC+AGG 0.423427 1:-78313273 MsaT005157.1:CDS
TCAAATTTAACTAGGAAAGA+AGG 0.424293 1:-78312927 MsaT005157.1:CDS
TTCTGGTTCAAATCATGAAA+AGG 0.431681 1:-78313114 MsaT005157.1:CDS
TGAGGGTGCAACAAATATTC+GGG 0.440869 1:-78314125 MsaT005157.1:CDS
ATTTCATCAATTGAGATTTG+AGG 0.455082 1:+78314187 None:intergenic
TCAATTGAGATTTGAGGATC+AGG 0.460451 1:+78314193 None:intergenic
TCACCAATGGAAACACAGTT+GGG 0.472250 1:-78313296 MsaT005157.1:CDS
TGATTTGAACCAGAAGAAGA+TGG 0.476712 1:+78313122 None:intergenic
TTCACCAATGGAAACACAGT+TGG 0.485894 1:-78313297 MsaT005157.1:CDS
AAATAAACCTGATACAGATC+TGG 0.488763 1:-78312513 MsaT005157.1:CDS
TTTCATCTTTCTGCAAGGCA+AGG 0.494083 1:-78313341 MsaT005157.1:CDS
CGAAGAGTAGACTGGTGATA+AGG 0.502503 1:+78314392 None:intergenic
GTCGATATCCATGAATTGCT+TGG 0.504568 1:-78314358 MsaT005157.1:CDS
TTCATCTTTCTGCAAGGCAA+GGG 0.505954 1:-78313340 MsaT005157.1:CDS
AACTGTGTTTCCATTGGTGA+AGG 0.508980 1:+78313299 None:intergenic
TACACTTTCCTCTTCCTTTG+GGG 0.513200 1:+78313059 None:intergenic
CGACGGCTCAGAACCAATTG+AGG 0.520716 1:-78314143 MsaT005157.1:CDS
GCCTGAACTTCATTCTCTGA+TGG 0.525870 1:+78313272 None:intergenic
GGCCCCAACTGTGTTTCCAT+TGG 0.528912 1:+78313293 None:intergenic
GAGAAGGACAATGATAGCGC+AGG 0.533624 1:-78313162 MsaT005157.1:CDS
ATCACTGGTCCCTTCACCAA+TGG 0.541219 1:-78313309 MsaT005157.1:CDS
GCTGTGAACAAGACGGCTCA+AGG 0.547419 1:-78314336 MsaT005157.1:CDS
TTCAAATCATGAAAAGGAAG+AGG 0.548313 1:-78313108 MsaT005157.1:CDS
CAAATTTAACTAGGAAAGAA+GGG 0.549343 1:-78312926 MsaT005157.1:CDS
TTGGTGAAGGGACCAGTGAT+AGG 0.549970 1:+78313312 None:intergenic
CTTCTCATCGAAGAGTAGAC+TGG 0.550042 1:+78314384 None:intergenic
CCCGAAAAGGACAATGAAAG+TGG 0.550988 1:-78313225 MsaT005157.1:CDS
AGGCTACAAAAGATTTCAGT+CGG 0.553198 1:-78313253 MsaT005157.1:CDS
GCAAGGGCATTGCCTATCAC+TGG 0.554620 1:-78313324 MsaT005157.1:CDS
TCAGTCGGAGTACCCCGAAA+AGG 0.559557 1:-78313238 MsaT005157.1:CDS
TGTTATCCATTAAAGCAACA+TGG 0.566696 1:+78314074 None:intergenic
AGGACTCAGTTGCAGGTGAA+AGG 0.567399 1:-78314312 MsaT005157.1:CDS
TACAGATCTGGAAGCTCGCA+CGG 0.571736 1:-78312501 MsaT005157.1:CDS
CCAGAAGAAGATGGATCCAT+CGG 0.573274 1:+78313131 None:intergenic
TGAACAAGACGGCTCAAGGA+AGG 0.575400 1:-78314332 MsaT005157.1:CDS
CATGCATGAGTTGAATCTGT+TGG 0.576261 1:+78314235 None:intergenic
GTTATCCATTAAAGCAACAT+GGG 0.577336 1:+78314075 None:intergenic
TGCAGAAAGATGAAAAGAAG+AGG 0.577553 1:+78313349 None:intergenic
TAACAATCCATTTCAGAGAG+TGG 0.579054 1:-78314056 MsaT005157.1:CDS
AGAAGGACAATGATAGCGCA+GGG 0.582541 1:-78313161 MsaT005157.1:CDS
GACGGCTCAGAACCAATTGA+GGG 0.585234 1:-78314142 MsaT005157.1:CDS
CAACAGATTCAACTCATGCA+TGG 0.591788 1:-78314234 MsaT005157.1:CDS
AGTTAAATCAAAACATGAGA+AGG 0.592480 1:-78313178 MsaT005157.1:CDS
ACAGCTTTAGGAACAAATGC+AGG 0.596314 1:+78312458 None:intergenic
ACACTTTCCTCTTCCTTTGG+GGG 0.596466 1:+78313060 None:intergenic
TATGTTCTTGGATTACTCGA+CGG 0.597063 1:-78314160 MsaT005157.1:CDS
GTACAACAAAATTTGACAGA+AGG 0.600348 1:-78313523 MsaT005157.1:CDS
TTCGGGAAGATAATCAAACA+TGG 0.601812 1:-78314108 MsaT005157.1:CDS
ACTGTGTTTCCATTGGTGAA+GGG 0.604064 1:+78313300 None:intergenic
GGCACAAGTCAAATTTAACT+AGG 0.609841 1:-78312935 MsaT005157.1:CDS
GCTGCTGGAGTCTACTGCAA+AGG 0.615145 1:-78312560 MsaT005157.1:CDS
ATATTAGGCGCTGTGTAGAG+AGG 0.625695 1:-78313622 MsaT005157.1:CDS
GCTTTAGGAACAAATGCAGG+TGG 0.636351 1:+78312461 None:intergenic
AGCGCAGGGGAAACGTCCGA+TGG 0.637023 1:-78313147 MsaT005157.1:CDS
AGAGTAGACTGGTGATAAGG+AGG 0.642260 1:+78314395 None:intergenic
CTGAGATGACCAATTCGCAA+AGG 0.656692 1:-78313580 MsaT005157.1:CDS
ATTTCAGAGAGTGGATGATG+AGG 0.656749 1:-78314047 MsaT005157.1:intron
CACCAATGGAAACACAGTTG+GGG 0.660851 1:-78313295 MsaT005157.1:CDS
TCGGGAAGATAATCAAACAT+GGG 0.661683 1:-78314107 MsaT005157.1:CDS
TTGCTTGGCTGTGAACAAGA+CGG 0.667927 1:-78314343 MsaT005157.1:CDS
GAAGGACAATGATAGCGCAG+GGG 0.746995 1:-78313160 MsaT005157.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 78312415 78314440 78312415 ID=MsaG005157
Chr1 mRNA 78312415 78314440 78312415 ID=MsaT005157.1;Parent=MsaG005157
Chr1 exon 78312415 78312598 78312415 ID=MsaT005157.1.exon4;Parent=MsaT005157.1
Chr1 CDS 78312415 78312598 78312415 ID=cds.MsaT005157.1;Parent=MsaT005157.1
Chr1 exon 78312882 78312956 78312882 ID=MsaT005157.1.exon3;Parent=MsaT005157.1
Chr1 CDS 78312882 78312956 78312882 ID=cds.MsaT005157.1;Parent=MsaT005157.1
Chr1 exon 78313062 78313651 78313062 ID=MsaT005157.1.exon2;Parent=MsaT005157.1
Chr1 CDS 78313062 78313651 78313062 ID=cds.MsaT005157.1;Parent=MsaT005157.1
Chr1 exon 78314048 78314440 78314048 ID=MsaT005157.1.exon1;Parent=MsaT005157.1
Chr1 CDS 78314048 78314440 78314048 ID=cds.MsaT005157.1;Parent=MsaT005157.1
Gene Sequence

>MsaT005157.1

ATGCAGGATGATTATTTGTTTCACCTCCTTATCACCAGTCTACTCTTCGATGAGAAGCTTGTCGATATCCATGAATTGCTTGGCTGTGAACAAGACGGCTCAAGGAAGGACTCAGTTGCAGGTGAAAGGAAACCTGAAGTTTTGTATCAGGATATAAATAATATTAATTCAAATGAAGAAGCTCCAACAGATTCAACTCATGCATGGATTGACACAAGTGAGCTACCTGATCCTCAAATCTCAATTGATGAAATTAACTATGTTCTTGGATTACTCGACGGCTCAGAACCAATTGAGGGTGCAACAAATATTCGGGAAGATAATCAAACATGGGACAATCTTGCCCATGTTGCTTTAATGGATAACAATCCATTTCAGAGAGTGGATGATGAGCTTGCACATATTAGGCGCTGTGTAGAGAGGAGCTGTCAAGACTATGCGTCTGAGATGACCAATTCGCAAAGGAACAACTATGCTTCTACTTCAAACATCAGTTCCCGTACAACAAAATTTGACAGAAGGAATGCTTTCAATGAAAAGCCCGTGCTTCCTAGAAAACACACTAGTGATCCACAAAGTTGTGTTTTGCAAGGAAATGGTTCTTGCTTAAATCATTACAATGACAAAGAAAACGAAAATATGTCTTCTGGAAGAAAAACTGAATCGCAGAGCTCCTCTTCTTTTCATCTTTCTGCAAGGCAAGGGCATTGCCTATCACTGGTCCCTTCACCAATGGAAACACAGTTGGGGCCATCAGAGAATGAAGTTCAGGCTACAAAAGATTTCAGTCGGAGTACCCCGAAAAGGACAATGAAAGTGGAGTTCAAGAACATAATGAATCAACAGTTAAATCAAAACATGAGAAGGACAATGATAGCGCAGGGGAAACGTCCGATGGATCCATCTTCTTCTGGTTCAAATCATGAAAAGGAAGAGGAAAGTGCAGATTTATGTCAGATTATCCCCCAAAGGAAGAGGAAAGTGCACAAGTCAAATTTAACTAGGAAAGAAGGGTCATGCAAAAGCTGTCGCTGTAAGAAATCGAAGTGTAAGCAACTTTATTGTGAGTGCTTTGCTGCTGGAGTCTACTGCAAAGGACCTTGCAGATGTAAAAACTGCGAAAATAAACCTGATACAGATCTGGAAGCTCGCACGGAGATTGAGTCTTGCAAACCACCTGCATTTGTTCCTAAAGCTGTACAAAATTCTGATTCGTCTCCTCAAATTGAGCTCAGAAAATAA

Protein sequence

>MsaT005157.1

MQDDYLFHLLITSLLFDEKLVDIHELLGCEQDGSRKDSVAGERKPEVLYQDINNINSNEEAPTDSTHAWIDTSELPDPQISIDEINYVLGLLDGSEPIEGATNIREDNQTWDNLAHVALMDNNPFQRVDDELAHIRRCVERSCQDYASEMTNSQRNNYASTSNISSRTTKFDRRNAFNEKPVLPRKHTSDPQSCVLQGNGSCLNHYNDKENENMSSGRKTESQSSSSFHLSARQGHCLSLVPSPMETQLGPSENEVQATKDFSRSTPKRTMKVEFKNIMNQQLNQNMRRTMIAQGKRPMDPSSSGSNHEKEEESADLCQIIPQRKRKVHKSNLTRKEGSCKSCRCKKSKCKQLYCECFAAGVYCKGPCRCKNCENKPDTDLEARTEIESCKPPAFVPKAVQNSDSSPQIELRK*