AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG014057

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG014057 MtrunA17_Chr3g0101151 95.406 283 11 1 1 283 1 281 0.0 566
MsaG014057 MtrunA17_Chr5g0445571 56.678 307 105 9 1 283 1 303 2.62e-99 304
MsaG014057 MtrunA17_Chr3g0090551 33.333 138 85 1 1 131 1 138 1.15e-12 69.3
MsaG014057 MtrunA17_Chr4g0020571 26.512 215 120 4 1 184 1 208 1.19e-12 68.9
MsaG014057 MtrunA17_Chr3g0101161 73.684 38 10 0 317 354 152 189 2.74e-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
MsaG014057 AT3G52980.1 38.127 299 140 7 1 283 1 270 6.64e-58 192
MsaG014057 AT2G05160.3 39.661 295 153 10 1 283 1 282 2.13e-57 194
MsaG014057 AT2G05160.2 40.000 295 152 10 1 283 1 282 4.92e-57 194
MsaG014057 AT2G05160.1 40.000 295 152 10 1 283 1 282 4.92e-57 194
MsaG014057 AT3G51950.1 34.010 197 92 9 1 184 1 172 4.95e-19 88.6
MsaG014057 AT3G51950.3 34.010 197 92 9 1 184 1 172 4.95e-19 88.6
MsaG014057 AT3G51950.2 34.010 197 92 9 1 184 1 172 4.95e-19 88.6
MsaG014057 AT3G51950.4 34.010 197 92 9 1 184 1 172 4.95e-19 88.6
MsaG014057 AT3G63450.7 33.099 142 68 3 1 121 1 136 6.23e-13 69.7
MsaG014057 AT3G63450.3 52.381 63 30 0 1 63 1 63 6.40e-13 69.7
MsaG014057 AT3G63450.4 52.381 63 30 0 1 63 1 63 6.40e-13 69.7
MsaG014057 AT3G63450.5 52.381 63 30 0 1 63 1 63 6.40e-13 69.7
MsaG014057 AT3G63450.2 52.381 63 30 0 1 63 1 63 6.53e-13 69.7
MsaG014057 AT3G63450.1 52.381 63 30 0 1 63 1 63 6.53e-13 69.7
MsaG014057 AT3G21100.2 47.541 61 32 0 1 61 1 61 9.66e-11 63.5
MsaG014057 AT3G21100.1 47.541 61 32 0 1 61 1 61 9.66e-11 63.5
MsaG014057 AT3G21100.4 47.541 61 32 0 1 61 1 61 9.84e-11 63.5
MsaG014057 AT3G21100.3 47.541 61 32 0 1 61 1 61 9.84e-11 63.5

Find 66 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGTTCTACGTCTTATTTAT+AGG 0.197027 3:-66109768 MsaT014057.1:CDS
ACTTGCCGGCGAAGAATTTC+CGG 0.212833 3:+66110626 None:intergenic
GGGATATGAATCTCAGTTTA+TGG 0.252386 3:-66109842 MsaT014057.1:CDS
TGCTAAATTAGCTTCGTTTC+CGG 0.258908 3:-66110724 MsaT014057.1:CDS
GGAAGTGAAGCAATTGAAAT+AGG 0.268074 3:+66110150 None:intergenic
TTCTTCGCCGGCAAGTATTC+AGG 0.286968 3:-66110619 MsaT014057.1:CDS
GTGCCTATTGTCATAAATTC+TGG 0.297480 3:+66110555 None:intergenic
ATGATCTTTGTAGCATGTTC+TGG 0.302836 3:+66110786 None:intergenic
ACCATGATGCTGATTGTAAT+AGG 0.338016 3:+66110587 None:intergenic
ATACTATGATAAGTATAAAA+AGG 0.338782 3:-66110121 MsaT014057.1:CDS
GATCCGTGAAGTTGCCCTTA+AGG 0.356297 3:-66110694 MsaT014057.1:CDS
TCCGATTGCGAAATAGTATT+CGG 0.386740 3:-66110023 MsaT014057.1:CDS
GACATAGTCTCTCATATGTA+TGG 0.411648 3:-66110270 MsaT014057.1:CDS
ATTTCAGCAAAGGATATTGC+AGG 0.419277 3:-66110338 MsaT014057.1:CDS
AGCCAACGACATGGCAAGTC+CGG 0.430366 3:-66110069 MsaT014057.1:CDS
TACGTCTTATTTATAGGAGT+CGG 0.436904 3:-66109762 MsaT014057.1:CDS
ACGTCTTATTTATAGGAGTC+GGG 0.437880 3:-66109761 MsaT014057.1:CDS
CCATGATGCTGATTGTAATA+GGG 0.442845 3:+66110588 None:intergenic
AGTCCAGAATTTATGACAAT+AGG 0.443283 3:-66110558 MsaT014057.1:CDS
GCAGGCATGGAAATAGTTGT+AGG 0.444946 3:-66110320 MsaT014057.1:CDS
TCTAGTTGCGCCAGTGATCC+AGG 0.446585 3:+66110210 None:intergenic
GCCGAATACTATTTCGCAAT+CGG 0.448326 3:+66110022 None:intergenic
GAACATGCTACAAAGATCAT+TGG 0.453611 3:-66110783 MsaT014057.1:CDS
GGGTGAACCTGAATACTTGC+CGG 0.454616 3:+66110612 None:intergenic
AACGATGTCACCTGGATCAC+TGG 0.458759 3:-66110220 MsaT014057.1:CDS
TTCAATTGCTTCACTTCCAA+TGG 0.459864 3:-66110145 MsaT014057.1:CDS
CAGCTCATGACGTTGCCAAC+TGG 0.468518 3:-66109810 MsaT014057.1:CDS
ACAATGCAGTACGGGTTTGA+TGG 0.469436 3:+66110526 None:intergenic
TGGCCTTAAGGGCAACTTCA+CGG 0.473570 3:+66110691 None:intergenic
TCAGCTGTAGCCAATTTGAA+TGG 0.476164 3:-66110417 MsaT014057.1:CDS
CAAAACTGAGCTTCAAAAGA+TGG 0.480853 3:-66110670 MsaT014057.1:CDS
CAAACCCGTACTGCATTGTT+CGG 0.489462 3:-66110522 MsaT014057.1:CDS
TACTTATCATAGTATGCCAT+TGG 0.489665 3:+66110129 None:intergenic
GCTCGCCGCTATCTTGCATA+AGG 0.491407 3:+66110754 None:intergenic
CAGTTGGCAACGTCATGAGC+TGG 0.499886 3:+66109811 None:intergenic
CAGAGCATTGCTCCTGATGA+AGG 0.505164 3:-66109730 MsaT014057.1:CDS
AGCAAAGGATATTGCAGGCA+TGG 0.511519 3:-66110333 MsaT014057.1:CDS
AGCCGGACTTGCCATGTCGT+TGG 0.516837 3:+66110067 None:intergenic
CCCTATTACAATCAGCATCA+TGG 0.517223 3:-66110588 MsaT014057.1:CDS
CCGTACTGCATTGTTCGGTT+CGG 0.518157 3:-66110517 MsaT014057.1:CDS
CATGTCGTTGGCTCTCAGCT+AGG 0.521057 3:+66110079 None:intergenic
GTTGAGCTCTTAAAACAAAG+AGG 0.521311 3:-66110177 MsaT014057.1:CDS
ACTTCACGGATCAAATTATC+CGG 0.521367 3:+66110705 None:intergenic
ACTAGATCAGTAATCTCGTC+CGG 0.524588 3:-66110645 MsaT014057.1:CDS
CAAAATATTAGTGCATCAGA+AGG 0.532203 3:-66109863 MsaT014057.1:CDS
ATAGTATTCGGCTAATTGAC+TGG 0.532556 3:-66110011 MsaT014057.1:intron
AGTTGTAGGTTCTATCATCA+TGG 0.533176 3:-66110306 MsaT014057.1:CDS
GTGCCCTCTGTTGAAATTGT+GGG 0.535210 3:-66109682 MsaT014057.1:CDS
AAGCTTTGTCAAATTGTAGC+CGG 0.544615 3:+66110050 None:intergenic
CGAACCGAACAATGCAGTAC+GGG 0.548958 3:+66110518 None:intergenic
CTGATGAAGGAAAAGAGCAT+TGG 0.553316 3:-66109717 MsaT014057.1:CDS
AGTTGGCAACGTCATGAGCT+GGG 0.572979 3:+66109812 None:intergenic
ATCACTGGCGCAACTAGAGT+CGG 0.573776 3:-66110205 MsaT014057.1:CDS
CTTAAGTGTTGAATACCAGT+TGG 0.575343 3:+66109795 None:intergenic
AGTGCCCTCTGTTGAAATTG+TGG 0.581633 3:-66109683 MsaT014057.1:CDS
TATCCCACAATTTCAACAGA+GGG 0.581957 3:+66109679 None:intergenic
CTCGTCCGGAAATTCTTCGC+CGG 0.593097 3:-66110631 MsaT014057.1:CDS
ACATGTCACTATTTCAGCAA+AGG 0.593665 3:-66110348 MsaT014057.1:CDS
CCGAACCGAACAATGCAGTA+CGG 0.598627 3:+66110517 None:intergenic
GATGAACAAACGATGTCACC+TGG 0.614780 3:-66110228 MsaT014057.1:CDS
AAAATATTAGTGCATCAGAA+GGG 0.631065 3:-66109862 MsaT014057.1:CDS
CTAGCTGAGAGCCAACGACA+TGG 0.659391 3:-66110078 MsaT014057.1:CDS
TTATCCCACAATTTCAACAG+AGG 0.661311 3:+66109678 None:intergenic
TGATGCTGATTGTAATAGGG+AGG 0.675488 3:+66110591 None:intergenic
TATCTCCTTATGCAAGATAG+CGG 0.677531 3:-66110759 MsaT014057.1:CDS
GATGCTGATTGTAATAGGGA+GGG 0.712891 3:+66110592 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 66109678 66110862 66109678 ID=MsaG014057
Chr3 mRNA 66109678 66110862 66109678 ID=MsaT014057.1;Parent=MsaG014057
Chr3 exon 66109678 66109894 66109678 ID=MsaT014057.1.exon2;Parent=MsaT014057.1
Chr3 CDS 66109678 66109894 66109678 ID=cds.MsaT014057.1;Parent=MsaT014057.1
Chr3 exon 66110012 66110862 66110012 ID=MsaT014057.1.exon1;Parent=MsaT014057.1
Chr3 CDS 66110012 66110862 66110012 ID=cds.MsaT014057.1;Parent=MsaT014057.1
Gene Sequence

>MsaT014057.1

ATGGATATTTCTGAATGTACAAGAATTGTTTTAGATAAAATTCAAAGATTTGAGCCAGAACATGCTACAAAGATCATTGGATATCTCCTTATGCAAGATAGCGGCGAGCAAGAGATTGCTAAATTAGCTTCGTTTCCGGATAATTTGATCCGTGAAGTTGCCCTTAAGGCCAAAACTGAGCTTCAAAAGATGGCTACTAGATCAGTAATCTCGTCCGGAAATTCTTCGCCGGCAAGTATTCAGGTTCACCCTCCCTATTACAATCAGCATCATGGTAATACTAGTCCAGAATTTATGACAATAGGCACAACTGACCATCAAACCCGTACTGCATTGTTCGGTTCGGAGAATCATCATCATGTAGATAGTGTAAATTCTACAACTGATAACTATGATTGCTATAATTACTACTTAGAATATGCTTCAGCTGTAGCCAATTTGAATGGAAAAATCGGTAAAAGGTTTTCGAACATGACTGAATTTCCATTCAAAACATGTCACTATTTCAGCAAAGGATATTGCAGGCATGGAAATAGTTGTAGGTTCTATCATCATGGACAAGCTGTTTCTGACATAGTCTCTCATATGTATGGAAACGATGCTACTGCTAACGATGAACAAACGATGTCACCTGGATCACTGGCGCAACTAGAGTCGGAAATTGTTGAGCTCTTAAAACAAAGAGGAAATCCTATTTCAATTGCTTCACTTCCAATGGCATACTATGATAAGTATAAAAAGGTGTTACAAGCTGAAGGTTACCTAGCTGAGAGCCAACGACATGGCAAGTCCGGCTACAATTTGACAAAGCTTCTTATCCGATTGCGAAATAGTATTCGGCTAATTGACTGGCAGATTGTCAAAATATTAGTGCATCAGAAGGGATATGAATCTCAGTTTATGGAAAAGCTCCCAGCTCATGACGTTGCCAACTGGTATTCAACACTTAAGCTTGAAGTTCTACGTCTTATTTATAGGAGTCGGGAATTTAAGCAGAGCATTGCTCCTGATGAAGGAAAAGAGCATTGGATCTTCAAGCAAGTGCCCTCTGTTGAAATTGTGGGATAA
Protein sequence

>MsaT014057.1

MDISECTRIVLDKIQRFEPEHATKIIGYLLMQDSGEQEIAKLASFPDNLIREVALKAKTELQKMATRSVISSGNSSPASIQVHPPYYNQHHGNTSPEFMTIGTTDHQTRTALFGSENHHHVDSVNSTTDNYDCYNYYLEYASAVANLNGKIGKRFSNMTEFPFKTCHYFSKGYCRHGNSCRFYHHGQAVSDIVSHMYGNDATANDEQTMSPGSLAQLESEIVELLKQRGNPISIASLPMAYYDKYKKVLQAEGYLAESQRHGKSGYNLTKLLIRLRNSIRLIDWQIVKILVHQKGYESQFMEKLPAHDVANWYSTLKLEVLRLIYRSREFKQSIAPDEGKEHWIFKQVPSVEIVG*