AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG013511

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013511 MtrunA17_Chr1g0203051 40.000 195 116 1 1 194 64 258 1.82e-46 165
MsaG013511 MtrunA17_Chr2g0287651 37.209 172 107 1 7 177 66 237 7.66e-31 121
MsaG013511 MtrunA17_Chr1g0171741 42.466 146 81 3 3 147 120 263 1.89e-30 115
MsaG013511 MtrunA17_Chr8g0389811 40.336 119 71 0 1 119 69 187 9.75e-28 106
MsaG013511 MtrunA17_Chr2g0331371 45.378 119 65 0 1 119 40 158 7.29e-26 101
MsaG013511 MtrunA17_Chr6g0473421 43.956 91 51 0 1 91 40 130 1.79e-21 88.2
MsaG013511 MtrunA17_Chr1g0172931 38.776 98 60 0 1 98 61 158 4.86e-18 79.3
MsaG013511 MtrunA17_Chr5g0448761 35.625 160 100 3 21 177 65 224 2.58e-16 79.0
MsaG013511 MtrunA17_Chr2g0290391 34.524 168 101 7 22 183 57 221 6.36e-14 71.6
MsaG013511 MtrunA17_Chr1g0198761 38.462 130 69 5 22 141 53 181 3.52e-13 69.7
MsaG013511 MtrunA17_Chr2g0276841 31.690 142 91 5 22 158 76 216 8.54e-13 68.6
MsaG013511 MtrunA17_Chr1g0202341 35.246 122 73 3 2 119 34 153 2.68e-12 67.0
MsaG013511 MtrunA17_Chr6g0458391 29.442 197 108 10 2 178 74 259 7.15e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG013511 AT5G28530.5 33.136 169 103 6 22 183 61 226 1.01e-15 77.4
MsaG013511 AT5G28530.4 33.136 169 103 6 22 183 61 226 1.01e-15 77.4
MsaG013511 AT5G28530.3 33.136 169 103 6 22 183 61 226 1.15e-15 77.4
MsaG013511 AT5G28530.2 33.136 169 103 6 22 183 61 226 1.15e-15 77.4
MsaG013511 AT5G28530.1 33.136 169 103 6 22 183 61 226 1.28e-15 77.4
MsaG013511 AT4G38180.1 36.250 160 98 4 21 177 78 236 3.64e-15 75.9

Find 73 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTTGGTTTGCCCGAAATTA+TGG 0.193772 3:+55180219 MsaT013511.1:CDS
CACATCCGACCCTGACATTC+TGG 0.267184 3:+55182029 MsaT013511.1:CDS
CAGCCTGCCGCAAGATATTC+TGG 0.282972 3:+55181860 MsaT013511.1:intron
GAACAGAGAATCCATAATTT+CGG 0.305857 3:-55180230 None:intergenic
GAATGTGATATACAAGAAAT+TGG 0.324339 3:+55180525 MsaT013511.1:CDS
AAATAAGTCGTTTGAAATTA+CGG 0.344458 3:+55181962 MsaT013511.1:CDS
AAATCGATTGTTTACCGATC+TGG 0.362771 3:-55180653 None:intergenic
AACTCATACCTTGCTATATC+AGG 0.368955 3:-55180165 None:intergenic
GATGTGCCGGTCTCTGAAAC+TGG 0.376388 3:-55182012 None:intergenic
CCCCATGGTGTGAGAACAAA+AGG 0.398301 3:+55182054 MsaT013511.1:CDS
GTTTACCGATCTGGTTATAC+AGG 0.399051 3:-55180644 None:intergenic
AACAGAGAATCCATAATTTC+GGG 0.402497 3:-55180229 None:intergenic
GCCATTCCCAGCGGGACTCC+TGG 0.404650 3:+55182084 MsaT013511.1:CDS
AGTAGGGGTAAGACCATATC+AGG 0.417537 3:+55180560 MsaT013511.1:CDS
CCATGGGGATCCAGAATGTC+AGG 0.418608 3:-55182039 None:intergenic
TCACTAATCTTTCTATAAGC+TGG 0.422441 3:-55180504 None:intergenic
ATCGTTCCATACACCTGATA+TGG 0.425097 3:-55180573 None:intergenic
CATAGCTGGTGGATTTCAAA+AGG 0.459610 3:+55180602 MsaT013511.1:CDS
GAGTTGAATGGTACTTTGGT+TGG 0.466772 3:+55180474 MsaT013511.1:CDS
TGCGACAAGGTGTGGGTGTA+TGG 0.469129 3:+55180377 MsaT013511.1:CDS
TTCGCAAAGGGCAAGTGATA+AGG 0.473189 3:+55180250 MsaT013511.1:CDS
AAGGTATGAGTTTGCTGAGT+TGG 0.476224 3:+55180176 MsaT013511.1:CDS
GAGTCGGGTCATTTGTAGCT+CGG 0.479050 3:-55181990 None:intergenic
AGTTGAATGGTACTTTGGTT+GGG 0.483514 3:+55180475 MsaT013511.1:CDS
GCTGGTGGATTTCAAAAGGT+TGG 0.485254 3:+55180606 MsaT013511.1:CDS
CCGGTCTCTGAAACTGGAGT+CGG 0.486621 3:-55182006 None:intergenic
AATGTCAGGGTCGGATGTGC+CGG 0.487022 3:-55182025 None:intergenic
CGCGCGCGCCTACGACCACC+AGG 0.493532 3:-55182102 None:intergenic
GTAAGACCATATCAGGTGTA+TGG 0.499353 3:+55180567 MsaT013511.1:CDS
CGGTCTCTGAAACTGGAGTC+GGG 0.506401 3:-55182005 None:intergenic
GGAACGATGGCTAACATAGC+TGG 0.507908 3:+55180588 MsaT013511.1:CDS
ATGGATTCTCTGTTCGCAAA+GGG 0.511572 3:+55180238 MsaT013511.1:CDS
ACCAGGAGTCCCGCTGGGAA+TGG 0.512076 3:-55182085 None:intergenic
TCATGAGTTGAATGGTACTT+TGG 0.512686 3:+55180470 MsaT013511.1:CDS
ACGACCACCAGGAGTCCCGC+TGG 0.514937 3:-55182091 None:intergenic
CAAGTGATAAGGAATCGGTT+TGG 0.519885 3:+55180261 MsaT013511.1:CDS
GTACATGCAGTAAACTCGTC+AGG 0.522772 3:+55181887 MsaT013511.1:CDS
TTGGACGCAACATGAGAGTA+GGG 0.523666 3:+55180544 MsaT013511.1:CDS
AAGGGCAAGTGATAAGGAAT+CGG 0.531381 3:+55180256 MsaT013511.1:CDS
AAGGAATCGGTTTGGAGACG+TGG 0.535384 3:+55180269 MsaT013511.1:CDS
ATGCCAGAATATCTTGCGGC+AGG 0.539872 3:-55181863 None:intergenic
GCGGGACTCCTGGTGGTCGT+AGG 0.543965 3:+55182094 MsaT013511.1:CDS
TTGGTATGTCACTGTATTTG+TGG 0.551320 3:+55180437 MsaT013511.1:CDS
GACCACAATCATGAGTTGAA+TGG 0.554817 3:+55180462 MsaT013511.1:CDS
ATTGGACGCAACATGAGAGT+AGG 0.555588 3:+55180543 MsaT013511.1:CDS
GGTGCGGTGCCATTCCCAGC+GGG 0.558448 3:+55182076 MsaT013511.1:CDS
CGCGCGGTTTGCGATGTATG+CGG 0.559913 3:+55182119 MsaT013511.1:CDS
TGCGATGTATGCGGTGTGGT+CGG 0.567559 3:+55182128 MsaT013511.1:CDS
AACCGTGTCATTGACATGTT+GGG 0.569907 3:+55181934 MsaT013511.1:CDS
TATGGATTCTCTGTTCGCAA+AGG 0.575008 3:+55180237 MsaT013511.1:CDS
CCGACTCCAGTTTCAGAGAC+CGG 0.584309 3:+55182006 MsaT013511.1:CDS
CGACCACCAGGAGTCCCGCT+GGG 0.592727 3:-55182090 None:intergenic
CTGGTGGTCGTAGGCGCGCG+CGG 0.605689 3:+55182103 MsaT013511.1:CDS
CAACCGTGTCATTGACATGT+TGG 0.614671 3:+55181933 MsaT013511.1:CDS
TACCATTCAACTCATGATTG+TGG 0.617130 3:-55180464 None:intergenic
TTTCTGCACCTGATATAGCA+AGG 0.617857 3:+55180157 MsaT013511.1:CDS
CACCCAACATGTCAATGACA+CGG 0.623577 3:-55181936 None:intergenic
AACGACCTGTATAACCAGAT+CGG 0.627677 3:+55180639 MsaT013511.1:CDS
ATTCCCAGCGGGACTCCTGG+TGG 0.630710 3:+55182087 MsaT013511.1:CDS
TAACAGTGGATTAACAGTTG+AGG 0.636914 3:+55180332 MsaT013511.1:CDS
ACGATGGCTAACATAGCTGG+TGG 0.638984 3:+55180591 MsaT013511.1:CDS
GGGATCCAGAATGTCAGGGT+CGG 0.640122 3:-55182034 None:intergenic
CCTGACATTCTGGATCCCCA+TGG 0.644460 3:+55182039 MsaT013511.1:CDS
TACAATGCCAGAATATCTTG+CGG 0.650299 3:-55181867 None:intergenic
CCCATGGTGTGAGAACAAAA+GGG 0.663995 3:+55182055 MsaT013511.1:CDS
ATATCAGGTGTATGGAACGA+TGG 0.672619 3:+55180575 MsaT013511.1:CDS
GGGTGCGGTGCCATTCCCAG+CGG 0.685698 3:+55182075 MsaT013511.1:CDS
GGTGTGAGAACAAAAGGGTG+CGG 0.696480 3:+55182060 MsaT013511.1:CDS
CATGGGGATCCAGAATGTCA+GGG 0.700414 3:-55182038 None:intergenic
CGTGTCATTGACATGTTGGG+TGG 0.702970 3:+55181937 MsaT013511.1:CDS
TGGACGCAACATGAGAGTAG+GGG 0.706846 3:+55180545 MsaT013511.1:CDS
CATGCAGTAAACTCGTCAGG+TGG 0.722427 3:+55181890 MsaT013511.1:CDS
GGTTTGCGATGTATGCGGTG+TGG 0.759023 3:+55182124 MsaT013511.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 55180123 55182185 55180123 ID=MsaG013511
Chr3 mRNA 55180123 55182185 55180123 ID=MsaT013511.1;Parent=MsaG013511
Chr3 exon 55180123 55180660 55180123 ID=MsaT013511.1.exon1;Parent=MsaT013511.1
Chr3 CDS 55180123 55180660 55180123 ID=cds.MsaT013511.1;Parent=MsaT013511.1
Chr3 exon 55181863 55182185 55181863 ID=MsaT013511.1.exon2;Parent=MsaT013511.1
Chr3 CDS 55181863 55182185 55181863 ID=cds.MsaT013511.1;Parent=MsaT013511.1
Gene Sequence

>MsaT013511.1

ATGGTTGACATAATGAAGATAGACATGCGCAACTTTTCTGCACCTGATATAGCAAGGTATGAGTTTGCTGAGTTGGATGTAGCTTACATGTTTTACACTTGGTTTGCCCGAAATTATGGATTCTCTGTTCGCAAAGGGCAAGTGATAAGGAATCGGTTTGGAGACGTGGTTCAACAAACTTTTCTATGTTCATGCGAAGGTTTTAGAAATAACAGTGGATTAACAGTTGAGGAAAGAAAGCGCGAGTCAAAAAATGCGACAAGGTGTGGGTGTATGGCAAAATTAAGAGTGCATGTGAACATTTTGTCTAAGCGTTGGTATGTCACTGTATTTGTGGTTGACCACAATCATGAGTTGAATGGTACTTTGGTTGGGTTACTTCCAGCTTATAGAAAGATTAGTGAATGTGATATACAAGAAATTGGACGCAACATGAGAGTAGGGGTAAGACCATATCAGGTGTATGGAACGATGGCTAACATAGCTGGTGGATTTCAAAAGGTTGGCTTTGTTAAAAACGACCTGTATAACCAGATCGCCTGCCGCAAGATATTCTGGCATTGTACATGCAGTAAACTCGTCAGGTGGTCTCTGAAGATCGATGAGTACAACCGTGTCATTGACATGTTGGGTGGCGAAATAAGTCGTTTGAAATTACGGACAAACCGAGCTACAAATGACCCGACTCCAGTTTCAGAGACCGGCACATCCGACCCTGACATTCTGGATCCCCATGGTGTGAGAACAAAAGGGTGCGGTGCCATTCCCAGCGGGACTCCTGGTGGTCGTAGGCGCGCGCGGTTTGCGATGTATGCGGTGTGGTCGGTCATAACAGACGATGTTGTCCTCAAAACAATGTAA
Protein sequence

>MsaT013511.1

MVDIMKIDMRNFSAPDIARYEFAELDVAYMFYTWFARNYGFSVRKGQVIRNRFGDVVQQTFLCSCEGFRNNSGLTVEERKRESKNATRCGCMAKLRVHVNILSKRWYVTVFVVDHNHELNGTLVGLLPAYRKISECDIQEIGRNMRVGVRPYQVYGTMANIAGGFQKVGFVKNDLYNQIACRKIFWHCTCSKLVRWSLKIDEYNRVIDMLGGEISRLKLRTNRATNDPTPVSETGTSDPDILDPHGVRTKGCGAIPSGTPGGRRRARFAMYAVWSVITDDVVLKTM*