AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG004604

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004604 MtrunA17_Chr1g0198801 98.529 340 2 2 1 339 1 338 0.0 686
MsaG004604 MtrunA17_Chr7g0255961 50.847 177 83 2 142 317 58 231 3.40e-52 172
MsaG004604 MtrunA17_Chr3g0113721 42.661 218 109 5 124 331 9 220 4.15e-49 164
MsaG004604 MtrunA17_Chr4g0041051 41.146 192 102 2 155 339 64 251 4.13e-32 120
MsaG004604 MtrunA17_Chr2g0325521 42.458 179 92 3 145 316 45 219 1.77e-30 116
MsaG004604 MtrunA17_Chr5g0412371 36.145 166 89 3 157 316 43 197 5.35e-30 113
MsaG004604 MtrunA17_Chr5g0427361 34.934 229 107 4 136 327 8 231 5.58e-27 107
MsaG004604 MtrunA17_Chr4g0045901 43.407 182 89 6 143 317 62 236 9.44e-25 101
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG004604 AT1G68810.1 64.773 264 67 8 96 337 99 358 1.76e-94 285
MsaG004604 AT3G25710.1 50.000 320 97 8 72 333 22 336 2.28e-80 249
MsaG004604 AT3G56770.1 47.059 170 82 4 151 317 37 201 6.64e-43 148
MsaG004604 AT2G41130.1 46.629 178 84 5 143 317 55 224 2.39e-38 137
MsaG004604 AT2G40200.1 42.105 190 89 8 130 311 38 214 1.53e-33 124
MsaG004604 AT4G38070.1 37.324 142 77 3 153 294 87 216 3.61e-25 102
MsaG004604 AT1G01260.1 31.111 180 99 8 38 207 314 478 1.14e-11 66.2
MsaG004604 AT1G01260.2 31.111 180 99 8 38 207 314 478 1.14e-11 66.2
MsaG004604 AT1G01260.3 31.111 180 99 8 38 207 314 478 1.14e-11 66.2

Find 54 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGCAAGTTTGTTCAATAGA+AGG 0.283417 1:-71614849 MsaT004604.1:CDS
GATGAGTGCTCAAGAAATTA+TGG 0.286315 1:-71614701 MsaT004604.1:CDS
TCAAGACATTGAAAGCATTA+AGG 0.296728 1:-71613277 MsaT004604.1:CDS
TTCAATGTCTTGATTAGTTC+AGG 0.303436 1:+71613287 None:intergenic
ATGCAGGTTCTGAGCATCTT+AGG 0.326044 1:-71614795 MsaT004604.1:CDS
GTTGTAGATGAATCTGCTTC+TGG 0.328817 1:-71613116 MsaT004604.1:CDS
GCAGATGATGATGAAGATTA+TGG 0.331671 1:-71613374 MsaT004604.1:CDS
AATAGTGATCATCATATCTT+TGG 0.353704 1:-71615030 MsaT004604.1:CDS
GACCATGTTTGTTGCAAGAT+TGG 0.409233 1:+71614952 None:intergenic
GATGAAGATTATGGATCAAA+TGG 0.416803 1:-71613365 MsaT004604.1:CDS
TTCAGCTTCACTATGACTCT+TGG 0.417321 1:+71614657 None:intergenic
TCATCACATTCAGTTGGAAC+TGG 0.424698 1:+71613413 None:intergenic
CCTCACTTTGCTGTGATGAT+AGG 0.438078 1:-71613322 MsaT004604.1:CDS
GGATCAGGTTCAGGACCCTT+TGG 0.439350 1:-71614748 MsaT004604.1:CDS
ATACTTACTTTGGTTGTGCT+TGG 0.449724 1:+71614580 None:intergenic
CTATTGAACAAACTTGCATA+AGG 0.450006 1:+71614853 None:intergenic
CTTCAACATGGATCAGGTTC+AGG 0.466813 1:-71614757 MsaT004604.1:CDS
GCCTCATCATCTGTTGTTGA+AGG 0.470688 1:+71615058 None:intergenic
TGCAAGTTTGTTCAATAGAA+GGG 0.484018 1:-71614848 MsaT004604.1:CDS
GTTAATTCATCACATTCAGT+TGG 0.495856 1:+71613407 None:intergenic
TTCCCTACAGCAGGAGGAGG+GGG 0.504915 1:-71614991 MsaT004604.1:CDS
TCAGGTTCAGGACCCTTTGG+TGG 0.514868 1:-71614745 MsaT004604.1:CDS
AGTGATCATCATATCTTTGG+TGG 0.524209 1:-71615027 MsaT004604.1:CDS
ATGTTCCCTACAGCAGGAGG+AGG 0.528325 1:-71614994 MsaT004604.1:CDS
AGGTCTATGTTCCCTACAGC+AGG 0.528893 1:-71615000 MsaT004604.1:CDS
GCTGATATAACAACACTTGG+AGG 0.532615 1:-71613239 MsaT004604.1:CDS
CACCAATCTTGCAACAAACA+TGG 0.533876 1:-71614954 MsaT004604.1:CDS
TTTGCATATGATCATCATGC+AGG 0.543634 1:-71614811 MsaT004604.1:CDS
TCAAGAAATTATGGAGGCTA+AGG 0.546278 1:-71614692 MsaT004604.1:CDS
GATACACTTCAACATGGATC+AGG 0.552437 1:-71614763 MsaT004604.1:CDS
ATCATATCTTTGGTGGAGGA+AGG 0.562826 1:-71615020 MsaT004604.1:CDS
TGTTCCCTACAGCAGGAGGA+GGG 0.570414 1:-71614993 MsaT004604.1:CDS
TCATATGCAAACTGAAGAGA+AGG 0.572922 1:+71614823 None:intergenic
AGAAGCACTCAAAGCTGTGA+TGG 0.573378 1:-71613147 MsaT004604.1:CDS
AGCTGCGTAGCTTAGCAAGA+TGG 0.576612 1:+71614608 None:intergenic
TCCTTCAACAACAGATGATG+AGG 0.577140 1:-71615059 MsaT004604.1:CDS
GATCATCATATCTTTGGTGG+AGG 0.579767 1:-71615024 MsaT004604.1:CDS
TTCACCTTGAAAACCACCAA+AGG 0.584286 1:+71614732 None:intergenic
GTTCCCTACAGCAGGAGGAG+GGG 0.584625 1:-71614992 MsaT004604.1:CDS
TCACCTTGAAAACCACCAAA+GGG 0.586225 1:+71614733 None:intergenic
AAAGGGTCATGAGGGTTGAA+AGG 0.588818 1:+71614901 None:intergenic
TGTTGTTGAGGAATAACGAA+AGG 0.589817 1:+71614883 None:intergenic
TAAGGTGAAGCTTGTTGTTG+AGG 0.593376 1:+71614871 None:intergenic
GTTGTTGAGGAATAACGAAA+GGG 0.597793 1:+71614884 None:intergenic
AGAGTCATAGTGAAGCTGAA+AGG 0.601072 1:-71614654 MsaT004604.1:CDS
AAAGCTGATATAACAACACT+TGG 0.602897 1:-71613242 MsaT004604.1:CDS
CTGGAAGTGTCAAGAGACAA+AGG 0.603991 1:-71613097 MsaT004604.1:CDS
GAATAACGAAAGGGTCATGA+GGG 0.626099 1:+71614893 None:intergenic
CCTATCATCACAGCAAAGTG+AGG 0.634985 1:+71613322 None:intergenic
AGTATGATACAAGAAGATCA+AGG 0.636259 1:-71615138 MsaT004604.1:CDS
GGAATAACGAAAGGGTCATG+AGG 0.647080 1:+71614892 None:intergenic
TCTATGTTCCCTACAGCAGG+AGG 0.647545 1:-71614997 MsaT004604.1:CDS
ATATCAGATACACTTCAACA+TGG 0.699194 1:-71614769 MsaT004604.1:CDS
GAGTGCTCAAGAAATTATGG+AGG 0.703562 1:-71614698 MsaT004604.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 71613070 71615157 71613070 ID=MsaG004604
Chr1 mRNA 71613070 71615157 71613070 ID=MsaT004604.1;Parent=MsaG004604
Chr1 exon 71613070 71613519 71613070 ID=MsaT004604.1.exon2;Parent=MsaT004604.1
Chr1 CDS 71613070 71613519 71613070 ID=cds.MsaT004604.1;Parent=MsaT004604.1
Chr1 exon 71614588 71615157 71614588 ID=MsaT004604.1.exon1;Parent=MsaT004604.1
Chr1 CDS 71614588 71615157 71614588 ID=cds.MsaT004604.1;Parent=MsaT004604.1
Gene Sequence

>MsaT004604.1

ATGATACAAGAAGATCAAGGACAGTGTTCATCTCAAACAATCAATAACTTTGAAACTTATCAACAAGAGCAGTTTCTCCTTCAACAACAGATGATGAGGCAACAAAATAGTGATCATCATATCTTTGGTGGAGGAAGGTCTATGTTCCCTACAGCAGGAGGAGGGGGTGATCATCAAGTTTCACCAATCTTGCAACAAACATGGTCTATGCAACAACTTCATCATCATCATCATCCTTTCAACCCTCATGACCCTTTCGTTATTCCTCAACAACAAGCTTCACCTTATGCAAGTTTGTTCAATAGAAGGGTTCCTTCTCTTCAGTTTGCATATGATCATCATGCAGGTTCTGAGCATCTTAGGATCATATCAGATACACTTCAACATGGATCAGGTTCAGGACCCTTTGGTGGTTTTCAAGGTGAAGTTGGAAAGATGAGTGCTCAAGAAATTATGGAGGCTAAGGCTCTTGCTGCTTCCAAGAGTCATAGTGAAGCTGAAAGGAGACGCAGAGAGAGAATCAATAACCATCTTGCTAAGCTACGCAGCTTGTTGCCAAGCACAACCAAAACAGACAAAGCATCATTGCTAGCAGAAGTGATACAACATGTAAAAGAATTGAAGCGTCAAACATCATTGATAGCAGAAACAAGTCCAGTTCCAACTGAATGTGATGAATTAACAGTAGATGCTGCAGATGATGATGAAGATTATGGATCAAATGGAAACAAGTTTATCATAAAAGCCTCACTTTGCTGTGATGATAGGTCAGATCTTTTGCCTGAACTAATCAAGACATTGAAAGCATTAAGGTTAAGAACACTCAAAGCTGATATAACAACACTTGGAGGACGTGTTAAGAATGTTTTGTTCATTACTGGTGAAGAAGATGATCATGAATATTGCATTAGTTCAATACAAGAAGCACTCAAAGCTGTGATGGAGAAGAGTGTTGTAGATGAATCTGCTTCTGGAAGTGTCAAGAGACAAAGGACTAATATAATATCAATATCTAATTAA
Protein sequence

>MsaT004604.1

MIQEDQGQCSSQTINNFETYQQEQFLLQQQMMRQQNSDHHIFGGGRSMFPTAGGGGDHQVSPILQQTWSMQQLHHHHHPFNPHDPFVIPQQQASPYASLFNRRVPSLQFAYDHHAGSEHLRIISDTLQHGSGSGPFGGFQGEVGKMSAQEIMEAKALAASKSHSEAERRRRERINNHLAKLRSLLPSTTKTDKASLLAEVIQHVKELKRQTSLIAETSPVPTECDELTVDAADDDEDYGSNGNKFIIKASLCCDDRSDLLPELIKTLKALRLRTLKADITTLGGRVKNVLFITGEEDDHEYCISSIQEALKAVMEKSVVDESASGSVKRQRTNIISISN*