AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG005071

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005071 MtrunA17_Chr1g0204001 88.462 338 24 4 1 324 1 337 0.0 553
MsaG005071 MtrunA17_Chr8g0350941 51.661 271 101 11 62 316 76 332 7.48e-73 228
MsaG005071 MtrunA17_Chr2g0277361 58.475 118 45 1 40 153 101 218 8.06e-38 140
MsaG005071 MtrunA17_Chr7g0224581 71.765 85 24 0 58 142 43 127 1.28e-36 133
MsaG005071 MtrunA17_Chr4g0060601 54.264 129 48 3 15 132 36 164 3.14e-34 130
MsaG005071 MtrunA17_Chr5g0416581 67.059 85 28 0 62 146 64 148 2.71e-33 126
MsaG005071 MtrunA17_Chr1g0180911 82.090 67 12 0 61 127 45 111 7.62e-33 120
MsaG005071 MtrunA17_Chr1g0164881 71.053 76 22 0 52 127 19 94 1.45e-31 118
MsaG005071 MtrunA17_Chr1g0211941 68.750 80 25 0 58 137 26 105 3.15e-31 118
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG005071 AT5G51910.1 48.910 321 111 11 1 310 1 279 9.64e-76 234
MsaG005071 AT5G51910.2 48.910 321 111 11 1 310 1 279 9.64e-76 234
MsaG005071 AT2G45680.1 50.890 281 110 8 62 315 72 351 1.76e-67 215
MsaG005071 AT1G58100.1 71.264 87 18 2 62 141 57 143 3.08e-34 129
MsaG005071 AT3G27010.2 59.322 118 33 4 11 126 35 139 1.69e-33 125
MsaG005071 AT3G27010.1 59.322 118 33 4 11 126 35 139 1.69e-33 125
MsaG005071 AT1G69690.1 77.465 71 16 0 62 132 49 119 1.92e-33 125
MsaG005071 AT1G72010.1 69.620 79 24 0 59 137 57 135 4.04e-33 126
MsaG005071 AT3G47620.1 63.918 97 20 2 37 127 92 179 1.35e-32 126
MsaG005071 AT1G35560.1 68.966 87 20 2 62 141 52 138 6.45e-32 122
MsaG005071 AT5G23280.1 65.909 88 27 1 40 127 17 101 2.01e-31 119
MsaG005071 AT5G08330.1 78.261 69 15 0 59 127 25 93 5.05e-31 117
MsaG005071 AT5G41030.1 60.256 78 31 0 53 130 56 133 8.26e-28 108
MsaG005071 AT2G37000.1 76.667 60 14 0 65 124 43 102 1.16e-25 101
MsaG005071 AT3G45150.1 60.317 63 25 0 61 123 13 75 1.81e-21 89.7
MsaG005071 AT1G58100.2 86.111 36 5 0 62 97 57 92 1.18e-14 74.3

Find 101 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGATTCATTAAACTTGAATT+TGG 0.121922 1:-77366114 None:intergenic
TAAGAAAGAGTTGCAGTTTA+TGG 0.151782 1:+77366350 MsaT005071.1:CDS
GGGTTGTTCTTCTGCAAATT+TGG 0.196594 1:+77366371 MsaT005071.1:CDS
CCGTATGCTGTTTGAGCAAT+TGG 0.236628 1:-77365976 None:intergenic
TTTGAACCGGCATCGGAATA+AGG 0.270424 1:-77365582 None:intergenic
GATCAAGTTTCAATGTGTTC+TGG 0.294475 1:+77365946 MsaT005071.1:CDS
GGCGGCGGTGGTGGTGAAAA+TGG 0.305547 1:+77366015 MsaT005071.1:CDS
TAATGAATCAGCCACAGTTT+TGG 0.305680 1:+77366127 MsaT005071.1:CDS
CCTCGTCAGTTGAAAGATTC+TGG 0.326356 1:-77365701 None:intergenic
CGTATGCTGTTTGAGCAATT+GGG 0.328215 1:-77365975 None:intergenic
AAGAAAGAGTTGCAGTTTAT+GGG 0.351004 1:+77366351 MsaT005071.1:CDS
AGGGACGTGGTCGGAGAATC+AGG 0.360591 1:+77365659 MsaT005071.1:CDS
GATTCATTAAACTTGAATTT+GGG 0.361250 1:-77366113 None:intergenic
AAAACATCATCGCCGCCGTT+AGG 0.366433 1:-77365454 None:intergenic
GCAGAAACAAAATCAGAAAT+AGG 0.368459 1:-77366189 None:intergenic
CTTCAAATACTCAGATGATA+AGG 0.371896 1:+77366304 MsaT005071.1:CDS
AACTTAAAGCTTCAATTTGA+AGG 0.378942 1:-77366414 None:intergenic
TTCAAATACTCAGATGATAA+GGG 0.380031 1:+77366305 MsaT005071.1:CDS
TTCAAATGCTTCATCTACTT+TGG 0.380509 1:+77366233 MsaT005071.1:CDS
ACCTCCGGTGGCGGCGGTGG+TGG 0.384186 1:+77366006 MsaT005071.1:CDS
GTGGTGGTTTAGTTCCATTA+TGG 0.415083 1:+77366037 MsaT005071.1:CDS
ACCACCTCCGGTGGCGGCGG+TGG 0.420445 1:+77366003 MsaT005071.1:CDS
GACAACGGAGCCTGCGGCGG+CGG 0.427457 1:+77365522 MsaT005071.1:CDS
TTACTTACAACAGGCCATAA+TGG 0.429653 1:-77366051 None:intergenic
TGGTCGGAGAATCAGGATTC+CGG 0.442503 1:+77365666 MsaT005071.1:CDS
ACCACCGCCGCCACCGGAGG+TGG 0.448519 1:-77366004 None:intergenic
ATTCTGGCGGCGCATGTCGC+CGG 0.450483 1:-77365685 None:intergenic
AAACATCATCGCCGCCGTTA+GGG 0.450955 1:-77365453 None:intergenic
AAAGTAGATGAAGCATTTGA+AGG 0.463468 1:-77366231 None:intergenic
GCCACTGTCATCGTTTGAAC+CGG 0.470202 1:-77365595 None:intergenic
ATCATCGAAGCTACCGGCAC+TGG 0.470702 1:+77365787 MsaT005071.1:CDS
AACATCATCTCCGGCGAGAC+CGG 0.479647 1:+77365858 MsaT005071.1:CDS
ACCGCCGCCACCGGAGGTGG+TGG 0.490467 1:-77366001 None:intergenic
GGTGCCACCACCTCCGGTGG+CGG 0.492237 1:+77365997 MsaT005071.1:CDS
CTGTTGTAAGTAACGGTGTT+GGG 0.497781 1:+77366061 MsaT005071.1:CDS
CATCTGAGTATTTGAAGAAG+TGG 0.499530 1:-77366298 None:intergenic
TCTTTCATTACCGCCGCCGC+AGG 0.501320 1:-77365532 None:intergenic
CCAACACCGTTACTTACAAC+AGG 0.501497 1:-77366060 None:intergenic
GCCACCACCTCCGGTGGCGG+CGG 0.501891 1:+77366000 MsaT005071.1:CDS
GCATACGGTGCCACCACCTC+CGG 0.506126 1:+77365991 MsaT005071.1:CDS
GGTGTTGGGTCTAATACAAC+AGG 0.506356 1:+77366075 MsaT005071.1:CDS
ACCGGACGGTGAAGATGCTC+CGG 0.509905 1:+77365876 MsaT005071.1:CDS
GAAAGAAGAGCTAACGGAAA+CGG 0.511043 1:+77365549 MsaT005071.1:CDS
TTCACCACCACCGCCGCCAC+CGG 0.512971 1:-77366010 None:intergenic
TTTCAACTGACGAGGGAGCT+AGG 0.517084 1:+77365709 MsaT005071.1:CDS
GTCCCTCCACCTTCGTGTGA+CGG 0.518085 1:-77365642 None:intergenic
ACCGGAGCATCTTCACCGTC+CGG 0.521868 1:-77365877 None:intergenic
CCGGTAGCTTCGATGATAGA+AGG 0.522884 1:-77365781 None:intergenic
CCAATTGCTCAAACAGCATA+CGG 0.523616 1:+77365976 MsaT005071.1:CDS
CAGCTTGTTCTAGTAACCAC+CGG 0.530941 1:-77365756 None:intergenic
CCTTCTATCATCGAAGCTAC+CGG 0.531231 1:+77365781 MsaT005071.1:CDS
GTCATCGTTTGAACCGGCAT+CGG 0.531689 1:-77365589 None:intergenic
CAATTTGAAGGATTTGAAGA+GGG 0.533413 1:-77366402 None:intergenic
CAACAGCCTTATTCCGATGC+CGG 0.533446 1:+77365576 MsaT005071.1:CDS
GGCCGGCACAGTTCCAGTGC+CGG 0.539294 1:-77365800 None:intergenic
GAAGCATTTGAAGGTTCTTG+TGG 0.545348 1:-77366222 None:intergenic
CACACGAAGGTGGAGGGACG+TGG 0.552204 1:+77365646 MsaT005071.1:CDS
GAAGATTCCAACATCATCTC+CGG 0.553576 1:+77365849 MsaT005071.1:CDS
AGTATCTCCGTCGGAGACAA+CGG 0.553999 1:+77365507 MsaT005071.1:CDS
AGACCGTCACACGAAGGTGG+AGG 0.559373 1:+77365639 MsaT005071.1:CDS
CCGGCCATCGCTGTTTCCGT+CGG 0.560469 1:+77365817 MsaT005071.1:CDS
GCCATCGCTGTTTCCGTCGG+AGG 0.562359 1:+77365820 MsaT005071.1:CDS
ACCACCACCGCCGCCACCGG+AGG 0.563360 1:-77366007 None:intergenic
CCACCGGATTGTTTCTCCGT+CGG 0.564902 1:-77365740 None:intergenic
TCAATTTGAAGGATTTGAAG+AGG 0.565283 1:-77366403 None:intergenic
CCGACGGAAACAGCGATGGC+CGG 0.568312 1:-77365817 None:intergenic
CCAGAATCTTTCAACTGACG+AGG 0.568890 1:+77365701 MsaT005071.1:CDS
CCTGTTGTAAGTAACGGTGT+TGG 0.571104 1:+77366060 MsaT005071.1:CDS
TCAAACGATGACAGTGGCGG+CGG 0.571801 1:+77365600 MsaT005071.1:CDS
GCAGGCTCCGTTGTCTCCGA+CGG 0.573037 1:-77365514 None:intergenic
TCTTCACCGTCCGGTCTCGC+CGG 0.573077 1:-77365868 None:intergenic
GAAGTTGCTGAACTCAAACT+AGG 0.587727 1:-77366258 None:intergenic
TACCGGCACTGGAACTGTGC+CGG 0.588215 1:+77365798 MsaT005071.1:CDS
GTATGCTGTTTGAGCAATTG+GGG 0.588581 1:-77365974 None:intergenic
AATCCGACGGAGAAACAATC+CGG 0.589954 1:+77365737 MsaT005071.1:CDS
GGAGACAACGGAGCCTGCGG+CGG 0.591612 1:+77365519 MsaT005071.1:CDS
GTCGGAGACAACGGAGCCTG+CGG 0.596750 1:+77365516 MsaT005071.1:CDS
TTATGGCCTGTTGTAAGTAA+CGG 0.597870 1:+77366054 MsaT005071.1:CDS
GGTCTCGCCGGAGATGATGT+TGG 0.599874 1:-77365856 None:intergenic
TGACAGTGGCGGCGGCGAAG+AGG 0.607175 1:+77365608 MsaT005071.1:CDS
GGTGGTGGTGAAAATGGTGG+TGG 0.608962 1:+77366021 MsaT005071.1:CDS
GACCGTCACACGAAGGTGGA+GGG 0.613473 1:+77365640 MsaT005071.1:CDS
ACCTCCGACGGAAACAGCGA+TGG 0.615156 1:-77365821 None:intergenic
CGAAGGTGGAGGGACGTGGT+CGG 0.617193 1:+77365650 MsaT005071.1:CDS
TCATCTCCGGCGAGACCGGA+CGG 0.619808 1:+77365862 MsaT005071.1:CDS
GGCGGTGGTGGTGAAAATGG+TGG 0.629936 1:+77366018 MsaT005071.1:CDS
TACGGTGCCACCACCTCCGG+TGG 0.633787 1:+77365994 MsaT005071.1:CDS
GAAAGACCGTCACACGAAGG+TGG 0.637908 1:+77365636 MsaT005071.1:CDS
CAATACTGAAGTATCTCCGT+CGG 0.638733 1:+77365498 MsaT005071.1:CDS
AGGATGGAAGTGAACCCTAA+CGG 0.640403 1:+77365439 None:intergenic
CAGAATCTTTCAACTGACGA+GGG 0.645062 1:+77365702 MsaT005071.1:CDS
GGTAATGAAAGAAGAGCTAA+CGG 0.657643 1:+77365543 MsaT005071.1:CDS
GAGCTAGGTCACAAATCCGA+CGG 0.657749 1:+77365724 MsaT005071.1:CDS
AATCTTCAACGTACCTCCGA+CGG 0.665588 1:-77365833 None:intergenic
GGTTCAAACGATGACAGTGG+CGG 0.668294 1:+77365597 MsaT005071.1:CDS
CGTCAGTTGAAAGATTCTGG+CGG 0.698563 1:-77365698 None:intergenic
GTCGAAAGACCGTCACACGA+AGG 0.707956 1:+77365633 MsaT005071.1:CDS
GCCGGTTCAAACGATGACAG+TGG 0.712883 1:+77365594 MsaT005071.1:CDS
GCAGGAATAGCCCAAAACTG+TGG 0.725268 1:-77366138 None:intergenic
CCGACGGAGAAACAATCCGG+TGG 0.744089 1:+77365740 MsaT005071.1:CDS
ATGGAAGTGAACCCTAACGG+CGG 0.769753 1:+77365442 MsaT005071.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 77365442 77366425 77365442 ID=MsaG005071
Chr1 mRNA 77365442 77366425 77365442 ID=MsaT005071.1;Parent=MsaG005071
Chr1 exon 77365442 77366425 77365442 ID=MsaT005071.1.exon1;Parent=MsaT005071.1
Chr1 CDS 77365442 77366425 77365442 ID=cds.MsaT005071.1;Parent=MsaT005071.1
Gene Sequence

>MsaT005071.1

ATGGAAGTGAACCCTAACGGCGGCGATGATGTTTTCTGTGAAGAAAACAACACTGACAATACTGAAGTATCTCCGTCGGAGACAACGGAGCCTGCGGCGGCGGTAATGAAAGAAGAGCTAACGGAAACGGAAAACAACAGCCTTATTCCGATGCCGGTTCAAACGATGACAGTGGCGGCGGCGAAGAGGTCGTCGAAAGACCGTCACACGAAGGTGGAGGGACGTGGTCGGAGAATCAGGATTCCGGCGACATGCGCCGCCAGAATCTTTCAACTGACGAGGGAGCTAGGTCACAAATCCGACGGAGAAACAATCCGGTGGTTACTAGAACAAGCTGAACCTTCTATCATCGAAGCTACCGGCACTGGAACTGTGCCGGCCATCGCTGTTTCCGTCGGAGGTACGTTGAAGATTCCAACATCATCTCCGGCGAGACCGGACGGTGAAGATGCTCCGGTGAAAAGAAGAAGAAGAGCTTCAAACAGTGAGTTTGTTGACTTGAATGATCAAGTTTCAATGTGTTCTGGATTAGCCCCAATTGCTCAAACAGCATACGGTGCCACCACCTCCGGTGGCGGCGGTGGTGGTGAAAATGGTGGTGGTTTAGTTCCATTATGGCCTGTTGTAAGTAACGGTGTTGGGTCTAATACAACAGGACCATTTTTCATGTTCCCAAATTCAAGTTTAATGAATCAGCCACAGTTTTGGGCTATTCCTGCAGCACCATTTTTTAATGTGCAAACAAGACCTATTTCTGATTTTGTTTCTGCTATGCAAATGCCACAAGAACCTTCAAATGCTTCATCTACTTTGGCTCCTAGTTTGAGTTCAGCAACTTCAACTAGTTGTTCTGCTACCACTTCTTCAAATACTCAGATGATAAGGGATTTTTCTTTGGATATCTTTGATAAGAAAGAGTTGCAGTTTATGGGTTGTTCTTCTGCAAATTTGGAATCATCTCCCTCTTCAAATCCTTCAAATTGA
Protein sequence

>MsaT005071.1

MEVNPNGGDDVFCEENNTDNTEVSPSETTEPAAAVMKEELTETENNSLIPMPVQTMTVAAAKRSSKDRHTKVEGRGRRIRIPATCAARIFQLTRELGHKSDGETIRWLLEQAEPSIIEATGTGTVPAIAVSVGGTLKIPTSSPARPDGEDAPVKRRRRASNSEFVDLNDQVSMCSGLAPIAQTAYGATTSGGGGGGENGGGLVPLWPVVSNGVGSNTTGPFFMFPNSSLMNQPQFWAIPAAPFFNVQTRPISDFVSAMQMPQEPSNASSTLAPSLSSATSTSCSATTSSNTQMIRDFSLDIFDKKELQFMGCSSANLESSPSSNPSN*