AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG006544

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006544 MtrunA17_Chr2g0282521 89.189 111 10 1 1 109 1 111 9.42e-55 167
MsaG006544 MtrunA17_Chr4g0046991 58.559 111 43 2 1 109 11 120 7.24e-32 110
MsaG006544 MtrunA17_Chr8g0334671 64.286 56 20 0 54 109 179 234 2.88e-20 83.6
MsaG006544 MtrunA17_Chr2g0317041 57.895 57 24 0 52 108 89 145 8.05e-20 79.3
MsaG006544 MtrunA17_Chr1g0162871 50.575 87 38 2 23 109 70 151 1.28e-19 82.8
MsaG006544 MtrunA17_Chr8g0360361 62.000 50 19 0 60 109 63 112 1.94e-18 76.3
MsaG006544 MtrunA17_Chr7g0270541 50.649 77 28 1 33 109 126 192 4.82e-18 78.6
MsaG006544 MtrunA17_Chr1g0175031 56.452 62 27 0 53 114 65 126 2.72e-17 72.4
MsaG006544 MtrunA17_Chr5g0420051 51.562 64 31 0 46 109 165 228 3.60e-17 75.9
MsaG006544 MtrunA17_Chr1g0194121 56.452 62 26 1 49 109 133 194 6.76e-17 75.1
MsaG006544 MtrunA17_Chr7g0258471 55.000 60 27 0 50 109 130 189 8.85e-17 74.7
MsaG006544 MtrunA17_Chr3g0122411 46.429 84 43 2 28 109 129 212 9.63e-17 74.7
MsaG006544 MtrunA17_Chr7g0231911 58.929 56 23 0 54 109 141 196 1.06e-16 73.9
MsaG006544 MtrunA17_Chr2g0302791 48.649 74 28 1 36 109 123 186 1.20e-16 74.3
MsaG006544 MtrunA17_Chr3g0132091 62.264 53 20 0 57 109 68 120 1.64e-16 73.6
MsaG006544 MtrunA17_Chr7g0224821 61.111 54 21 0 56 109 71 124 2.09e-16 73.6
MsaG006544 MtrunA17_Chr4g0061651 62.264 53 20 0 57 109 118 170 3.02e-16 73.2
MsaG006544 MtrunA17_Chr2g0308321 64.583 48 17 0 62 109 171 218 7.20e-16 72.0
MsaG006544 MtrunA17_Chr8g0386271 35.772 123 62 2 1 109 27 146 5.79e-15 69.3
MsaG006544 MtrunA17_Chr8g0377431 52.941 51 24 0 60 110 149 199 3.78e-13 63.2
MsaG006544 MtrunA17_Chr8g0377421 34.615 104 56 3 8 109 86 179 1.53e-12 62.4
MsaG006544 MtrunA17_Chr8g0377401 54.000 50 23 0 60 109 160 209 1.82e-12 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006544 AT1G02065.2 59.375 64 26 0 54 117 180 243 1.23e-21 86.3
MsaG006544 AT1G53160.2 55.072 69 31 0 41 109 33 101 1.04e-19 79.7
MsaG006544 AT1G53160.1 55.072 69 31 0 41 109 33 101 1.04e-19 79.7
MsaG006544 AT1G53160.3 55.072 69 31 0 41 109 33 101 1.17e-19 79.7
MsaG006544 AT2G33810.1 63.333 60 19 1 53 109 42 101 1.41e-19 78.2
MsaG006544 AT1G02065.1 64.286 56 20 0 54 109 180 235 1.51e-19 82.0
MsaG006544 AT1G76580.1 68.000 50 16 0 60 109 112 161 1.75e-19 83.2
MsaG006544 AT1G20980.1 62.295 61 21 1 49 109 109 167 2.32e-19 82.8
MsaG006544 AT3G60030.1 60.938 64 20 2 50 109 112 174 5.63e-19 81.6
MsaG006544 AT1G76580.3 68.000 50 16 0 60 109 112 161 5.77e-19 81.6
MsaG006544 AT1G76580.2 68.000 50 16 0 60 109 112 161 5.82e-19 81.6
MsaG006544 AT2G47070.1 55.224 67 26 1 43 109 91 153 6.04e-18 78.6
MsaG006544 AT1G27370.6 47.887 71 35 1 41 109 153 223 3.69e-17 75.9
MsaG006544 AT1G27370.1 47.887 71 35 1 41 109 153 223 5.65e-17 75.5
MsaG006544 AT1G27370.5 47.887 71 35 1 41 109 153 223 5.65e-17 75.5
MsaG006544 AT1G27370.3 47.887 71 35 1 41 109 153 223 5.65e-17 75.5
MsaG006544 AT1G27370.2 47.887 71 35 1 41 109 153 223 5.65e-17 75.5
MsaG006544 AT1G27370.4 47.887 71 35 1 41 109 153 223 5.65e-17 75.5
MsaG006544 AT1G27370.7 47.887 71 35 1 41 109 153 223 5.65e-17 75.5
MsaG006544 AT5G43270.3 58.824 51 21 0 59 109 166 216 1.91e-16 73.9
MsaG006544 AT5G43270.1 58.824 51 21 0 59 109 166 216 1.91e-16 73.9
MsaG006544 AT5G43270.2 58.824 51 21 0 59 109 166 216 1.91e-16 73.9
MsaG006544 AT1G27360.2 49.296 71 35 1 40 109 152 222 4.41e-16 73.2
MsaG006544 AT1G27360.1 49.296 71 35 1 40 109 152 222 4.41e-16 73.2
MsaG006544 AT1G27360.3 49.296 71 35 1 40 109 152 222 4.41e-16 73.2
MsaG006544 AT1G27360.4 49.296 71 35 1 40 109 152 222 4.41e-16 73.2
MsaG006544 AT1G69170.1 56.452 62 25 1 50 109 110 171 6.73e-16 72.4
MsaG006544 AT3G15270.1 56.250 48 21 0 62 109 63 110 1.26e-15 69.3
MsaG006544 AT3G57920.1 47.436 78 36 1 32 109 34 106 4.79e-15 70.1
MsaG006544 AT5G50570.1 52.542 59 28 0 51 109 90 148 5.55e-15 69.7
MsaG006544 AT5G50570.2 52.542 59 28 0 51 109 90 148 5.55e-15 69.7
MsaG006544 AT5G50670.1 52.542 59 28 0 51 109 90 148 5.55e-15 69.7
MsaG006544 AT5G50670.2 52.542 59 28 0 51 109 90 148 5.55e-15 69.7
MsaG006544 AT2G42200.1 54.000 50 23 0 60 109 72 121 9.57e-14 66.2

Find 27 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACAAACCTTATGGCGCTTA+TGG 0.248219 2:-6766403 None:intergenic
AATGGTATTCACAAACCTTA+TGG 0.308780 2:-6766412 None:intergenic
TTAACTTATGGATGGAAGTT+GGG 0.358056 2:+6766166 None:intergenic
GGTTTGTGAATACCATTCTA+AGG 0.368542 2:+6766418 MsaT006544.1:CDS
TTGTCAACCTGCTACATTGC+TGG 0.372075 2:-6766481 None:intergenic
GAAGAGGAAGATGTGAGTTA+TGG 0.375825 2:+6766248 MsaT006544.1:CDS
CTTAACTTATGGATGGAAGT+TGG 0.386744 2:+6766165 None:intergenic
GAGATGATGGGAAGAAGAAA+AGG 0.443829 2:+6766270 MsaT006544.1:CDS
TGAAGTAGAAGTAGAAGAAG+AGG 0.463169 2:+6766232 MsaT006544.1:CDS
ATGGATGGAAGTTGGGGTGA+GGG 0.465253 2:+6766173 MsaT006544.1:CDS
GATGTGAGTTATGGAGATGA+TGG 0.466595 2:+6766257 MsaT006544.1:CDS
AACAGGAAAGGGTCAAAAGC+TGG 0.479614 2:+6766314 MsaT006544.1:CDS
TATGGATGGAAGTTGGGGTG+AGG 0.500828 2:+6766172 None:intergenic
TGACTGATCATCTTTACAAC+AGG 0.501584 2:+6766297 MsaT006544.1:CDS
ATCATCTTTACAACAGGAAA+GGG 0.510630 2:+6766303 MsaT006544.1:CDS
TTGAAGCTCTGAAATGAGTA+CGG 0.530837 2:-6766447 None:intergenic
GCAGTACCATAAGCGCCATA+AGG 0.534642 2:+6766397 MsaT006544.1:CDS
GATTTACCTTAACTTATGGA+TGG 0.546093 2:+6766158 None:intergenic
TAACTTATGGATGGAAGTTG+GGG 0.568515 2:+6766167 None:intergenic
GATCATCTTTACAACAGGAA+AGG 0.569404 2:+6766302 MsaT006544.1:CDS
GTACGGAATGAGCCTTAGAA+TGG 0.572289 2:-6766430 None:intergenic
AGATGATGGGAAGAAGAAAA+GGG 0.572790 2:+6766271 MsaT006544.1:CDS
CAGTTATCAACTTGACAAGA+AGG 0.576877 2:-6766350 None:intergenic
ATGTGAGTTATGGAGATGAT+GGG 0.595276 2:+6766258 MsaT006544.1:CDS
TCATTTCAGAGCTTCAACAA+AGG 0.599380 2:+6766453 MsaT006544.1:CDS
TGATGGGAAGAAGAAAAGGG+TGG 0.655448 2:+6766274 MsaT006544.1:CDS
AGGAAAGGGTCAAAAGCTGG+AGG 0.666819 2:+6766317 MsaT006544.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 6766173 6766532 6766173 ID=MsaG006544
Chr2 mRNA 6766173 6766532 6766173 ID=MsaT006544.1;Parent=MsaG006544
Chr2 exon 6766173 6766532 6766173 ID=MsaT006544.1.exon1;Parent=MsaT006544.1
Chr2 CDS 6766173 6766532 6766173 ID=cds.MsaT006544.1;Parent=MsaT006544.1
Gene Sequence

>MsaT006544.1

ATGGATGGAAGTTGGGGTGAGGGAAAGAGAATCTATGAGTACAGAGAAGAAGATGAGTATGAAGTAGAAGTAGAAGAAGAGGAAGATGTGAGTTATGGAGATGATGGGAAGAAGAAAAGGGTGGTGACTGATCATCTTTACAACAGGAAAGGGTCAAAAGCTGGAGGATCAGTGACACCTTCTTGTCAAGTTGATAACTGTAATGCTGATCTAAGTGTTGCTAAGCAGTACCATAAGCGCCATAAGGTTTGTGAATACCATTCTAAGGCTCATTCCGTACTCATTTCAGAGCTTCAACAAAGGTTTTGCCAGCAATGTAGCAGGTTGACAAACCCTAATTTCACCTCTTTTTTTCCTTGA
Protein sequence

>MsaT006544.1

MDGSWGEGKRIYEYREEDEYEVEVEEEEDVSYGDDGKKKRVVTDHLYNRKGSKAGGSVTPSCQVDNCNADLSVAKQYHKRHKVCEYHSKAHSVLISELQQRFCQQCSRLTNPNFTSFFP*