AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG039273

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039273 MtrunA17_Chr7g0256551 100.000 132 0 0 1 132 1 132 2.31e-96 281
MsaG039273 MtrunA17_Chr8g0352871 78.788 132 27 1 1 132 1 131 3.04e-69 210
MsaG039273 MtrunA17_Chr3g0082861 76.984 126 29 0 7 132 2 127 1.53e-66 203
MsaG039273 MtrunA17_Chr5g0414931 64.000 125 40 2 8 132 15 134 2.00e-50 164
MsaG039273 MtrunA17_Chr1g0170741 64.800 125 38 1 8 132 7 125 5.10e-49 159
MsaG039273 MtrunA17_Chr3g0118211 59.690 129 43 2 4 132 18 137 5.21e-48 157
MsaG039273 MtrunA17_Chr4g0059571 62.016 129 40 2 4 132 21 140 8.58e-48 157
MsaG039273 MtrunA17_Chr3g0128691 60.163 123 42 2 10 132 19 134 1.55e-46 151
MsaG039273 MtrunA17_Chr3g0124861 57.353 136 48 3 6 132 19 153 9.97e-45 149
MsaG039273 MtrunA17_Chr4g0021731 68.421 95 21 1 1 95 3 88 7.09e-40 132
MsaG039273 MtrunA17_Chr8g0345901 33.607 122 63 1 11 132 38 141 1.48e-14 72.4
MsaG039273 MtrunA17_Chr4g0030271 34.426 122 62 2 11 132 91 194 1.60e-13 69.3
MsaG039273 MtrunA17_Chr3g0127941 29.839 124 69 2 9 132 56 161 2.57e-11 62.8
MsaG039273 MtrunA17_Chr1g0181811 30.645 124 68 2 9 132 85 190 4.09e-11 62.4
MsaG039273 MtrunA17_Chr7g0276361 28.472 144 84 2 11 154 16 140 5.88e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039273 AT3G57040.2 81.203 133 24 1 1 132 1 133 9.09e-73 221
MsaG039273 AT3G57040.1 81.203 133 24 1 1 132 1 133 9.09e-73 221
MsaG039273 AT2G41310.1 76.515 132 30 1 1 132 1 131 9.42e-69 211
MsaG039273 AT3G48100.1 60.000 130 44 2 3 132 19 140 9.33e-49 159
MsaG039273 AT1G59940.1 62.400 125 38 2 8 132 32 147 4.13e-48 158
MsaG039273 AT1G19050.1 60.000 125 41 1 8 132 23 138 9.06e-48 157
MsaG039273 AT3G56380.1 56.589 129 48 1 4 132 15 135 1.16e-47 155
MsaG039273 AT1G74890.1 60.800 125 40 2 8 132 17 132 2.82e-47 155
MsaG039273 AT1G10470.3 58.156 141 47 3 8 145 19 150 1.16e-46 155
MsaG039273 AT1G10470.1 58.156 141 47 3 8 145 33 164 1.22e-46 155
MsaG039273 AT1G59940.2 62.400 125 38 2 8 132 124 239 1.91e-46 157
MsaG039273 AT5G62920.1 59.677 124 41 1 9 132 25 139 3.13e-46 152
MsaG039273 AT3G56380.2 56.154 130 48 2 4 132 15 136 7.10e-46 150
MsaG039273 AT2G40670.1 57.031 128 47 2 6 132 26 146 8.37e-46 150
MsaG039273 AT2G40670.2 56.589 129 47 3 6 132 26 147 5.66e-44 145
MsaG039273 AT2G07440.1 78.378 37 8 0 96 132 9 45 7.46e-13 64.3
MsaG039273 AT5G24470.1 30.496 141 79 3 9 149 50 171 5.78e-12 65.1
MsaG039273 AT5G02810.1 32.787 122 64 2 11 132 80 183 2.78e-11 63.2
MsaG039273 AT1G10470.2 71.053 38 11 0 95 132 35 72 2.91e-11 60.8

Find 51 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGAAATACAGATGGTGTATT+TGG 0.194626 7:+86919280 None:intergenic
AGAGTCACAGTTTCATGTTT+TGG 0.318671 7:-86919711 MsaT039273.1:CDS
GCAGTTACTACAGTTGATTC+TGG 0.344676 7:-86919352 MsaT039273.1:intron
GAAATACAGATGGTGTATTT+GGG 0.355026 7:+86919281 None:intergenic
ATGTGCCTTCAAGAATTAAT+AGG 0.368999 7:-86918225 MsaT039273.1:intron
AACTATACCTGATGATTGTT+AGG 0.391930 7:+86919259 None:intergenic
TACTGTATGCCTGGCATGAC+AGG 0.404554 7:-86919071 MsaT039273.1:CDS
TATTACCTATTAATTCTTGA+AGG 0.405802 7:+86918220 None:intergenic
GATCAACTTGGTGGTCTAGA+TGG 0.418264 7:-86916677 MsaT039273.1:CDS
CTCAAAACATCTTCATATCA+AGG 0.455916 7:-86919644 MsaT039273.1:intron
CTAGATTCAATTTGAATCGT+TGG 0.459272 7:-86916884 MsaT039273.1:CDS
TGTATTTCCTAACAATCATC+AGG 0.478134 7:-86919266 MsaT039273.1:intron
AAATCATAGCCTGTCATGCC+AGG 0.488050 7:+86919062 None:intergenic
AACAGTACCGCGCTTTGCAC+TGG 0.489795 7:+86916798 None:intergenic
CTGCTCAAGGATCAACTTGG+TGG 0.496783 7:-86916686 MsaT039273.1:CDS
TATCAAATGTAACAGATGCT+TGG 0.497655 7:-86918112 MsaT039273.1:intron
TACAGTTGATTCTGGTAGCA+AGG 0.501635 7:-86919344 MsaT039273.1:CDS
AGAGAGACGATTGGCAAGGA+AGG 0.504204 7:+86916707 None:intergenic
TTGATGACAGCATCATAGAT+AGG 0.505605 7:-86919685 MsaT039273.1:CDS
ATAACAGATTACTGTATGCC+TGG 0.512220 7:-86919080 MsaT039273.1:CDS
CCGTCTCATATCTGTAACAA+AGG 0.514289 7:+86916821 None:intergenic
GCCAATCGTCTCTCTGCTCA+AGG 0.516130 7:-86916699 MsaT039273.1:CDS
CAAATGTAACAGATGCTTGG+AGG 0.523574 7:-86918109 MsaT039273.1:intron
CGGTACTGTTCTACATAGAA+AGG 0.526635 7:-86916785 MsaT039273.1:CDS
TACAGATGGTGTATTTGGGT+TGG 0.527443 7:+86919285 None:intergenic
TGATTTGCTTAAGAAAATCA+AGG 0.528385 7:-86919045 MsaT039273.1:intron
CAACCAATGTGATTAGGTTG+TGG 0.529299 7:+86916642 None:intergenic
TCCTTGAGCAGAGAGACGAT+TGG 0.542775 7:+86916698 None:intergenic
CGTCTCATATCTGTAACAAA+GGG 0.549293 7:+86916822 None:intergenic
GTGGTGTCGTCAGCAAACTT+AGG 0.570928 7:+86916738 None:intergenic
ATCACCTCAACTCCGATCGT+TGG 0.576312 7:-86916908 MsaT039273.1:CDS
TCAGATGACATAATCACCAC+TGG 0.584254 7:+86918250 None:intergenic
GAGTTGAGGTGATGCAGCAA+TGG 0.587149 7:+86916918 None:intergenic
TGTAACAGATGCTTGGAGGA+AGG 0.588489 7:-86918105 MsaT039273.1:intron
ATAGAAAGGTCGTGCCGTCG+TGG 0.590783 7:-86916771 MsaT039273.1:CDS
TGAATCGTTGGTGCCGCTCG+AGG 0.590983 7:-86916872 MsaT039273.1:CDS
TAGACCAACGATCGGAGTTG+AGG 0.605477 7:+86916904 None:intergenic
TTAGTTGGAGAAAATGGGAA+TGG 0.609092 7:-86919738 None:intergenic
TAGATAGGAAGCTTATTGAG+AGG 0.630074 7:-86919670 MsaT039273.1:CDS
GGCAAGGAAGGACAACGTTG+TGG 0.632334 7:+86916719 None:intergenic
ATTGAATCTAGACCAACGAT+CGG 0.643477 7:+86916896 None:intergenic
GAGCAGAGAGACGATTGGCA+AGG 0.646900 7:+86916703 None:intergenic
ACACCACAACCTAATCACAT+TGG 0.650295 7:-86916645 MsaT039273.1:CDS
CCTTTGTTACAGATATGAGA+CGG 0.660582 7:-86916821 MsaT039273.1:CDS
TCTCTGCTCAAGGATCAACT+TGG 0.669787 7:-86916689 MsaT039273.1:CDS
TGTAGGAATCTGTCCTCGAG+CGG 0.677554 7:+86916859 None:intergenic
GGTGATGCAGCAATGGACGA+TGG 0.685691 7:+86916925 None:intergenic
ATCATTGAGAAACATACCAG+TGG 0.696105 7:-86918266 MsaT039273.1:CDS
GAGACGGCCAGTGCAAAGCG+CGG 0.698762 7:-86916805 MsaT039273.1:CDS
TGATTGTTAGGAAATACAGA+TGG 0.757940 7:+86919271 None:intergenic
TAGGAGAAGATGAACCACGA+CGG 0.762088 7:+86916757 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 86916641 86919747 86916641 ID=MsaG039273
Chr7 mRNA 86916641 86919747 86916641 ID=MsaT039273.1;Parent=MsaG039273
Chr7 exon 86916641 86916952 86916641 ID=MsaT039273.1.exon6;Parent=MsaT039273.1
Chr7 CDS 86916641 86916952 86916641 ID=cds.MsaT039273.1;Parent=MsaT039273.1
Chr7 exon 86918080 86918119 86918080 ID=MsaT039273.1.exon5;Parent=MsaT039273.1
Chr7 CDS 86918080 86918119 86918080 ID=cds.MsaT039273.1;Parent=MsaT039273.1
Chr7 exon 86918226 86918296 86918226 ID=MsaT039273.1.exon4;Parent=MsaT039273.1
Chr7 CDS 86918226 86918296 86918226 ID=cds.MsaT039273.1;Parent=MsaT039273.1
Chr7 exon 86919046 86919123 86919046 ID=MsaT039273.1.exon3;Parent=MsaT039273.1
Chr7 CDS 86919046 86919123 86919046 ID=cds.MsaT039273.1;Parent=MsaT039273.1
Chr7 exon 86919267 86919370 86919267 ID=MsaT039273.1.exon2;Parent=MsaT039273.1
Chr7 CDS 86919267 86919370 86919267 ID=cds.MsaT039273.1;Parent=MsaT039273.1
Chr7 exon 86919645 86919747 86919645 ID=MsaT039273.1.exon1;Parent=MsaT039273.1
Chr7 CDS 86919645 86919747 86919645 ID=cds.MsaT039273.1;Parent=MsaT039273.1
Gene Sequence

>MsaT039273.1

ATGGGAATGGCTGCAGAGTCACAGTTTCATGTTTTGGCTGTTGATGACAGCATCATAGATAGGAAGCTTATTGAGAGGCTTCTCAAAACATCTTCATATCAAGTTACTACAGTTGATTCTGGTAGCAAGGCTTTAGAGTTTTTGGGTTTGTGTGAGAATGATGAGACCAACCCAAATACACCATCTGTATTTCCTAACAATCATCAGGAAGTGGAGGTGAATCTTGTTATAACAGATTACTGTATGCCTGGCATGACAGGCTATGATTTGCTTAAGAAAATCAAGGAATCATCATCATTGAGAAACATACCAGTGGTGATTATGTCATCTGAAAATGTGCCTTCAAGAATTAATAGATGCTTGGAGGAAGGAGCAGAAGAGTTTTTCTTGAAGCCTAGTTGCCATCGTCCATTGCTGCATCACCTCAACTCCGATCGTTGGTCTAGATTCAATTTGAATCGTTGGTGCCGCTCGAGGACAGATTCCTACAATCTCACCGCAAAACCCTTTGTTACAGATATGAGACGGCCAGTGCAAAGCGCGGTACTGTTCTACATAGAAAGGTCGTGCCGTCGTGGTTCATCTTCTCCTAAGTTTGCTGACGACACCACAACGTTGTCCTTCCTTGCCAATCGTCTCTCTGCTCAAGGATCAACTTGGTGGTCTAGATGGCAAGTCTGTACACCACAACCTAATCACATTGGTTGA
Protein sequence

>MsaT039273.1

MGMAAESQFHVLAVDDSIIDRKLIERLLKTSSYQVTTVDSGSKALEFLGLCENDETNPNTPSVFPNNHQEVEVNLVITDYCMPGMTGYDLLKKIKESSSLRNIPVVIMSSENVPSRINRCLEEGAEEFFLKPSCHRPLLHHLNSDRWSRFNLNRWCRSRTDSYNLTAKPFVTDMRRPVQSAVLFYIERSCRRGSSSPKFADDTTTLSFLANRLSAQGSTWWSRWQVCTPQPNHIG*