AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024406

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024406 MtrunA17_Chr8g0389241 92.883 281 12 4 1 274 1 280 3.15e-170 471
MsaG024406 MtrunA17_Chr6g0488471 52.145 303 102 13 1 274 1 289 7.09e-75 230
MsaG024406 MtrunA17_Chr2g0331031 53.371 178 65 5 4 169 3 174 1.56e-46 159
MsaG024406 MtrunA17_Chr4g0055931 47.283 184 67 6 4 176 3 167 1.03e-43 151
MsaG024406 MtrunA17_Chr5g0415191 45.143 175 73 5 4 168 5 166 4.12e-38 136
MsaG024406 MtrunA17_Chr4g0062741 67.089 79 25 1 99 176 132 210 3.79e-33 122
MsaG024406 MtrunA17_Chr3g0135671 35.741 263 128 8 4 260 5 232 7.97e-32 117
MsaG024406 MtrunA17_Chr1g0162081 65.823 79 26 1 99 176 116 194 8.00e-32 119
MsaG024406 MtrunA17_Chr7g0241761 76.056 71 16 1 99 168 134 204 7.84e-31 117
MsaG024406 MtrunA17_Chr3g0104071 71.233 73 20 1 97 168 139 211 2.23e-30 115
MsaG024406 MtrunA17_Chr5g0429521 70.270 74 21 1 96 168 123 196 2.39e-30 115
MsaG024406 MtrunA17_Chr1g0210471 62.791 86 31 1 84 168 103 188 8.90e-30 112
MsaG024406 MtrunA17_Chr5g0436501 64.474 76 24 1 96 168 116 191 4.52e-27 105
MsaG024406 MtrunA17_Chr4g0059701 79.245 53 11 0 99 151 78 130 7.43e-27 105
MsaG024406 MtrunA17_Chr3g0092621 62.319 69 25 1 105 172 84 152 1.06e-25 99.8
MsaG024406 MtrunA17_Chr6g0452791 75.000 48 12 0 105 152 80 127 2.00e-21 88.6
MsaG024406 MtrunA17_Chr5g0409841 52.632 76 33 2 101 173 88 163 9.10e-19 82.8
MsaG024406 MtrunA17_Chr5g0440731 49.383 81 37 2 97 173 97 177 9.30e-19 84.0
MsaG024406 MtrunA17_Chr5g0440741 54.930 71 28 2 107 173 102 172 6.81e-18 81.6
MsaG024406 MtrunA17_Chr5g0409831 57.143 56 24 0 101 156 73 128 3.93e-16 75.5
MsaG024406 MtrunA17_Chr8g0365011 46.341 82 29 2 107 173 94 175 2.90e-14 71.2
MsaG024406 MtrunA17_Chr8g0364731 56.452 62 24 1 115 173 11 72 1.11e-13 67.8
MsaG024406 MtrunA17_Chr1g0192061 51.562 64 26 3 107 166 63 125 1.02e-12 65.1
MsaG024406 MtrunA17_Chr5g0432921 63.830 47 16 1 107 153 115 160 9.74e-12 63.2
MsaG024406 MtrunA17_Chr5g0432941 61.702 47 17 1 107 153 115 160 3.04e-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
MsaG024406 AT5G56840.1 54.891 184 51 5 1 174 1 162 5.82e-53 172
MsaG024406 AT5G61620.1 47.904 167 81 3 4 168 10 172 1.94e-44 153
MsaG024406 AT5G47390.1 43.062 209 96 5 4 208 3 192 1.10e-43 152
MsaG024406 AT1G70000.1 47.514 181 60 6 4 169 3 163 5.69e-40 140
MsaG024406 AT1G70000.2 47.514 181 60 6 4 169 3 163 5.69e-40 140
MsaG024406 AT3G16350.1 44.286 210 63 7 4 169 3 202 3.96e-36 133
MsaG024406 AT1G49010.1 69.737 76 22 1 99 173 128 203 1.44e-32 122
MsaG024406 AT5G08520.1 63.855 83 27 2 99 178 112 194 1.79e-31 118
MsaG024406 AT5G01200.1 68.293 82 23 2 90 168 129 210 4.99e-31 116
MsaG024406 AT2G38090.1 73.239 71 18 1 99 168 135 205 5.73e-30 114
MsaG024406 AT5G58900.1 69.863 73 21 1 97 168 133 205 1.90e-29 113
MsaG024406 AT3G11280.2 54.128 109 43 3 96 199 118 224 3.10e-28 109
MsaG024406 AT3G11280.1 54.128 109 43 3 96 199 118 224 3.10e-28 109
MsaG024406 AT5G04760.1 65.714 70 23 1 100 168 94 163 4.65e-27 105
MsaG024406 AT5G05790.2 67.568 74 23 1 96 168 122 195 5.25e-27 106
MsaG024406 AT5G05790.1 67.568 74 23 1 96 168 122 195 5.25e-27 106
MsaG024406 AT1G19000.2 80.392 51 10 0 101 151 98 148 2.70e-25 102
MsaG024406 AT1G19000.1 80.392 51 10 0 101 151 98 148 2.70e-25 102
MsaG024406 AT1G74840.2 76.923 52 12 0 100 151 91 142 1.86e-24 98.6
MsaG024406 AT1G74840.1 76.923 52 12 0 100 151 91 142 2.49e-24 99.0
MsaG024406 AT3G10580.2 61.765 68 25 1 101 168 91 157 2.03e-21 90.9
MsaG024406 AT3G10580.1 61.765 68 25 1 101 168 91 157 2.70e-21 91.3
MsaG024406 AT5G23650.1 56.579 76 32 1 99 173 114 189 2.91e-21 92.0
MsaG024406 AT4G09450.1 67.925 53 17 0 101 153 87 139 6.88e-18 80.1
MsaG024406 AT3G10590.1 54.930 71 28 3 101 168 105 174 1.45e-14 71.2

Find 63 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTAATTAAGTGACGCTAAT+TGG 0.117960 4:+99191584 None:intergenic
CCTGCTGGCTCATTCCTTCT+TGG 0.142813 4:-99191608 MsaT024406.1:CDS
TGCTAATTCAGTAGTAAATT+TGG 0.198359 4:-99191849 MsaT024406.1:CDS
TTGGAGGACTTCGTCTCTTC+GGG 0.227891 4:-99193104 MsaT024406.1:CDS
TTGTGCAGCAGTGCCTAATT+TGG 0.253498 4:-99191681 MsaT024406.1:CDS
ATAATTACTCTACAGATAAT+TGG 0.274738 4:-99191721 MsaT024406.1:CDS
TATACCTTTCTTTCTCTCTT+GGG 0.282804 4:+99192885 None:intergenic
ATATACCTTTCTTTCTCTCT+TGG 0.345963 4:+99192884 None:intergenic
CTTGGAGGACTTCGTCTCTT+CGG 0.346467 4:-99193105 MsaT024406.1:CDS
GAAAGTGTGAGGTCCAAATT+AGG 0.360682 4:+99191668 None:intergenic
TTAATTAAGTGACGCTAATT+GGG 0.384534 4:+99191585 None:intergenic
CTGTGCTCTTCTTCTGTCCA+TGG 0.393875 4:+99192369 None:intergenic
GCTAATTCAGTAGTAAATTT+GGG 0.397356 4:-99191848 MsaT024406.1:CDS
GAGCACAGAACATTCCTTGT+TGG 0.426067 4:-99192354 MsaT024406.1:CDS
TGTTCGCATTGTGGTAAGAT+AGG 0.440998 4:-99193162 MsaT024406.1:CDS
AATGAGGAAGATGGAGAGGA+TGG 0.441387 4:+99193003 None:intergenic
CATGGCTAGCGACTTGTGTA+GGG 0.443009 4:+99192268 None:intergenic
GCATGGCTAGCGACTTGTGT+AGG 0.465972 4:+99192267 None:intergenic
ATACCTTTCTTTCTCTCTTG+GGG 0.468820 4:+99192886 None:intergenic
CCAAGAAGGAATGAGCCAGC+AGG 0.469903 4:+99191608 None:intergenic
ATGAGGAGGAAGATGATAGT+TGG 0.475244 4:+99193079 None:intergenic
CAAAATCAACCCTCCCCTGC+TGG 0.476253 4:-99191623 MsaT024406.1:CDS
GGATTAGAGAAGCTAGGAAA+AGG 0.476740 4:-99192333 MsaT024406.1:CDS
TGCACATCCTTCACTACCCT+TGG 0.478767 4:-99193123 MsaT024406.1:CDS
AGAAGCTAGGAAAAGGAGAC+TGG 0.482282 4:-99192326 MsaT024406.1:CDS
CCTTTCTTTCTCTCTTGGGG+TGG 0.484527 4:+99192889 None:intergenic
TGGAGAGGATGGTGAGGGAA+AGG 0.486578 4:+99193014 None:intergenic
CAAGAAGGAATGAGCCAGCA+GGG 0.487978 4:+99191609 None:intergenic
TGCTTCTTCTTGTTTAAAGT+AGG 0.502048 4:+99191766 None:intergenic
GTAAGATAGGACATAATTGT+AGG 0.502669 4:-99193149 MsaT024406.1:CDS
CCACCCCAAGAGAGAAAGAA+AGG 0.504684 4:-99192889 MsaT024406.1:intron
AGAGAATGAGGAAGATGGAG+AGG 0.510998 4:+99192999 None:intergenic
AAGGAATGAGCCAGCAGGGG+AGG 0.519594 4:+99191613 None:intergenic
GATGAAGAGAATGAGGAAGA+TGG 0.523435 4:+99192994 None:intergenic
AAATTTGGGTCATAAATTTG+AGG 0.527043 4:-99191834 MsaT024406.1:CDS
CTTGTTGGATTAGAGAAGCT+AGG 0.528666 4:-99192339 MsaT024406.1:CDS
TTGATTGATCAGGAGTTCCA+TGG 0.532260 4:-99192386 MsaT024406.1:intron
ACATCCTTCACTACCCTTGG+AGG 0.544075 4:-99193120 MsaT024406.1:CDS
TGACGCTAATTGGGCCAAGA+AGG 0.545277 4:+99191594 None:intergenic
AGGAATGAGCCAGCAGGGGA+GGG 0.549931 4:+99191614 None:intergenic
GGAAGATGGAGAGGATGGTG+AGG 0.553718 4:+99193008 None:intergenic
AGATATGAAATATTAGAAGT+GGG 0.561423 4:+99192931 None:intergenic
GATCAAGAAAAGCTTTAGCA+TGG 0.562627 4:-99193040 MsaT024406.1:CDS
TAGATATGAAATATTAGAAG+TGG 0.562815 4:+99192930 None:intergenic
GAAGATGGAGAGGATGGTGA+GGG 0.564987 4:+99193009 None:intergenic
ACGTTCAAGTCTCTTTGACT+TGG 0.572684 4:-99192202 MsaT024406.1:intron
CGAAGAGACGAAGTCCTCCA+AGG 0.582973 4:+99193106 None:intergenic
AACACCAACACAAAAGAACA+AGG 0.589703 4:-99191875 MsaT024406.1:CDS
TGATGTTGATGAAGAGAATG+AGG 0.596418 4:+99192987 None:intergenic
CTAGCTTCTCTAATCCAACA+AGG 0.600496 4:+99192340 None:intergenic
AGAAGAAAGTGTTCGCATTG+TGG 0.603130 4:-99193171 MsaT024406.1:CDS
AAGTCCTCCAAGGGTAGTGA+AGG 0.604978 4:+99193116 None:intergenic
TTGTTTAAAGTAGGACAAAG+TGG 0.607562 4:+99191775 None:intergenic
TGTGAAGTTGAGATGAATGA+TGG 0.607811 4:-99191800 MsaT024406.1:CDS
AAGAAGGAATGAGCCAGCAG+GGG 0.613479 4:+99191610 None:intergenic
TGGAGGACTTCGTCTCTTCG+GGG 0.623972 4:-99193103 MsaT024406.1:CDS
GGTACTAGATGATGATGAGG+AGG 0.625545 4:+99193065 None:intergenic
CATGGTACTAGATGATGATG+AGG 0.639951 4:+99193062 None:intergenic
GAAGAGACGAAGTCCTCCAA+GGG 0.651358 4:+99193107 None:intergenic
ATGGCTAGCGACTTGTGTAG+GGG 0.659705 4:+99192269 None:intergenic
CTAGGAAAAGGAGACTGGAG+AGG 0.661686 4:-99192321 MsaT024406.1:CDS
GGGATGCAACTGAAAGTGTG+AGG 0.693635 4:+99191657 None:intergenic
ACACCAACACAAAAGAACAA+GGG 0.712802 4:-99191874 MsaT024406.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 99191589 99193199 99191589 ID=MsaG024406
Chr4 mRNA 99191589 99193199 99191589 ID=MsaT024406.1;Parent=MsaG024406
Chr4 exon 99191589 99191909 99191589 ID=MsaT024406.1.exon3;Parent=MsaT024406.1
Chr4 CDS 99191589 99191909 99191589 ID=cds.MsaT024406.1;Parent=MsaT024406.1
Chr4 exon 99192203 99192396 99192203 ID=MsaT024406.1.exon2;Parent=MsaT024406.1
Chr4 CDS 99192203 99192396 99192203 ID=cds.MsaT024406.1;Parent=MsaT024406.1
Chr4 exon 99192890 99193199 99192890 ID=MsaT024406.1.exon1;Parent=MsaT024406.1
Chr4 CDS 99192890 99193199 99192890 ID=cds.MsaT024406.1;Parent=MsaT024406.1
Gene Sequence

>MsaT024406.1

ATGGGGAGAAGAAAGTGTTCGCATTGTGGTAAGATAGGACATAATTGTAGGACATGCACATCCTTCACTACCCTTGGAGGACTTCGTCTCTTCGGGGTCCAACTATCATCTTCCTCCTCATCATCATCTAGTACCATGATCAAGAAAAGCTTTAGCATGGACACCTTTCCCTCACCATCCTCTCCATCTTCCTCATTCTCTTCATCAACATCATTAACCAATATTGATGAAAATTATTATCACAAACCCACTTCTAATATTTCATATCTATCAGATTGTTTTATAGGTCCACCCCAAGAGAGAAAGAAAGGAGTTCCATGGACAGAAGAAGAGCACAGAACATTCCTTGTTGGATTAGAGAAGCTAGGAAAAGGAGACTGGAGAGGCATCTCTAAAAACTTTGTCACTTCAAGAACCCCTACACAAGTCGCTAGCCATGCTCAAAAATACTTTCTTAGATTGGCTACTATCAACAAGAAGCGACGTTCAAGTCTCTTTGACTTGGTTGGGAGCAAGAACACCAACACAAAAGAACAAGGGTATGCTAATTCAGTAGTAAATTTGGGTCATAAATTTGAGGATAAGTGTAAATGTGAAGTTGAGATGAATGATGGCACCACTTTGTCCTACTTTAAACAAGAAGAAGCAGCCAAATCAGAAAAGCAAGAAAATAATTACTCTACAGATAATTGGCTACATGACTCTTCAAATTGTGCAGCAGTGCCTAATTTGGACCTCACACTTTCAGTTGCATCCCCTAAGCTTGAACAAAATCAACCCTCCCCTGCTGGCTCATTCCTTCTTGGCCCAATTAGCGTCACTTAA
Protein sequence

>MsaT024406.1

MGRRKCSHCGKIGHNCRTCTSFTTLGGLRLFGVQLSSSSSSSSSTMIKKSFSMDTFPSPSSPSSSFSSSTSLTNIDENYYHKPTSNISYLSDCFIGPPQERKKGVPWTEEEHRTFLVGLEKLGKGDWRGISKNFVTSRTPTQVASHAQKYFLRLATINKKRRSSLFDLVGSKNTNTKEQGYANSVVNLGHKFEDKCKCEVEMNDGTTLSYFKQEEAAKSEKQENNYSTDNWLHDSSNCAAVPNLDLTLSVASPKLEQNQPSPAGSFLLGPISVT*