AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG021161

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG021161 MtrunA17_Chr4g0035591 93.564 202 13 0 1 202 4 205 4.48e-126 353
MsaG021161 MtrunA17_Chr8g0372461 50.000 136 59 2 13 139 117 252 6.47e-42 144
MsaG021161 MtrunA17_Chr3g0142171 50.345 145 52 4 14 138 83 227 3.64e-41 141
MsaG021161 MtrunA17_Chr5g0404781 45.283 159 56 4 15 142 98 256 2.72e-38 134
MsaG021161 MtrunA17_Chr1g0155791 42.568 148 60 2 15 137 120 267 2.27e-34 124
MsaG021161 MtrunA17_Chr5g0441921 37.580 157 66 2 17 141 124 280 1.41e-29 112
MsaG021161 MtrunA17_Chr8g0353111 36.571 175 73 3 6 142 113 287 3.10e-27 105
MsaG021161 MtrunA17_Chr0c01g0489181 86.275 51 7 0 1 51 51 101 4.32e-26 97.1
MsaG021161 MtrunA17_Chr3g0082511 36.076 158 69 4 17 142 134 291 4.79e-24 97.1
MsaG021161 MtrunA17_Chr2g0281741 86.364 44 6 0 8 51 141 184 4.16e-22 89.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG021161 AT2G21400.3 50.758 132 49 2 11 137 4 124 1.36e-40 136
MsaG021161 AT2G21400.1 50.758 132 49 2 11 137 3 123 1.63e-40 136
MsaG021161 AT2G21400.2 49.265 136 60 2 11 137 4 139 2.90e-39 133
MsaG021161 AT2G21400.4 49.265 136 60 2 11 137 3 138 3.14e-39 133
MsaG021161 AT1G75520.1 37.118 229 94 7 14 202 122 340 1.39e-38 136
MsaG021161 AT5G66350.3 36.667 210 101 6 17 200 120 323 8.25e-37 130
MsaG021161 AT5G66350.2 41.463 164 72 3 17 160 120 279 2.16e-36 130
MsaG021161 AT5G66350.1 41.463 164 72 3 17 160 120 279 2.67e-36 129
MsaG021161 AT3G51060.1 35.714 224 107 8 15 202 142 364 4.80e-36 130
MsaG021161 AT2G18120.2 43.885 139 68 3 15 143 70 208 6.98e-35 123
MsaG021161 AT2G18120.1 43.262 141 68 3 15 143 70 210 2.72e-34 121
MsaG021161 AT1G19790.2 39.444 180 75 4 15 160 117 296 2.24e-32 119
MsaG021161 AT1G19790.1 39.444 180 75 4 15 160 117 296 2.24e-32 119
MsaG021161 AT4G36260.1 40.994 161 53 4 15 139 92 246 8.98e-32 117
MsaG021161 AT5G12330.1 34.518 197 84 4 17 176 112 300 8.60e-28 107
MsaG021161 AT5G12330.2 34.518 197 84 4 17 176 112 300 8.60e-28 107
MsaG021161 AT5G12330.4 34.518 197 84 4 17 176 199 387 1.17e-27 108
MsaG021161 AT3G54430.1 34.848 132 77 3 17 139 41 172 2.06e-20 84.7
MsaG021161 AT5G33210.2 65.957 47 16 0 15 61 15 61 5.23e-19 79.0
MsaG021161 AT5G12330.3 62.000 50 19 0 17 66 112 161 2.10e-18 80.5
MsaG021161 AT5G33210.1 65.957 47 16 0 15 61 50 96 3.18e-18 78.6

Find 48 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGCATCCATTGCCATCTTTC+AGG 0.185899 4:-63396855 MsaT021161.1:CDS
TTCTGATGAGTTCAAATTTC+CGG 0.205380 4:-63397169 MsaT021161.1:CDS
AAGATGTATTCAACACAATT+AGG 0.212765 4:-63397737 MsaT021161.1:CDS
AGGGAAAGAAGAAGTGTTAA+AGG 0.254491 4:-63397717 MsaT021161.1:CDS
AATTTCTACACTTGTTTGAT+AGG 0.288184 4:+63397074 None:intergenic
TATCAAACAAGTGTAGAAAT+TGG 0.319031 4:-63397072 MsaT021161.1:CDS
ACCACCTTCATGAACATAAA+AGG 0.327971 4:-63397529 MsaT021161.1:CDS
GTATTGAAGCTTTGTTGATC+AGG 0.373732 4:+63397012 None:intergenic
ATGTGTTCAGGTGCGCTCTA+TGG 0.373967 4:-63397118 MsaT021161.1:CDS
TAGAAATTAAGAAACTAATA+TGG 0.382503 4:+63396823 None:intergenic
ATGCACAATCCTTCTTTGCT+TGG 0.390646 4:+63397669 None:intergenic
AGTGGTATTCTTTATGATCA+AGG 0.401384 4:-63397036 MsaT021161.1:CDS
CTTGGATTCCTGCCGATAGA+AGG 0.408141 4:-63397583 MsaT021161.1:CDS
AGATGTATTCAACACAATTA+GGG 0.426718 4:-63397736 MsaT021161.1:CDS
GGCCACATTGACATGTGTTC+AGG 0.436853 4:-63397130 MsaT021161.1:CDS
GGGAAAGAAGAAGTGTTAAA+GGG 0.452664 4:-63397716 MsaT021161.1:CDS
ATTGGAGGACATGTATTTAG+TGG 0.464916 4:-63397054 MsaT021161.1:CDS
CTGTGGGAACCAAGCAAAGA+AGG 0.482489 4:-63397678 MsaT021161.1:CDS
GATGGCAATGGATGCGGTGG+AGG 0.491036 4:+63396862 None:intergenic
AAGAAACTAATATGGCATAC+CGG 0.491152 4:+63396831 None:intergenic
GGCATACCGGGCCTGAAAGA+TGG 0.493287 4:+63396844 None:intergenic
AAGTGCTTCTGATATGTGTC+TGG 0.496438 4:+63397603 None:intergenic
CATTCTGTGACGCCTTCTAT+CGG 0.499159 4:+63397571 None:intergenic
TATTGAAGCTTTGTTGATCA+GGG 0.517194 4:+63397013 None:intergenic
CTGTGACGCCTTCTATCGGC+AGG 0.519090 4:+63397575 None:intergenic
GGACGAAACGGTTAATGAAA+CGG 0.523314 4:-63397097 MsaT021161.1:CDS
CCATTGCCATCTTTCAGGCC+CGG 0.534404 4:-63396850 MsaT021161.1:CDS
GCAAGTGCAAGTGCAACTAT+AGG 0.535841 4:-63396916 MsaT021161.1:CDS
CTGAAAGATGGCAATGGATG+CGG 0.543278 4:+63396856 None:intergenic
GCCATGGAACTCGTAACAGC+CGG 0.560763 4:+63397150 None:intergenic
GTCTGAAATGTCAAGACTGT+GGG 0.561427 4:-63397694 MsaT021161.1:CDS
AGAAACTAATATGGCATACC+GGG 0.563457 4:+63396832 None:intergenic
TCCGGCTGTTACGAGTTCCA+TGG 0.567211 4:-63397151 MsaT021161.1:CDS
CGATAGAAGGCGTCACAGAA+TGG 0.568956 4:-63397570 MsaT021161.1:CDS
GCAATCCACACAGGTGATGA+TGG 0.569958 4:-63396940 MsaT021161.1:CDS
CAAACAAGTGTAGAAATTGG+AGG 0.570503 4:-63397069 MsaT021161.1:CDS
AACACATGTCAATGTGGCCA+TGG 0.579628 4:+63397134 None:intergenic
AGAAGGATTGTGCATACTCA+AGG 0.587247 4:-63397661 MsaT021161.1:CDS
GGTGCGCTCTATGGACGAAA+CGG 0.590105 4:-63397109 MsaT021161.1:CDS
CCGGGCCTGAAAGATGGCAA+TGG 0.618050 4:+63396850 None:intergenic
AGTAGTAATGCAATCCACAC+AGG 0.618793 4:-63396949 MsaT021161.1:CDS
AGACACATATCAGAAGCACT+TGG 0.622826 4:-63397601 MsaT021161.1:CDS
TGAAGGTGGTGCTGATCAGA+AGG 0.627301 4:+63397542 None:intergenic
AAAGATGGCAATGGATGCGG+TGG 0.637766 4:+63396859 None:intergenic
GGTCTGAAATGTCAAGACTG+TGG 0.643818 4:-63397695 MsaT021161.1:CDS
CACCTGAACACATGTCAATG+TGG 0.680012 4:+63397128 None:intergenic
GGTGGTGCTGATCAGAAGGA+TGG 0.685704 4:+63397546 None:intergenic
TTGCACCATCATCACCTGTG+TGG 0.692440 4:+63396935 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 63396837 63397756 63396837 ID=MsaG021161
Chr4 mRNA 63396837 63397756 63396837 ID=MsaT021161.1;Parent=MsaG021161
Chr4 exon 63396837 63397192 63396837 ID=MsaT021161.1.exon2;Parent=MsaT021161.1
Chr4 CDS 63396837 63397192 63396837 ID=cds.MsaT021161.1;Parent=MsaT021161.1
Chr4 exon 63397504 63397756 63397504 ID=MsaT021161.1.exon1;Parent=MsaT021161.1
Chr4 CDS 63397504 63397756 63397504 ID=cds.MsaT021161.1;Parent=MsaT021161.1
Gene Sequence

>MsaT021161.1

ATGTATTCAACACAATTAGGGAAAGAAGAAGTGTTAAAGGGTCTGAAATGTCAAGACTGTGGGAACCAAGCAAAGAAGGATTGTGCATACTCAAGGTGCAGAAGTTGCTGCAAAAACAAAGGTTTTCACTGCCAGACACATATCAGAAGCACTTGGATTCCTGCCGATAGAAGGCGTCACAGAATGGACCATCCTTCTGATCAGCACCACCTTCATGAACATAAAAGGCACAAGCAGATCAACACTATTTCAAGTTCTGATGAGTTCAAATTTCCGGCTGTTACGAGTTCCATGGCCACATTGACATGTGTTCAGGTGCGCTCTATGGACGAAACGGTTAATGAAACGGCCTATCAAACAAGTGTAGAAATTGGAGGACATGTATTTAGTGGTATTCTTTATGATCAAGGCCCTGATCAACAAAGCTTCAATACTATACACTCCCTTGATCAGCAACAAAATCTTAATCTTTTTAGTAGTAATGCAATCCACACAGGTGATGATGGTGCAAGTGCAAGTGCAACTATAGGTGCTACTGCTTCTCATCGTCGCTTTTTATTTCCTCCACCGCATCCATTGCCATCTTTCAGGCCCGGTATGCCATATTAG
Protein sequence

>MsaT021161.1

MYSTQLGKEEVLKGLKCQDCGNQAKKDCAYSRCRSCCKNKGFHCQTHIRSTWIPADRRRHRMDHPSDQHHLHEHKRHKQINTISSSDEFKFPAVTSSMATLTCVQVRSMDETVNETAYQTSVEIGGHVFSGILYDQGPDQQSFNTIHSLDQQQNLNLFSSNAIHTGDDGASASATIGATASHRRFLFPPPHPLPSFRPGMPY*