AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001096

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001096 MtrunA17_Chr1g0159291 92.222 90 7 0 1 90 1 90 7.33e-59 176
MsaG001096 MtrunA17_Chr3g0102351 42.268 97 55 1 7 103 32 127 1.03e-22 87.4
MsaG001096 MtrunA17_Chr8g0382931 40.594 101 59 1 7 107 33 132 1.10e-21 84.7
MsaG001096 MtrunA17_Chr4g0076381 39.785 93 55 1 7 99 63 154 1.46e-21 85.5
MsaG001096 MtrunA17_Chr1g0185911 40.404 99 51 1 7 97 34 132 1.51e-21 84.0
MsaG001096 MtrunA17_Chr1g0195851 42.857 84 48 0 7 90 41 124 1.73e-21 84.3
MsaG001096 MtrunA17_Chr7g0263601 42.000 100 56 2 7 106 31 128 1.92e-21 83.6
MsaG001096 MtrunA17_Chr5g0446491 44.048 84 47 0 7 90 28 111 3.09e-21 83.2
MsaG001096 MtrunA17_Chr2g0290491 40.860 93 54 1 7 99 22 113 3.20e-21 82.8
MsaG001096 MtrunA17_Chr4g0076321 42.045 88 51 0 3 90 20 107 3.83e-21 81.6
MsaG001096 MtrunA17_Chr1g0159271 49.351 77 39 0 16 92 1 77 7.34e-21 80.1
MsaG001096 MtrunA17_Chr1g0165041 42.857 84 48 0 7 90 11 94 1.04e-20 82.0
MsaG001096 MtrunA17_Chr8g0384451 42.353 85 49 0 7 91 45 129 7.37e-20 80.5
MsaG001096 MtrunA17_Chr1g0191981 36.905 84 53 0 7 90 9 92 1.34e-19 77.4
MsaG001096 MtrunA17_Chr2g0296321 39.286 84 51 0 7 90 71 154 9.10e-19 78.2
MsaG001096 MtrunA17_Chr4g0067091 39.286 84 51 0 7 90 27 110 9.93e-19 77.4
MsaG001096 MtrunA17_Chr1g0158951 37.778 90 42 1 32 107 19 108 1.46e-16 69.3
MsaG001096 MtrunA17_Chr5g0446601 31.765 85 58 0 7 91 29 113 1.03e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001096 AT2G38880.7 42.574 101 57 1 7 106 26 126 1.98e-23 88.2
MsaG001096 AT2G38880.3 41.748 103 57 1 7 106 26 128 3.78e-23 87.4
MsaG001096 AT2G38880.2 41.748 103 57 1 7 106 26 128 4.05e-23 87.4
MsaG001096 AT2G38880.1 41.748 103 57 1 7 106 26 128 4.05e-23 87.4
MsaG001096 AT2G38880.5 41.748 103 57 1 7 106 26 128 4.05e-23 87.4
MsaG001096 AT3G53340.5 42.308 104 57 1 7 107 34 137 3.56e-22 85.9
MsaG001096 AT3G53340.1 42.308 104 57 1 7 107 34 137 3.56e-22 85.9
MsaG001096 AT4G14540.1 39.216 102 61 1 7 108 26 126 5.50e-22 85.1
MsaG001096 AT2G37060.2 41.121 107 60 1 7 110 35 141 7.38e-22 85.1
MsaG001096 AT2G37060.3 41.121 107 60 1 7 110 35 141 7.38e-22 85.1
MsaG001096 AT2G37060.1 41.121 107 60 1 7 110 35 141 7.38e-22 85.1
MsaG001096 AT2G38880.4 44.048 84 47 0 7 90 26 109 8.68e-22 83.2
MsaG001096 AT5G47640.1 45.238 84 46 0 7 90 32 115 2.47e-21 84.0
MsaG001096 AT2G38880.11 44.048 84 47 0 7 90 26 109 2.80e-21 83.2
MsaG001096 AT2G38880.8 44.048 84 47 0 7 90 26 109 2.80e-21 83.2
MsaG001096 AT2G38880.9 44.048 84 47 0 7 90 26 109 4.84e-21 82.4
MsaG001096 AT2G38880.10 44.048 84 47 0 7 90 26 109 4.84e-21 82.4
MsaG001096 AT2G38880.6 44.048 84 47 0 7 90 26 109 4.84e-21 82.4
MsaG001096 AT3G53340.4 45.238 84 46 0 7 90 34 117 2.31e-20 79.7
MsaG001096 AT2G47810.1 41.667 84 49 0 7 90 56 139 3.08e-20 80.5
MsaG001096 AT3G53340.3 43.158 95 53 1 7 101 34 127 1.74e-19 78.2
MsaG001096 AT3G53340.2 43.158 95 53 1 7 101 34 127 1.74e-19 78.2
MsaG001096 AT5G47670.2 36.842 95 60 0 7 101 34 128 2.12e-19 79.3
MsaG001096 AT5G47670.1 36.842 95 60 0 7 101 63 157 4.83e-19 79.0
MsaG001096 AT5G47670.3 36.842 95 60 0 7 101 63 157 4.83e-19 79.0
MsaG001096 AT1G09030.1 33.663 101 60 1 7 100 8 108 1.12e-18 75.9
MsaG001096 AT1G21970.1 40.476 84 50 0 7 90 64 147 1.45e-18 77.8
MsaG001096 AT2G13570.1 42.353 85 49 0 7 91 41 125 1.86e-18 77.0

Find 27 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATGTTCTACATTGGCTTTC+TGG 0.102414 1:-15063634 None:intergenic
ATTGTGTGTGTCTAAATTTA+TGG 0.291429 1:+15063589 MsaT001096.1:CDS
TTTCTGCTGATGATTTACTA+TGG 0.320933 1:+15063666 MsaT001096.1:CDS
GAGGAATTTGTTAGGTCTCT+TGG 0.362755 1:+15063710 MsaT001096.1:CDS
ATTTACTATGGACGATGAAT+AGG 0.363355 1:+15063678 MsaT001096.1:CDS
TTAACTTAGGTCATCATCAT+TGG 0.396111 1:-15063795 None:intergenic
TGGGCTTTGAGGAATTTGTT+AGG 0.401864 1:+15063702 MsaT001096.1:CDS
AGGAATTTGTTAGGTCTCTT+GGG 0.404606 1:+15063711 MsaT001096.1:CDS
GATGAATAGGTTGGGCTTTG+AGG 0.427694 1:+15063691 MsaT001096.1:CDS
CTATGGACGATGAATAGGTT+GGG 0.452990 1:+15063683 MsaT001096.1:CDS
GACTCTTGTCACATGATTGA+TGG 0.464195 1:-15063507 None:intergenic
AACTATCGCAACCACATGGA+TGG 0.490022 1:+15063746 MsaT001096.1:CDS
CGCAACCACATGGATGGGTC+AGG 0.508099 1:+15063752 MsaT001096.1:CDS
CATTAACTCCTTAGCATCAC+CGG 0.525471 1:-15063564 None:intergenic
ACTATGGACGATGAATAGGT+TGG 0.532041 1:+15063682 MsaT001096.1:CDS
TCACCGGTGATTATTGTGTC+CGG 0.543765 1:-15063548 None:intergenic
AATCATTTGATGTTCTACAT+TGG 0.545949 1:-15063642 None:intergenic
AATAATCACCGGTGATGCTA+AGG 0.556556 1:+15063556 MsaT001096.1:CDS
CATGCAGAGTGTTCTTCCAC+CGG 0.588890 1:+15063529 MsaT001096.1:CDS
ACTCTTGTCACATGATTGAT+GGG 0.597608 1:-15063506 None:intergenic
TTCAACTCCAACAATGGGCG+AGG 0.597648 1:+15063472 None:intergenic
ACTATCGCAACCACATGGAT+GGG 0.604393 1:+15063747 MsaT001096.1:CDS
ATGGATGGGTCAGGTACTAG+TGG 0.605939 1:+15063761 MsaT001096.1:CDS
CCGGTGATTATTGTGTCCGG+TGG 0.615417 1:-15063545 None:intergenic
CCACCGGACACAATAATCAC+CGG 0.624454 1:+15063545 MsaT001096.1:CDS
TATGGACATAGTCACAAGTG+AGG 0.668100 1:+15063607 MsaT001096.1:CDS
TAGTACCTGACCCATCCATG+TGG 0.736156 1:-15063757 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 15063485 15063817 15063485 ID=MsaG001096
Chr1 mRNA 15063485 15063817 15063485 ID=MsaT001096.1;Parent=MsaG001096
Chr1 exon 15063485 15063817 15063485 ID=MsaT001096.1.exon1;Parent=MsaT001096.1
Chr1 CDS 15063485 15063817 15063485 ID=cds.MsaT001096.1;Parent=MsaT001096.1
Gene Sequence

>MsaT001096.1

ATGGGCGAGGAAGTGCGTATGCCCATCAATCATGTGACAAGAGTCATGCAGAGTGTTCTTCCACCGGACACAATAATCACCGGTGATGCTAAGGAGTTAATGCAATTGTGTGTGTCTAAATTTATGGACATAGTCACAAGTGAGGCTTTCCAGAAAGCCAATGTAGAACATCAAATGATTGTTTCTGCTGATGATTTACTATGGACGATGAATAGGTTGGGCTTTGAGGAATTTGTTAGGTCTCTTGGGAAAGACCTCAAAAACTATCGCAACCACATGGATGGGTCAGGTACTAGTGGCTCAAACAATGCCAATGATGATGACCTAAGTTAA
Protein sequence

>MsaT001096.1

MGEEVRMPINHVTRVMQSVLPPDTIITGDAKELMQLCVSKFMDIVTSEAFQKANVEHQMIVSADDLLWTMNRLGFEEFVRSLGKDLKNYRNHMDGSGTSGSNNANDDDLS*