AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG023709

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG023709 MtrunA17_Chr8g0381011 97.159 176 5 0 1 176 1 176 6.94e-124 346
MsaG023709 MtrunA17_Chr2g0303181 70.950 179 43 2 1 176 1 173 6.06e-87 252
MsaG023709 MtrunA17_Chr4g0054701 72.566 113 31 0 2 114 31 143 3.17e-56 174
MsaG023709 MtrunA17_Chr4g0047341 51.316 76 37 0 41 116 40 115 1.57e-22 88.2
MsaG023709 MtrunA17_Chr4g0047341 45.588 68 36 1 3 70 41 107 8.80e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG023709 AT4G20380.2 71.658 187 39 4 1 176 6 189 2.63e-75 224
MsaG023709 AT4G20380.7 71.658 187 39 4 1 176 6 189 2.63e-75 224
MsaG023709 AT4G20380.6 71.658 187 39 4 1 176 1 184 4.54e-75 223
MsaG023709 AT4G20380.3 71.658 187 39 4 1 176 1 184 4.54e-75 223
MsaG023709 AT4G20380.4 71.658 187 39 4 1 176 1 184 4.54e-75 223
MsaG023709 AT4G20380.1 71.658 187 39 4 1 176 1 184 4.54e-75 223
MsaG023709 AT4G20380.5 71.658 187 39 4 1 176 1 184 4.54e-75 223
MsaG023709 AT4G20380.8 62.911 213 39 4 1 176 1 210 6.26e-71 213
MsaG023709 AT1G32540.1 72.727 110 30 0 2 111 65 174 1.33e-55 174
MsaG023709 AT1G32540.3 72.727 110 30 0 2 111 32 141 1.32e-54 170
MsaG023709 AT1G32540.2 72.727 110 30 0 2 111 32 141 1.32e-54 170
MsaG023709 AT1G32540.5 74.074 108 28 0 2 109 32 139 4.76e-54 169
MsaG023709 AT4G20380.9 68.548 124 28 3 1 113 1 124 4.68e-50 157
MsaG023709 AT1G32540.7 76.389 72 17 0 2 73 65 136 3.27e-36 123
MsaG023709 AT1G32540.7 52.941 68 31 1 42 108 66 133 1.93e-13 64.7
MsaG023709 AT1G32540.4 76.389 72 17 0 2 73 32 103 1.47e-35 120
MsaG023709 AT1G32540.4 52.941 68 31 1 42 108 33 100 1.57e-13 63.9
MsaG023709 AT1G32540.6 76.389 72 17 0 2 73 32 103 1.47e-35 120
MsaG023709 AT1G32540.6 52.941 68 31 1 42 108 33 100 1.57e-13 63.9
MsaG023709 AT4G21610.1 52.500 80 38 0 40 119 57 136 4.70e-24 92.4
MsaG023709 AT4G21610.2 49.425 87 41 1 40 123 57 143 5.45e-22 87.0

Find 49 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACTGTTTGGCTCTGAGATT+GGG 0.264386 4:-91629370 None:intergenic
TGTTGATTCAAGTGGGAAAT+TGG 0.322882 4:+91629413 MsaT023709.1:CDS
CCACTGTTTGGCTCTGAGAT+TGG 0.323278 4:-91629371 None:intergenic
ACAACACTCATGTATCCTTA+TGG 0.360459 4:+91627969 MsaT023709.1:CDS
AATGGAAGGCTTCCAATTCC+TGG 0.374088 4:+91629165 MsaT023709.1:CDS
AAGTAGCCCATGTCCCTTGC+GGG 0.401008 4:+91627937 MsaT023709.1:CDS
GGCAGTTCCCGCAAGGGACA+TGG 0.407023 4:-91627944 None:intergenic
CAAACATTGGTTGCCCCTCT+AGG 0.429678 4:-91625605 None:intergenic
TGAGGTCTATGACCAGGAAT+TGG 0.430540 4:-91629177 None:intergenic
ATGTCCCTTGCGGGAACTGC+CGG 0.445439 4:+91627946 MsaT023709.1:CDS
CCACTTGAATCAACAGACAT+TGG 0.458263 4:-91629405 None:intergenic
CAGGTGAGCAATGTTGTTGT+TGG 0.459951 4:+91629550 MsaT023709.1:intron
AAACATACCGTTGAAGTAGA+AGG 0.466644 4:-91629225 None:intergenic
AGGAATTGGAAGCCTTCCAT+TGG 0.509054 4:-91629163 None:intergenic
AAACATTGGTTGCCCCTCTA+GGG 0.521552 4:-91625604 None:intergenic
AACGTTACCTTCTACTTCAA+CGG 0.522038 4:+91629218 MsaT023709.1:CDS
GCATGTTGCTTTACCCTAGA+GGG 0.526229 4:+91625591 MsaT023709.1:CDS
TTGACTGAAGGAGCTCCATA+AGG 0.536562 4:-91627984 None:intergenic
ACCTCACGGGACAACCGACT+CGG 0.536569 4:+91629194 MsaT023709.1:CDS
AAGGATACATGAGTGTTGTC+CGG 0.538194 4:-91627965 None:intergenic
GTTGTCCGGCAGTTCCCGCA+AGG 0.550249 4:-91627951 None:intergenic
AACTTGTGTGTAATGGTTGT+AGG 0.557278 4:+91625567 MsaT023709.1:CDS
GCAGTTCCCGCAAGGGACAT+GGG 0.560859 4:-91627943 None:intergenic
CAGAGTCAACTTGTGTGTAA+TGG 0.563559 4:+91625560 MsaT023709.1:CDS
AGAAGGTAACGTTCCCGAGT+CGG 0.568975 4:-91629208 None:intergenic
GATATGTCTCAACTATATTG+TGG 0.572327 4:+91625816 MsaT023709.1:CDS
CCAATGTCTGTTGATTCAAG+TGG 0.574429 4:+91629405 MsaT023709.1:CDS
GTCCCGTGAGGTCTATGACC+AGG 0.577307 4:-91629183 None:intergenic
CCTCACGGGACAACCGACTC+GGG 0.587267 4:+91629195 MsaT023709.1:CDS
ACTGTTTGGCTCTGAGATTG+GGG 0.587463 4:-91629369 None:intergenic
AACTATATTGTGGAGGCTGT+AGG 0.590469 4:+91625826 MsaT023709.1:CDS
ATTCCTGGTCATAGACCTCA+CGG 0.590721 4:+91629180 MsaT023709.1:CDS
TTGTCCGGCAGTTCCCGCAA+GGG 0.594632 4:-91627950 None:intergenic
ATTACCTCTGTTCCTCCACC+TGG 0.595203 4:+91625647 MsaT023709.1:CDS
CATACTGTAAACCTTGCTCC+AGG 0.599148 4:+91625900 MsaT023709.1:CDS
AATATACATTACCTGGAGCA+AGG 0.599284 4:-91625911 None:intergenic
CAATGTCTGTTGATTCAAGT+GGG 0.600952 4:+91629406 MsaT023709.1:CDS
CGTTGGAGCTTACCAGGTGG+AGG 0.603157 4:-91625659 None:intergenic
GCACAATGCACAACAAACAT+TGG 0.623040 4:-91625618 None:intergenic
AGCATGTTGCTTTACCCTAG+AGG 0.627744 4:+91625590 MsaT023709.1:CDS
CAAACAGCACATTTGACTGA+AGG 0.639168 4:-91627996 None:intergenic
CCCGAGTCGGTTGTCCCGTG+AGG 0.642543 4:-91629195 None:intergenic
ATGTCTCAACTATATTGTGG+AGG 0.644670 4:+91625819 MsaT023709.1:CDS
CAAGTAGCCCATGTCCCTTG+CGG 0.646539 4:+91627936 MsaT023709.1:CDS
CATGTTGCTTTACCCTAGAG+GGG 0.647362 4:+91625592 MsaT023709.1:CDS
CTTACCAGGTGGAGGAACAG+AGG 0.665101 4:-91625651 None:intergenic
TTCCTGGTCATAGACCTCAC+GGG 0.671842 4:+91629181 MsaT023709.1:CDS
CCAATCTCAGAGCCAAACAG+TGG 0.689166 4:+91629371 MsaT023709.1:CDS
ACATTGTTAATGTACACACG+CGG 0.795848 4:+91625849 MsaT023709.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 91625557 91629594 91625557 ID=MsaG023709
Chr4 mRNA 91625557 91629594 91625557 ID=MsaT023709.1;Parent=MsaG023709
Chr4 exon 91625557 91625668 91625557 ID=MsaT023709.1.exon1;Parent=MsaT023709.1
Chr4 CDS 91625557 91625668 91625557 ID=cds.MsaT023709.1;Parent=MsaT023709.1
Chr4 exon 91625811 91625921 91625811 ID=MsaT023709.1.exon2;Parent=MsaT023709.1
Chr4 CDS 91625811 91625921 91625811 ID=cds.MsaT023709.1;Parent=MsaT023709.1
Chr4 exon 91627928 91628040 91627928 ID=MsaT023709.1.exon3;Parent=MsaT023709.1
Chr4 CDS 91627928 91628040 91627928 ID=cds.MsaT023709.1;Parent=MsaT023709.1
Chr4 exon 91629159 91629239 91629159 ID=MsaT023709.1.exon4;Parent=MsaT023709.1
Chr4 CDS 91629159 91629239 91629159 ID=cds.MsaT023709.1;Parent=MsaT023709.1
Chr4 exon 91629363 91629434 91629363 ID=MsaT023709.1.exon5;Parent=MsaT023709.1
Chr4 CDS 91629363 91629434 91629363 ID=cds.MsaT023709.1;Parent=MsaT023709.1
Chr4 exon 91629553 91629594 91629553 ID=MsaT023709.1.exon6;Parent=MsaT023709.1
Chr4 CDS 91629553 91629594 91629553 ID=cds.MsaT023709.1;Parent=MsaT023709.1
Gene Sequence

>MsaT023709.1

ATGCAGAGTCAACTTGTGTGTAATGGTTGTAGGAGCATGTTGCTTTACCCTAGAGGGGCAACCAATGTTTGTTGTGCATTGTGCAACACAATTACCTCTGTTCCTCCACCTGGGATGGATATGTCTCAACTATATTGTGGAGGCTGTAGGACATTGTTAATGTACACACGCGGAGCTACAAGTGTCAGATGTTCTTGCTGTCATACTGTAAACCTTGCTCCAGTATCTAATCAAGTAGCCCATGTCCCTTGCGGGAACTGCCGGACAACACTCATGTATCCTTATGGAGCTCCTTCAGTCAAATGTGCTGTTTGTCACTATGTTACGAATATCAATATGTCCAATGGAAGGCTTCCAATTCCTGGTCATAGACCTCACGGGACAACCGACTCGGGAACGTTACCTTCTACTTCAACGTCAATGCCCCAATCTCAGAGCCAAACAGTGGTTGTAGAAAATCCAATGTCTGTTGATTCAAGTGGGAAATTGGTGAGCAATGTTGTTGTTGGTGTTACAACAGATAAGAAATAA
Protein sequence

>MsaT023709.1

MQSQLVCNGCRSMLLYPRGATNVCCALCNTITSVPPPGMDMSQLYCGGCRTLLMYTRGATSVRCSCCHTVNLAPVSNQVAHVPCGNCRTTLMYPYGAPSVKCAVCHYVTNINMSNGRLPIPGHRPHGTTDSGTLPSTSTSMPQSQSQTVVVENPMSVDSSGKLVSNVVVGVTTDKK*