AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG044084

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG044084 MtrunA17_Chr8g0370121 80.165 242 24 3 1 218 1 242 4.19e-122 346
MsaG044084 MtrunA17_Chr8g0370131 50.877 228 96 9 1 217 1 223 3.50e-42 142
MsaG044084 MtrunA17_Chr6g0467271 60.345 116 35 4 1 106 1 115 5.50e-24 92.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 70 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCAGTTGTTCCAACATATTA+TGG 0.256138 8:-55679803 MsaT044084.1:CDS
CCATAATATGTTGGAACAAC+TGG 0.277085 8:+55679803 None:intergenic
AGTTGATTTGGAGCTTCGTT+TGG 0.335545 8:-55679693 MsaT044084.1:CDS
TATTTGTGATGGGGATGATT+AGG 0.340678 8:-55680060 MsaT044084.1:CDS
AGAGTGAGAGTTTCCTTTGC+AGG 0.342620 8:+55679830 None:intergenic
GTTGATTTGGAGCTTCGTTT+GGG 0.348489 8:-55679692 MsaT044084.1:CDS
TGCTGTTGGTGGTGAAGATT+AGG 0.377701 8:+55680934 None:intergenic
GATGAAGATATGGGTATTGA+TGG 0.385170 8:+55680994 None:intergenic
TGGTGCAACAGATGAAGATA+TGG 0.391943 8:+55680984 None:intergenic
TGTATTAGTTTATTTGTGAT+GGG 0.392456 8:-55680070 MsaT044084.1:intron
TTGTATTAGTTTATTTGTGA+TGG 0.403857 8:-55680071 MsaT044084.1:intron
GTCGGAGAACCCTAGCAATT+AGG 0.429758 8:+55680821 None:intergenic
GAATCAAAATTATGTATCAT+TGG 0.435669 8:+55680964 None:intergenic
ACTACCAACTGTCCTCAATC+TGG 0.459036 8:-55680859 MsaT044084.1:CDS
AGTTGGTAGTGATCATTTGA+TGG 0.459982 8:+55680872 None:intergenic
GTAAGGTAGTTTGCTGTTGG+TGG 0.469450 8:+55680923 None:intergenic
AAAGAAAATATGATTCCAAC+GGG 0.472141 8:-55679910 MsaT044084.1:CDS
TGCCATTCCCAAGTGGATCT+AGG 0.486137 8:-55680777 MsaT044084.1:CDS
TGTCCTCAATCTGGCACTCA+TGG 0.486448 8:-55680850 MsaT044084.1:CDS
TGGTGATGGAGAAGTTGATT+TGG 0.487057 8:-55679705 MsaT044084.1:CDS
TTAGGTATGGACAAGGGAGA+TGG 0.490096 8:-55680042 MsaT044084.1:CDS
ATGGTGGTAGCCTAATTGCT+AGG 0.506606 8:-55680831 MsaT044084.1:CDS
GAAGATATGGGTATTGATGG+AGG 0.506856 8:+55680997 None:intergenic
GATCTAGGCACATGGTGTCT+TGG 0.508481 8:-55680762 MsaT044084.1:CDS
ATGGTAAGGTAGTTTGCTGT+TGG 0.510873 8:+55680920 None:intergenic
AATGGCATGGTGTTTGATCC+TGG 0.510899 8:+55680793 None:intergenic
CCTAGTGGTTCAGCTGGTGA+TGG 0.511802 8:-55679719 MsaT044084.1:CDS
AGATATGGGTATTGATGGAG+GGG 0.512610 8:+55680999 None:intergenic
GCATAGCTTTGAACTTGTTG+TGG 0.515534 8:+55679983 None:intergenic
AGGGTTCTCCGACCGTTACC+AGG 0.518804 8:-55680811 MsaT044084.1:CDS
TAGTGATCATTTGATGGGAC+TGG 0.528979 8:+55680878 None:intergenic
TGGTCGTGTCCTTGAGCTGA+TGG 0.529573 8:+55680901 None:intergenic
AAGATATGGGTATTGATGGA+GGG 0.533718 8:+55680998 None:intergenic
ACTCCGCCTAGTGGTTCAGC+TGG 0.543679 8:-55679725 MsaT044084.1:CDS
AAGGAAGTATGTAAGATCAA+TGG 0.547109 8:+55681026 None:intergenic
TGCCTAGATCCACTTGGGAA+TGG 0.547210 8:+55680775 None:intergenic
TGGTGGTAGCCTAATTGCTA+GGG 0.547474 8:-55680830 MsaT044084.1:CDS
GTATTGATGGAGGGGAGTCA+AGG 0.547727 8:+55681007 None:intergenic
CATAATATGTTGGAACAACT+GGG 0.548941 8:+55679804 None:intergenic
GTGTCCTTGAGCTGATGGTA+AGG 0.551347 8:+55680906 None:intergenic
GCTTCTCCTCCATAATATGT+TGG 0.555055 8:+55679794 None:intergenic
AAAAGAAAATATGATTCCAA+CGG 0.555446 8:-55679911 MsaT044084.1:CDS
GTTGGTAGTGATCATTTGAT+GGG 0.561211 8:+55680873 None:intergenic
CCACCATGAGTGCCAGATTG+AGG 0.566054 8:+55680847 None:intergenic
GTATTAGTTTATTTGTGATG+GGG 0.567565 8:-55680069 MsaT044084.1:intron
CCATCACCAGCTGAACCACT+AGG 0.572498 8:+55679719 None:intergenic
GGTGCAACAGATGAAGATAT+GGG 0.573397 8:+55680985 None:intergenic
TGATGATGAGTTTATCCCGT+TGG 0.580417 8:+55679895 None:intergenic
GTGATGGGGATGATTAGGTA+TGG 0.581299 8:-55680055 MsaT044084.1:CDS
TGCTAACAATGATCCTGCAA+AGG 0.585046 8:-55679843 MsaT044084.1:CDS
GTAAGATCAATGGTCTCCAT+AGG 0.586191 8:+55681036 None:intergenic
AGTGCCAGATTGAGGACAGT+TGG 0.594443 8:+55680855 None:intergenic
TTGGTGGTGAAGATTAGGAT+TGG 0.600454 8:+55680939 None:intergenic
TGAACCACTAGGCGGAGTCA+TGG 0.600756 8:+55679730 None:intergenic
CCCAAGTGGATCTAGGCACA+TGG 0.602457 8:-55680770 MsaT044084.1:CDS
GTTGTTCCAACATATTATGG+AGG 0.614847 8:-55679800 MsaT044084.1:CDS
ACCATGTGCCTAGATCCACT+TGG 0.620902 8:+55680769 None:intergenic
CCTCAATCTGGCACTCATGG+TGG 0.624726 8:-55680847 MsaT044084.1:CDS
TTGATTTGGAGCTTCGTTTG+GGG 0.630279 8:-55679691 MsaT044084.1:CDS
AGATCCACTTGGGAATGGCA+TGG 0.630755 8:+55680780 None:intergenic
CCATGTGCCTAGATCCACTT+GGG 0.631806 8:+55680770 None:intergenic
ATGGTGTTTGATCCTGGTAA+CGG 0.649197 8:+55680799 None:intergenic
ACTACCTTACCATCAGCTCA+AGG 0.650911 8:-55680910 MsaT044084.1:CDS
TGTTTGATCCTGGTAACGGT+CGG 0.653269 8:+55680803 None:intergenic
TGATCATTTGATGGGACTGG+TGG 0.653895 8:+55680881 None:intergenic
AACACCATGCCATTCCCAAG+TGG 0.655209 8:-55680784 MsaT044084.1:CDS
GGGATGATTAGGTATGGACA+AGG 0.664435 8:-55680049 MsaT044084.1:CDS
ACTTCCATGACTCCGCCTAG+TGG 0.676435 8:-55679734 MsaT044084.1:CDS
GGATGATTAGGTATGGACAA+GGG 0.676501 8:-55680048 MsaT044084.1:CDS
TCACCAGCTGAACCACTAGG+CGG 0.766297 8:+55679722 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 55679682 55681061 55679682 ID=MsaG044084
Chr8 mRNA 55679682 55681061 55679682 ID=MsaT044084.1;Parent=MsaG044084
Chr8 exon 55679682 55679933 55679682 ID=MsaT044084.1.exon3;Parent=MsaT044084.1
Chr8 CDS 55679682 55679933 55679682 ID=cds.MsaT044084.1;Parent=MsaT044084.1
Chr8 exon 55679997 55680084 55679997 ID=MsaT044084.1.exon2;Parent=MsaT044084.1
Chr8 CDS 55679997 55680084 55679997 ID=cds.MsaT044084.1;Parent=MsaT044084.1
Chr8 exon 55680745 55681061 55680745 ID=MsaT044084.1.exon1;Parent=MsaT044084.1
Chr8 CDS 55680745 55681061 55680745 ID=cds.MsaT044084.1;Parent=MsaT044084.1
Gene Sequence

>MsaT044084.1

ATGCCTATGGAGACCATTGATCTTACATACTTCCTTGACTCCCCTCCATCAATACCCATATCTTCATCTGTTGCACCAATGATACATAATTTTGATTCTACCAATCCTAATCTTCACCACCAACAGCAAACTACCTTACCATCAGCTCAAGGACACGACCACCAGTCCCATCAAATGATCACTACCAACTGTCCTCAATCTGGCACTCATGGTGGTAGCCTAATTGCTAGGGTTCTCCGACCGTTACCAGGATCAAACACCATGCCATTCCCAAGTGGATCTAGGCACATGGTGTCTTGGAGTCAGACAGAGCATGATTTATTTGTGATGGGGATGATTAGGTATGGACAAGGGAGATGGAGTAAAATTGCTGAGAACTTTGTATGCAACAAGACTCCACAACAAAAAAGAAAATATGATTCCAACGGGATAAACTCATCATCAGCTGCATGTTATTCAATGCATAACATGATTGCTAACAATGATCCTGCAAAGGAAACTCTCACTCTTTTCCCAGTTGTTCCAACATATTATGGAGGAGAAGCTAGCAGCAACAACAATACAAACAACTATGAAGCAAGCACTTCCATGACTCCGCCTAGTGGTTCAGCTGGTGATGGAGAAGTTGATTTGGAGCTTCGTTTGGGGTTATATTAG
Protein sequence

>MsaT044084.1

MPMETIDLTYFLDSPPSIPISSSVAPMIHNFDSTNPNLHHQQQTTLPSAQGHDHQSHQMITTNCPQSGTHGGSLIARVLRPLPGSNTMPFPSGSRHMVSWSQTEHDLFVMGMIRYGQGRWSKIAENFVCNKTPQQKRKYDSNGINSSSAACYSMHNMIANNDPAKETLTLFPVVPTYYGGEASSNNNTNNYEASTSMTPPSGSAGDGEVDLELRLGLY*