AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG000475

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000475 MtrunA17_Chr1g0151461 70.000 50 12 1 26 72 185 234 1.36e-18 77.8
MsaG000475 MtrunA17_Chr1g0151471 58.065 62 23 1 11 72 46 104 7.35e-18 71.6
MsaG000475 MtrunA17_Chr7g0271861 48.276 58 30 0 29 86 23 80 3.05e-15 65.9
MsaG000475 MtrunA17_Chr4g0068031 60.784 51 15 2 30 80 32 77 1.03e-13 62.0
MsaG000475 MtrunA17_Chr4g0071301 81.818 33 6 0 25 57 189 221 4.17e-13 62.8
MsaG000475 MtrunA17_Chr2g0299081 81.250 32 6 0 26 57 167 198 5.32e-13 62.4
MsaG000475 MtrunA17_Chr5g0404131 63.636 33 12 0 30 62 194 226 1.19e-11 58.5
MsaG000475 MtrunA17_Chr8g0373231 60.606 33 13 0 30 62 127 159 9.91e-11 55.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG000475 AT5G56860.1 55.556 54 24 0 29 82 231 284 4.15e-15 68.9
MsaG000475 AT5G49300.1 48.333 60 26 1 8 62 11 70 2.25e-14 63.9
MsaG000475 AT3G16870.1 51.613 62 29 1 26 87 40 100 6.21e-14 63.9
MsaG000475 AT4G26150.1 80.645 31 6 0 29 59 200 230 1.59e-13 64.3
MsaG000475 AT5G26930.1 54.348 46 21 0 26 71 24 69 3.33e-13 60.5
MsaG000475 AT4G16141.1 65.854 41 13 1 30 70 39 78 1.26e-12 60.8
MsaG000475 AT3G06740.1 69.697 33 10 0 30 62 43 75 3.66e-12 58.5
MsaG000475 AT4G36620.1 57.895 38 16 0 30 67 77 114 5.87e-12 59.3
MsaG000475 AT2G18380.1 59.459 37 15 0 30 66 94 130 8.41e-12 58.5
MsaG000475 AT3G50870.1 63.636 33 12 0 30 62 154 186 3.93e-11 57.8

Find 32 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TACTCTAGCCTTTGGATATC+TGG 0.254611 1:-6255076 None:intergenic
GTGTTAAATACTCTAGCCTT+TGG 0.384107 1:-6255084 None:intergenic
GGCAAAAGCTGCTAAAGGTT+TGG 0.385602 1:+6256752 MsaT000475.1:CDS
CCTTTGGAGGAGTGGACCTA+TGG 0.393594 1:+6255164 MsaT000475.1:CDS
CCTTAAACGGAGAAGGAAAA+TGG 0.403851 1:+6256731 MsaT000475.1:CDS
TTTGGATACTCACGGGGAAA+AGG 0.418097 1:+6256770 MsaT000475.1:CDS
GCAACGCATGTGGCCTTAAA+CGG 0.433689 1:+6256718 MsaT000475.1:CDS
TTCTTCACATCCTCAGATGA+TGG 0.435723 1:-6256807 None:intergenic
ACTCCTCCAAAGGGGAGTCT+TGG 0.473678 1:-6255154 None:intergenic
TTGGATACTCACGGGGAAAA+GGG 0.485734 1:+6256771 MsaT000475.1:CDS
ACAATCTGAGCAAACTATAG+TGG 0.494689 1:-6255124 None:intergenic
CTTTGGAGGAGTGGACCTAT+GGG 0.500407 1:+6255165 MsaT000475.1:CDS
AGTGGTTGTAGCAGCTAGAA+TGG 0.504787 1:-6255106 None:intergenic
CAACCAAGACTCCCCTTTGG+AGG 0.510410 1:+6255151 MsaT000475.1:CDS
AGACAACCAAGACTCCCCTT+TGG 0.517499 1:+6255148 MsaT000475.1:CDS
CATAGGTCCACTCCTCCAAA+GGG 0.525622 1:-6255163 None:intergenic
GAGTGGACCTATGGGTCCTA+AGG 0.528357 1:+6255173 MsaT000475.1:CDS
TCTTCACATCCTCAGATGAT+GGG 0.531152 1:-6256806 None:intergenic
CTAAAGGTTTGGATACTCAC+GGG 0.534606 1:+6256763 MsaT000475.1:CDS
CCATAGGTCCACTCCTCCAA+AGG 0.542869 1:-6255164 None:intergenic
AAGACTCCCCTTTGGAGGAG+TGG 0.565345 1:+6255156 MsaT000475.1:CDS
CTAATTACCTTAGGACCCAT+AGG 0.580046 1:-6255180 None:intergenic
AAAATGGCAAAAGCTGCTAA+AGG 0.591042 1:+6256747 MsaT000475.1:CDS
ACTCACGGGGAAAAGGGCAA+TGG 0.595568 1:+6256777 MsaT000475.1:CDS
GCTAAAGGTTTGGATACTCA+CGG 0.600853 1:+6256762 MsaT000475.1:CDS
CATGTGGCCTTAAACGGAGA+AGG 0.606403 1:+6256724 MsaT000475.1:CDS
TGGCGAAAGCCCATCATCTG+AGG 0.624778 1:+6256797 MsaT000475.1:CDS
CAGTCTTTGTGCAACGCATG+TGG 0.630452 1:+6256708 MsaT000475.1:intron
TCTAGCCTTTGGATATCTGG+TGG 0.655060 1:-6255073 None:intergenic
TGTCACCACCAGATATCCAA+AGG 0.673775 1:+6255068 MsaT000475.1:CDS
TAAAGGTTTGGATACTCACG+GGG 0.700828 1:+6256764 MsaT000475.1:CDS
ATAGGTCCACTCCTCCAAAG+GGG 0.735481 1:-6255162 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 6255048 6256836 6255048 ID=MsaG000475
Chr1 mRNA 6255048 6256836 6255048 ID=MsaT000475.1;Parent=MsaG000475
Chr1 exon 6255048 6255194 6255048 ID=MsaT000475.1.exon1;Parent=MsaT000475.1
Chr1 CDS 6255048 6255194 6255048 ID=cds.MsaT000475.1;Parent=MsaT000475.1
Chr1 exon 6256711 6256836 6256711 ID=MsaT000475.1.exon2;Parent=MsaT000475.1
Chr1 CDS 6256711 6256836 6256711 ID=cds.MsaT000475.1;Parent=MsaT000475.1
Gene Sequence

>MsaT000475.1

ATGAGAATGAAGAACACAACTGTCACCACCAGATATCCAAAGGCTAGAGTATTTAACACCATTCTAGCTGCTACAACCACTATAGTTTGCTCAGATTGTGAGACAACCAAGACTCCCCTTTGGAGGAGTGGACCTATGGGTCCTAAGTCTTTGTGCAACGCATGTGGCCTTAAACGGAGAAGGAAAATGGCAAAAGCTGCTAAAGGTTTGGATACTCACGGGGAAAAGGGCAATGGCGAAAGCCCATCATCTGAGGATGTGAAGAAGCTTTAA
Protein sequence

>MsaT000475.1

MRMKNTTVTTRYPKARVFNTILAATTTIVCSDCETTKTPLWRSGPMGPKSLCNACGLKRRRKMAKAAKGLDTHGEKGNGESPSSEDVKKL*