AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG017799

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017799 MtrunA17_Chr3g0145031 99.541 218 1 0 1 218 1 218 1.69e-167 459
MsaG017799 MtrunA17_Chr3g0145041 71.000 200 54 1 19 218 1 196 4.77e-105 301
MsaG017799 MtrunA17_Chr2g0316511 67.580 219 67 3 1 218 1 216 6.57e-105 301
MsaG017799 MtrunA17_Chr2g0324381 50.521 192 87 5 1 190 10 195 2.02e-62 193
MsaG017799 MtrunA17_Chr5g0447451 46.512 129 59 5 74 192 15 143 2.53e-31 112
MsaG017799 MtrunA17_Chr2g0324361 52.000 100 44 3 27 126 12 107 5.28e-29 104
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017799 AT4G39100.1 70.233 215 61 2 1 215 1 212 3.73e-115 328
MsaG017799 AT4G22140.2 67.431 218 67 3 2 218 10 224 8.53e-111 317
MsaG017799 AT4G22140.1 67.299 211 65 3 2 211 10 217 1.97e-106 306
MsaG017799 AT4G22140.3 67.299 211 65 3 2 211 10 217 1.97e-106 306
MsaG017799 AT4G39100.2 76.364 165 37 1 1 165 1 163 4.70e-96 277
MsaG017799 AT4G04260.2 62.162 185 66 3 28 210 9 191 1.94e-78 234
MsaG017799 AT4G04260.1 61.111 180 66 3 33 210 1 178 3.09e-74 223
MsaG017799 AT4G04260.3 71.186 118 33 1 25 142 24 140 1.46e-57 179

Find 52 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGACTCTAGGTTTCGCTTT+GGG 0.256713 3:-113380644 None:intergenic
AGGTTTCGCTTTGGGGCTTT+TGG 0.301619 3:-113380636 None:intergenic
CTTTGCCACGTAAGAGGGTT+TGG 0.340256 3:-113380822 None:intergenic
GAAGGAAAGTGTATTGTTCA+TGG 0.347757 3:+113381004 MsaT017799.1:CDS
AAAGAAGTGGTCAAGTCTTT+CGG 0.363321 3:-113383454 None:intergenic
ACTCACACTGCAACTCTATC+AGG 0.365443 3:-113381115 None:intergenic
TTAACGTCCGGTGGTATTAC+CGG 0.372519 3:+113380888 MsaT017799.1:CDS
CACTGAACCATCAGATCATC+AGG 0.376018 3:-113381897 None:intergenic
TGTGAAAGTTGTTCCGTTGA+AGG 0.381340 3:+113383477 MsaT017799.1:CDS
CATCAGATCATCAGGGTTGT+AGG 0.418034 3:-113381889 None:intergenic
CATAACATCGCTTCTACCTT+CGG 0.423203 3:-113384273 None:intergenic
TTCGATCTTTGCCACGTAAG+AGG 0.444854 3:-113380828 None:intergenic
TATGACTCTAGGTTTCGCTT+TGG 0.453882 3:-113380645 None:intergenic
TTTGAGTACAATTCTGCTAC+TGG 0.478917 3:+113381082 MsaT017799.1:CDS
CAGAGTGCTGATACAATTGA+AGG 0.496733 3:+113380986 MsaT017799.1:CDS
AGTGTGAGGGCTGCAGTGAC+TGG 0.500549 3:+113381916 MsaT017799.1:CDS
TCGATCTTTGCCACGTAAGA+GGG 0.507398 3:-113380827 None:intergenic
TGACTCTAGGTTTCGCTTTG+GGG 0.508250 3:-113380643 None:intergenic
GCCACGTAAGAGGGTTTGGA+TGG 0.509773 3:-113380818 None:intergenic
GAGACAGTTTCACGGTTCAA+AGG 0.514600 3:+113380934 MsaT017799.1:CDS
TACCGGCCGGAGGAGTCAAT+TGG 0.521187 3:+113380905 MsaT017799.1:CDS
AACAAATCTGTCACAATCAA+AGG 0.523901 3:+113380684 MsaT017799.1:CDS
ATCAGATCATCAGGGTTGTA+GGG 0.525800 3:-113381888 None:intergenic
CGGCCACCAATTGACTCCTC+CGG 0.542045 3:-113380911 None:intergenic
CTACAACCCTGATGATCTGA+TGG 0.544719 3:+113381890 MsaT017799.1:CDS
TGATCTGATGGTTCAGTGTG+AGG 0.546259 3:+113381902 MsaT017799.1:CDS
CGGCCGGAGGAGTCAATTGG+TGG 0.557866 3:+113380908 MsaT017799.1:CDS
GAGGGTTTGGATGGATCAGA+TGG 0.563022 3:-113380809 None:intergenic
TACACTAAGCTTGATGCTGT+TGG 0.564424 3:+113381037 MsaT017799.1:CDS
CGGAGGAGTCAATTGGTGGC+CGG 0.567621 3:+113380912 MsaT017799.1:CDS
GTTTGACTGAGTATGACTCT+AGG 0.568800 3:-113380656 None:intergenic
GGTGGCCGGAGACAGTTTCA+CGG 0.570440 3:+113380926 MsaT017799.1:CDS
ACAGTCATGTCTATACAAGC+AGG 0.584679 3:-113383423 None:intergenic
CACCAATTGACTCCTCCGGC+CGG 0.585767 3:-113380907 None:intergenic
TCTTACGTGGCAAAGATCGA+AGG 0.586509 3:+113380830 MsaT017799.1:CDS
TGGATACTAAACGCCGCCGA+AGG 0.592385 3:+113384257 MsaT017799.1:CDS
AACAACTTTCACAAAAGAAG+TGG 0.593717 3:-113383467 None:intergenic
TTGAACCGTGAAACTGTCTC+CGG 0.596615 3:-113380931 None:intergenic
GATCTGATGGTTCAGTGTGA+GGG 0.605136 3:+113381903 MsaT017799.1:CDS
CCTCCGGCCGGTAATACCAC+CGG 0.617818 3:-113380895 None:intergenic
CTAACGTTAAAGTTAACGTC+CGG 0.628228 3:+113380876 MsaT017799.1:CDS
TACAAGACTCGCAGATACAA+AGG 0.635448 3:+113383530 MsaT017799.1:CDS
CGTCCGGTGGTATTACCGGC+CGG 0.645283 3:+113380892 MsaT017799.1:CDS
CTTACGTGGCAAAGATCGAA+GGG 0.647189 3:+113380831 MsaT017799.1:CDS
TCCATCCAAACCCTCTTACG+TGG 0.664323 3:+113380817 MsaT017799.1:CDS
CCGGTGGTATTACCGGCCGG+AGG 0.671639 3:+113380895 MsaT017799.1:CDS
ACGTTAAAGTTAACGTCCGG+TGG 0.681208 3:+113380879 MsaT017799.1:CDS
TTGTATAGACATGACTGTGG+AGG 0.686994 3:+113383428 MsaT017799.1:CDS
GGGATCGAAGCTGATTCACG+AGG 0.707404 3:+113380851 MsaT017799.1:CDS
ACTGAACCATCAGATCATCA+GGG 0.710984 3:-113381896 None:intergenic
AACATCGCTTCTACCTTCGG+CGG 0.747293 3:-113384270 None:intergenic
TGCTTGTATAGACATGACTG+TGG 0.776325 3:+113383425 MsaT017799.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 113380627 113384282 113380627 ID=MsaG017799
Chr3 mRNA 113380627 113384282 113380627 ID=MsaT017799.1;Parent=MsaG017799
Chr3 exon 113380627 113380705 113380627 ID=MsaT017799.1.exon1;Parent=MsaT017799.1
Chr3 CDS 113380627 113380705 113380627 ID=cds.MsaT017799.1;Parent=MsaT017799.1
Chr3 exon 113380786 113381131 113380786 ID=MsaT017799.1.exon2;Parent=MsaT017799.1
Chr3 CDS 113380786 113381131 113380786 ID=cds.MsaT017799.1;Parent=MsaT017799.1
Chr3 exon 113381869 113381937 113381869 ID=MsaT017799.1.exon3;Parent=MsaT017799.1
Chr3 CDS 113381869 113381937 113381869 ID=cds.MsaT017799.1;Parent=MsaT017799.1
Chr3 exon 113383416 113383551 113383416 ID=MsaT017799.1.exon4;Parent=MsaT017799.1
Chr3 CDS 113383416 113383551 113383416 ID=cds.MsaT017799.1;Parent=MsaT017799.1
Chr3 exon 113384256 113384282 113384256 ID=MsaT017799.1.exon5;Parent=MsaT017799.1
Chr3 CDS 113384256 113384282 113384256 ID=cds.MsaT017799.1;Parent=MsaT017799.1
Gene Sequence

>MsaT017799.1

ATGGCTAAACCAAAAGCCCCAAAGCGAAACCTAGAGTCATACTCAGTCAAACATATGAACAAATCTGTCACAATCAAAGCTGGGGATTGTGTGCTTATGCGTCCATCTGATCCATCCAAACCCTCTTACGTGGCAAAGATCGAAGGGATCGAAGCTGATTCACGAGGTGCTAACGTTAAAGTTAACGTCCGGTGGTATTACCGGCCGGAGGAGTCAATTGGTGGCCGGAGACAGTTTCACGGTTCAAAGGAGCTTTTTCTGTCAGATCATTTTGATGTTCAGAGTGCTGATACAATTGAAGGAAAGTGTATTGTTCATGGTTTCAAGAGCTACACTAAGCTTGATGCTGTTGGTAATGATGATTTCTTCTGTCGATTTGAGTACAATTCTGCTACTGGTGCTTTCAATCCTGATAGAGTTGCAGTGTATTGTAAATGTGAGATGCCCTACAACCCTGATGATCTGATGGTTCAGTGTGAGGGCTGCAGTGACTGGTTTCATCCTGCTTGTATAGACATGACTGTGGAGGAAGCCGAAAGACTTGACCACTTCTTTTGTGAAAGTTGTTCCGTTGAAGGTCAAAAACAGCTGCAAAATTCTCATTCTGCTACAAGACTCGCAGATACAAAGGTGGATACTAAACGCCGCCGAAGGTAG
Protein sequence

>MsaT017799.1

MAKPKAPKRNLESYSVKHMNKSVTIKAGDCVLMRPSDPSKPSYVAKIEGIEADSRGANVKVNVRWYYRPEESIGGRRQFHGSKELFLSDHFDVQSADTIEGKCIVHGFKSYTKLDAVGNDDFFCRFEYNSATGAFNPDRVAVYCKCEMPYNPDDLMVQCEGCSDWFHPACIDMTVEEAERLDHFFCESCSVEGQKQLQNSHSATRLADTKVDTKRRRR*