AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025291

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025291 MtrunA17_Chr5g0399861 93.714 175 11 0 1 175 1 175 7.13e-123 343
MsaG025291 MtrunA17_Chr5g0399881 87.640 178 16 2 1 177 1 173 8.11e-114 320
MsaG025291 MtrunA17_Chr5g0399851 74.286 140 28 3 29 161 6 144 2.11e-69 207
MsaG025291 MtrunA17_Chr2g0301131 44.172 163 44 6 25 156 99 245 1.25e-32 117
MsaG025291 MtrunA17_Chr4g0070271 35.849 159 72 6 5 162 73 202 3.31e-19 80.9
MsaG025291 MtrunA17_Chr8g0344481 31.538 130 79 3 19 138 79 208 2.21e-13 65.9
MsaG025291 MtrunA17_Chr2g0302041 28.571 112 65 1 44 140 58 169 6.10e-13 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025291 AT1G19180.2 41.667 132 68 3 37 159 53 184 1.59e-25 97.4
MsaG025291 AT1G19180.1 41.045 134 70 3 37 161 119 252 5.12e-25 97.8
MsaG025291 AT1G19180.3 41.045 134 70 3 37 161 119 252 5.12e-25 97.8
MsaG025291 AT1G74950.1 41.304 138 62 4 37 157 112 247 6.10e-24 94.7
MsaG025291 AT1G74950.2 42.727 110 47 2 37 130 112 221 4.69e-19 81.3
MsaG025291 AT5G20900.1 31.973 147 78 4 24 148 28 174 2.01e-15 70.9
MsaG025291 AT1G72450.1 36.364 143 69 4 39 165 101 237 5.19e-14 68.6
MsaG025291 AT1G17380.2 34.426 122 66 2 33 140 58 179 1.65e-13 66.6
MsaG025291 AT1G17380.1 34.426 122 66 2 33 140 87 208 2.88e-13 66.6

Find 36 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTACAAGAGATTCCTATTT+TGG 0.046444 5:+6194715 MsaT025291.1:CDS
CCATCTATACCTGTTATTTA+TGG 0.164541 5:+6195114 MsaT025291.1:CDS
CTTGGATTGCTTGTTTGATA+TGG 0.217861 5:-6195792 None:intergenic
ATTGGTTTATTAATGCTTCT+TGG 0.268448 5:-6195810 None:intergenic
AGCTTCACTTCATCGGTTCT+TGG 0.292747 5:+6195255 MsaT025291.1:CDS
CATGTCATGGATTCATCAAT+TGG 0.320863 5:-6195828 None:intergenic
CCAAAATAGGAATCTCTTGT+AGG 0.331403 5:-6194715 None:intergenic
ATCCATGACATGGCTCTCTT+TGG 0.358156 5:+6195839 MsaT025291.1:CDS
TACCTGGAGTTTCCCAAAAT+AGG 0.395618 5:-6194728 None:intergenic
GGAAGTTGTTGAAAATTCAT+AGG 0.405668 5:-6194683 None:intergenic
GGAAAAGTCCATGATGTCTT+TGG 0.411671 5:-6194995 None:intergenic
AGTGAAGCTTTCCTAGTCAT+TGG 0.425048 5:-6195241 None:intergenic
TGAAGTACTAGTAATTCCTT+TGG 0.431697 5:-6195019 None:intergenic
TTCATCGGTTCTTGGAGAAA+AGG 0.463618 5:+6195263 MsaT025291.1:CDS
GCTTCTGCAGAATTGCAGCC+AGG 0.464388 5:+6195766 MsaT025291.1:intron
AGTAAGCATAGTTGTTATTG+TGG 0.472037 5:-6195047 None:intergenic
CCATAAATAACAGGTATAGA+TGG 0.477854 5:-6195114 None:intergenic
GCTTGTTTGATATGGTGCCC+TGG 0.478945 5:-6195784 None:intergenic
AGTACTAGTAATTCCTTTGG+TGG 0.499055 5:-6195016 None:intergenic
GATTTATGTTGTGGTGATTG+TGG 0.515021 5:-6195864 None:intergenic
CTAGGAAAGCTTCACTTCAT+CGG 0.529148 5:+6195248 MsaT025291.1:CDS
CAGGTATAGATGGTACTTGA+GGG 0.533329 5:-6195104 None:intergenic
AATGAAGGCTAATATTAAGA+AGG 0.546955 5:+6194894 MsaT025291.1:CDS
CTACACTCAGATTTATGTTG+TGG 0.562374 5:-6195873 None:intergenic
ATCTCTTGTAGGAAGAGATG+AGG 0.564072 5:-6194704 None:intergenic
TCTTGGAGAAAAGGAAGGAT+AGG 0.567398 5:+6195272 MsaT025291.1:CDS
ACAGGTATAGATGGTACTTG+AGG 0.569787 5:-6195105 None:intergenic
CTTCTGCAGAATTGCAGCCA+GGG 0.572555 5:+6195767 MsaT025291.1:intron
TGCCAAAGAGAGCCATGTCA+TGG 0.583954 5:-6195841 None:intergenic
TCGGTTCTTGGAGAAAAGGA+AGG 0.585705 5:+6195267 MsaT025291.1:CDS
ATTCAGATTTACCAATGACT+AGG 0.608086 5:+6195230 MsaT025291.1:intron
TTAAAGTAACACATGGGTGG+AGG 0.612419 5:-6195901 None:intergenic
CAATTGATGAATCCATGACA+TGG 0.622850 5:+6195829 MsaT025291.1:CDS
AAAACAGTTAAAGTAACACA+TGG 0.639241 5:-6195908 None:intergenic
CAGTTAAAGTAACACATGGG+TGG 0.664883 5:-6195904 None:intergenic
AAACAGTTAAAGTAACACAT+GGG 0.695262 5:-6195907 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 6194662 6195923 6194662 ID=MsaG025291
Chr5 mRNA 6194662 6195923 6194662 ID=MsaT025291.1;Parent=MsaG025291
Chr5 exon 6194662 6194747 6194662 ID=MsaT025291.1.exon1;Parent=MsaT025291.1
Chr5 CDS 6194662 6194747 6194662 ID=cds.MsaT025291.1;Parent=MsaT025291.1
Chr5 exon 6194891 6195135 6194891 ID=MsaT025291.1.exon2;Parent=MsaT025291.1
Chr5 CDS 6194891 6195135 6194891 ID=cds.MsaT025291.1;Parent=MsaT025291.1
Chr5 exon 6195236 6195293 6195236 ID=MsaT025291.1.exon3;Parent=MsaT025291.1
Chr5 CDS 6195236 6195293 6195236 ID=cds.MsaT025291.1;Parent=MsaT025291.1
Chr5 exon 6195776 6195923 6195776 ID=MsaT025291.1.exon4;Parent=MsaT025291.1
Chr5 CDS 6195776 6195923 6195776 ID=cds.MsaT025291.1;Parent=MsaT025291.1
Gene Sequence

>MsaT025291.1

ATGAATCATCACAACATGACACCTATGAATTTTCAACAACTTCCTCATCTCTTCCTACAAGAGATTCCTATTTTGGGAAACTCCAGTGTAATGAAGGCTAATATTAAGAAGGAAGAATCTAGATGTGCACAAATGACAATCTTTTATGATGGGAAAGTAATTGTGTTTGATGATGTTCCAGCTGAAAAAGCCAAAGACATCATGGACTTTTCCACCAAAGGAATTACTAGTACTTCACAAAACCACAATAACAACTATGCTTACTCTTCATTTCTTGCTAGAAATTCTCTTCAAGACTACCCTCAAGTACCATCTATACCTGTTATTTATGATTTACCAATGACTAGGAAAGCTTCACTTCATCGGTTCTTGGAGAAAAGGAAGGATAGAATTGCAGCCAGGGCACCATATCAAACAAGCAATCCAAGAAGCATTAATAAACCAATTGATGAATCCATGACATGGCTCTCTTTGGCACCACAATCACCACAACATAAATCTGAGTGTAGCAGCTCCTCCACCCATGTGTTACTTTAA
Protein sequence

>MsaT025291.1

MNHHNMTPMNFQQLPHLFLQEIPILGNSSVMKANIKKEESRCAQMTIFYDGKVIVFDDVPAEKAKDIMDFSTKGITSTSQNHNNNYAYSSFLARNSLQDYPQVPSIPVIYDLPMTRKASLHRFLEKRKDRIAARAPYQTSNPRSINKPIDESMTWLSLAPQSPQHKSECSSSSTHVLL*