AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG027329

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027329 MtrunA17_Chr5g0419871 96.178 157 6 0 1 157 1 157 1.24e-110 312
MsaG027329 MtrunA17_Chr4g0063931 43.030 165 65 4 8 155 5 157 1.01e-40 135
MsaG027329 MtrunA17_Chr4g0025361 46.452 155 73 4 7 155 1 151 4.77e-40 133
MsaG027329 MtrunA17_Chr2g0322221 48.485 165 67 6 7 155 1 163 8.14e-40 133
MsaG027329 MtrunA17_Chr4g0011841 44.025 159 62 4 19 155 25 178 1.96e-35 123
MsaG027329 MtrunA17_Chr4g0056521 46.012 163 70 3 10 155 12 173 2.04e-35 123
MsaG027329 MtrunA17_Chr5g0413381 43.243 148 73 2 17 153 12 159 2.68e-33 117
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027329 AT1G69180.1 68.000 175 48 5 1 171 1 171 7.33e-65 197
MsaG027329 AT1G08465.1 49.045 157 61 5 12 155 3 153 2.93e-40 134
MsaG027329 AT2G26580.2 45.098 153 59 3 15 155 7 146 9.76e-39 130
MsaG027329 AT2G26580.1 45.098 153 59 3 15 155 7 146 9.76e-39 130
MsaG027329 AT2G45190.1 47.619 168 64 7 10 155 17 182 1.51e-37 129
MsaG027329 AT4G00180.1 39.227 181 72 5 10 155 17 194 3.99e-31 112
MsaG027329 AT1G23420.1 37.736 159 80 3 18 157 20 178 2.16e-28 105
MsaG027329 AT1G23420.2 37.975 158 79 3 19 157 52 209 4.22e-28 105
MsaG027329 AT4G00180.2 35.758 165 69 4 26 155 1 163 7.51e-22 88.2
MsaG027329 AT2G45190.2 72.727 55 14 1 101 155 65 118 3.72e-21 85.1

Find 38 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTGAACTGGTTGGTGAATT+TGG 0.207087 5:+42530075 None:intergenic
CCATGGTAACTTTCTCTTCA+TGG 0.253602 5:+42531850 None:intergenic
ACAACAAATGGCGGTGGTCT+AGG 0.360978 5:+42530829 None:intergenic
TGCTTACGTTTGACAACAAA+TGG 0.370125 5:+42530817 None:intergenic
CAACAAATGGCGGTGGTCTA+GGG 0.442200 5:+42530830 None:intergenic
TTTAGTTGCAGAAATTGAAC+TGG 0.447192 5:+42530062 None:intergenic
GGAAGACGGTGCTTCTTCTC+AGG 0.456267 5:+42530634 None:intergenic
ATTGCACTTACTTCATGAAA+CGG 0.472131 5:+42530599 None:intergenic
TGATCACACCCTCAGTCTCC+AGG 0.486490 5:-42531397 MsaT027329.1:intron
CAACTTTATCACAGTGGGCT+AGG 0.506444 5:-42530104 MsaT027329.1:intron
AGAGAAAGTTACCATGGACT+TGG 0.516644 5:-42531844 MsaT027329.1:CDS
CACTGAAAGCTTCTCGATGT+GGG 0.523718 5:+42530330 None:intergenic
TTTGGAACTTGGTGGTCTTG+TGG 0.524145 5:+42531431 None:intergenic
GCTTCTCGATGTGGGATCTG+AGG 0.524810 5:+42530338 None:intergenic
CTTCTCGATGTGGGATCTGA+GGG 0.529903 5:+42530339 None:intergenic
ATGAAACGGTTGTATGCAGA+TGG 0.547267 5:+42530613 None:intergenic
GCACTGAAAGCTTCTCGATG+TGG 0.561704 5:+42530329 None:intergenic
TCGATGTGGGATCTGAGGGT+TGG 0.564009 5:+42530343 None:intergenic
AAGAATGAACCTGGAGACTG+AGG 0.579773 5:+42531388 None:intergenic
TAACAAAGGTGTTGATCAGA+TGG 0.588546 5:+42531816 None:intergenic
AGTGACTCAGTTGATGTAGT+TGG 0.590905 5:+42530856 None:intergenic
GTTGCAGAAATTGAACTGGT+TGG 0.594902 5:+42530066 None:intergenic
AACAAATGGCGGTGGTCTAG+GGG 0.595027 5:+42530831 None:intergenic
GTTGGTGAAGAAGAAGATGA+TGG 0.609575 5:+42530874 None:intergenic
CGTTTGACAACAAATGGCGG+TGG 0.615312 5:+42530823 None:intergenic
TTCTGCAACTAAAAGAAACA+TGG 0.625760 5:-42530052 MsaT027329.1:intron
AGATGGTGGAACCAAGTCCA+TGG 0.626957 5:+42531833 None:intergenic
CCATGAAGAGAAAGTTACCA+TGG 0.629385 5:-42531850 MsaT027329.1:CDS
GTATCTAGCAGCCTCTTGCA+TGG 0.634316 5:+42531498 None:intergenic
CAAAGGTGTTGATCAGATGG+TGG 0.641754 5:+42531819 None:intergenic
GGTTGTATGCAGATGGAAGA+CGG 0.643999 5:+42530620 None:intergenic
AGAATGAACCTGGAGACTGA+GGG 0.648884 5:+42531389 None:intergenic
GTGAAGAAGAAGATGATGGT+TGG 0.655028 5:+42530878 None:intergenic
AGTTGCAACGAACGTAACAA+AGG 0.660534 5:+42531802 None:intergenic
AGGTTGGCATACCATGCAAG+AGG 0.666035 5:-42531509 MsaT027329.1:CDS
TTACGTTTGACAACAAATGG+CGG 0.678472 5:+42530820 None:intergenic
GATACTGTGACAGTGAAGTG+TGG 0.709816 5:-42531480 MsaT027329.1:CDS
GTCTTGTGGTGAGAAAAGAG+AGG 0.744847 5:+42531445 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 42529951 42531877 42529951 ID=MsaG027329
Chr5 mRNA 42529951 42531877 42529951 ID=MsaT027329.1;Parent=MsaG027329
Chr5 exon 42529951 42529956 42529951 ID=MsaT027329.1.exon7;Parent=MsaT027329.1
Chr5 CDS 42529951 42529956 42529951 ID=cds.MsaT027329.1;Parent=MsaT027329.1
Chr5 exon 42530053 42530112 42530053 ID=MsaT027329.1.exon6;Parent=MsaT027329.1
Chr5 CDS 42530053 42530112 42530053 ID=cds.MsaT027329.1;Parent=MsaT027329.1
Chr5 exon 42530316 42530391 42530316 ID=MsaT027329.1.exon5;Parent=MsaT027329.1
Chr5 CDS 42530316 42530391 42530316 ID=cds.MsaT027329.1;Parent=MsaT027329.1
Chr5 exon 42530610 42530658 42530610 ID=MsaT027329.1.exon4;Parent=MsaT027329.1
Chr5 CDS 42530610 42530658 42530610 ID=cds.MsaT027329.1;Parent=MsaT027329.1
Chr5 exon 42530824 42530923 42530824 ID=MsaT027329.1.exon3;Parent=MsaT027329.1
Chr5 CDS 42530824 42530923 42530824 ID=cds.MsaT027329.1;Parent=MsaT027329.1
Chr5 exon 42531398 42531529 42531398 ID=MsaT027329.1.exon2;Parent=MsaT027329.1
Chr5 CDS 42531398 42531529 42531398 ID=cds.MsaT027329.1;Parent=MsaT027329.1
Chr5 exon 42531782 42531877 42531782 ID=MsaT027329.1.exon1;Parent=MsaT027329.1
Chr5 CDS 42531782 42531877 42531782 ID=cds.MsaT027329.1;Parent=MsaT027329.1
Gene Sequence

>MsaT027329.1

ATGAACCATGAAGAGAAAGTTACCATGGACTTGGTTCCACCATCTGATCAACACCTTTGTTACGTTCGTTGCAACTTCTGTAACACTATCCTAGCTGTTGGCATACCATGCAAGAGGCTGCTAGATACTGTGACAGTGAAGTGTGGTCACTGCAGCAACCTCTCTTTTCTCACCACAAGACCACCAAGTTCCAAAAATCAAACTGTTGATCACACCCTCAGTCTCCAGGGGATTTACAGTAGCAAAAAAGGCCAACCATCATCTTCTTCTTCACCAACTACATCAACTGAGTCACTGTCCCCTAGACCACCGCCATTTGTTGTCAAACCACCTGAGAAGAAGCACCGTCTTCCATCTGCATACAACCGTTTCATGAAAGAGGAGATACAGCGCATCAAAGTAGCCAACCCTCAGATCCCACATCGAGAAGCTTTCAGTGCTGCTGCCAAAAATTGGGCTAGGTACATACCAAATTCACCAACCAGTTCAATTTCTGCAACTAAAAGAAACATGGAATGA
Protein sequence

>MsaT027329.1

MNHEEKVTMDLVPPSDQHLCYVRCNFCNTILAVGIPCKRLLDTVTVKCGHCSNLSFLTTRPPSSKNQTVDHTLSLQGIYSSKKGQPSSSSSPTTSTESLSPRPPPFVVKPPEKKHRLPSAYNRFMKEEIQRIKVANPQIPHREAFSAAAKNWARYIPNSPTSSISATKRNME*