AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG007351


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG007351 MtrunA17_Chr1g0161031 50.909 330 123 6 17 328 27 335 2.43e-96 289
MsaG007351 MtrunA17_Chr6g0478581 33.509 379 173 14 19 331 31 396 4.30e-44 156
MsaG007351 MtrunA17_Chr2g0301131 36.478 159 68 5 174 327 110 240 3.90e-16 77.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG007351 AT3G17860.2 34.167 360 162 17 9 332 6 326 2.40e-32 123
MsaG007351 AT3G17860.1 34.393 346 153 16 22 332 33 339 8.27e-32 122
MsaG007351 AT3G17860.3 34.402 343 151 16 25 332 3 306 3.23e-31 120
MsaG007351 AT3G17860.4 34.402 343 151 16 25 332 3 306 3.23e-31 120
MsaG007351 AT1G70700.2 35.652 230 89 8 91 320 50 220 2.99e-22 94.0
MsaG007351 AT1G70700.1 38.136 236 99 8 91 320 50 244 3.92e-22 94.4
MsaG007351 AT1G48500.1 31.935 310 156 13 25 329 34 293 1.13e-21 94.0
MsaG007351 AT1G70700.3 36.283 226 103 8 91 313 50 237 1.25e-18 84.7
MsaG007351 AT1G48500.3 31.058 293 148 13 25 313 4 246 1.47e-16 78.6
MsaG007351 AT1G48500.2 31.058 293 148 13 25 313 34 276 2.38e-16 78.6
MsaG007351 AT5G20900.1 28.025 157 75 3 164 320 45 163 5.96e-11 61.2

Find 92 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATTTCTTGTTAATGTTATA+TGG 0.220633 2:+16803711 None:intergenic
TGAAACTGTATTAGCTTGAT+TGG 0.288636 2:+16805132 None:intergenic
TAGTAAAATTACTACGATTC+AGG 0.303233 2:+16804965 None:intergenic
ACATCATGTTGTACAGGATA+TGG 0.307686 2:+16805172 None:intergenic
TCCTGAGTGTTTAATTTCAT+TGG 0.307696 2:-16806502 MsaT007351.1:CDS
GAGGAGGCTGGTGCATTTGC+AGG 0.320510 2:+16804326 None:intergenic
AGCAGATACTTTGTTGGAAA+AGG 0.357605 2:+16805853 None:intergenic
CATAAAACCAGCAGATGTTA+TGG 0.358564 2:+16805769 None:intergenic
CATATGAAGCTGCCACTACT+TGG 0.361235 2:-16805049 MsaT007351.1:CDS
AGTATGCGATGAAATAGATA+TGG 0.369654 2:+16804289 None:intergenic
GGAGGCTCGGCATTGCTAAC+AGG 0.384286 2:+16804191 None:intergenic
TTTAACTGCGAGAAATTCAT+TGG 0.399647 2:+16804235 None:intergenic
GTTGGTTGAGGCGATGTAAC+AGG 0.403409 2:+16805019 None:intergenic
TTACTAGAGTCAAATGCATC+TGG 0.407534 2:+16805743 None:intergenic
TGTAGGCTTCACAAAGGGTT+CGG 0.418966 2:-16805888 MsaT007351.1:intron
CTCAGGAATGTTTGCATGCA+TGG 0.420076 2:+16806518 None:intergenic
TTTCTCGCAGTTAAAACAAC+TGG 0.425409 2:-16804227 MsaT007351.1:CDS
AAGATGGTAAGTTGGGAAGA+AGG 0.425596 2:+16804834 None:intergenic
CATAGCACAGACAGAACTTC+AGG 0.434059 2:-16804378 MsaT007351.1:CDS
CGCATAGAAGATGGTAAGTT+GGG 0.437429 2:+16804827 None:intergenic
TAGAAATCTTTCAATCATGA+TGG 0.440350 2:-16805223 MsaT007351.1:CDS
GGCACAAGCTATCCTGTTGT+TGG 0.441454 2:-16804429 MsaT007351.1:CDS
GCCATTACCATGCTGGCGTC+AGG 0.443156 2:-16804155 MsaT007351.1:intron
GTAGGCTTCACAAAGGGTTC+GGG 0.445204 2:-16805887 MsaT007351.1:intron
CACCATTCCTAGCCAACAAC+AGG 0.452637 2:+16804417 None:intergenic
ATATCTATTTCATCGCATAC+TGG 0.462263 2:-16804287 MsaT007351.1:CDS
GCAAATGCACCAGCCTCCTC+TGG 0.467713 2:-16804323 MsaT007351.1:CDS
CCCACCATTGGTGCCGTCGT+TGG 0.469756 2:-16804992 MsaT007351.1:CDS
TGAGTGTTTAATTTCATTGG+TGG 0.469768 2:-16806499 MsaT007351.1:CDS
GCAGATACTTTGTTGGAAAA+GGG 0.473482 2:+16805854 None:intergenic
TCGCATACTGGTGCACAGTC+AGG 0.473936 2:-16804275 MsaT007351.1:CDS
ATAAAACCAGCAGATGTTAT+GGG 0.478111 2:+16805770 None:intergenic
ATATGAAGCTGCCACTACTT+GGG 0.478655 2:-16805048 MsaT007351.1:CDS
TCTGATCCCATAACATCTGC+TGG 0.481214 2:-16805776 MsaT007351.1:CDS
ACCTGACGCCAGCATGGTAA+TGG 0.485087 2:+16804154 None:intergenic
GCCGTTACAAAATGATTCCT+CGG 0.488198 2:+16805094 None:intergenic
GTAATGGCATCGATTACTCT+TGG 0.489598 2:+16804170 None:intergenic
AAGAGAGATACCTTGTCGGC+AGG 0.494472 2:+16804777 None:intergenic
AGTTGGGAAGAAGGCAGAGA+TGG 0.495544 2:+16804843 None:intergenic
TCAGGCTCGGAAAGCATCCT+TGG 0.496291 2:-16803976 MsaT007351.1:CDS
AGAAATCTTTCAATCATGAT+GGG 0.503355 2:-16805222 MsaT007351.1:CDS
AAGCTATCCTGTTGTTGGCT+AGG 0.504599 2:-16804424 MsaT007351.1:CDS
ATCGATTACTCTTGGAGGCT+CGG 0.505842 2:+16804178 None:intergenic
CAACTTACCATCTTCTATGC+GGG 0.506683 2:-16804825 MsaT007351.1:CDS
TCCAACGACGGCACCAATGG+TGG 0.507504 2:+16804991 None:intergenic
ATCTTCACATCATGTTGTAC+AGG 0.507813 2:+16805166 None:intergenic
GGCATTGCTAACAGGAGTGA+TGG 0.514325 2:+16804199 None:intergenic
TATGAAGCTGCCACTACTTG+GGG 0.520183 2:-16805047 MsaT007351.1:CDS
CAACCAACTCTTCCCACCAT+TGG 0.522868 2:-16805004 MsaT007351.1:CDS
CCGCATAGAAGATGGTAAGT+TGG 0.523235 2:+16804826 None:intergenic
ATCCTGTTGTTGGCTAGGAA+TGG 0.530502 2:-16804419 MsaT007351.1:CDS
AACAAAGAGAGATACCTTGT+CGG 0.533016 2:+16804773 None:intergenic
CCGTTACAAAATGATTCCTC+GGG 0.539326 2:+16805095 None:intergenic
AAAACTCTCTGCTGAACCGC+AGG 0.539979 2:-16805720 MsaT007351.1:intron
CTCACGAGCACACCGTCACC+AGG 0.542238 2:+16804353 None:intergenic
TGGTTGAGCAGATACTTTGT+TGG 0.544131 2:+16805847 None:intergenic
GCACCAATGGTGGGAAGAGT+TGG 0.549558 2:+16805001 None:intergenic
GACGGTACCCGCATAGAAGA+TGG 0.552065 2:+16804818 None:intergenic
AGAGAGATACCTTGTCGGCA+GGG 0.552823 2:+16804778 None:intergenic
ACGGCTGGTCAGAATATGAA+TGG 0.552877 2:-16805076 MsaT007351.1:CDS
CTTGGATGACCAGAGGAGGC+TGG 0.553563 2:+16804314 None:intergenic
ATGCAGCGATACCTCAGGCT+CGG 0.560553 2:-16803989 MsaT007351.1:intron
ATGGCATCGATTACTCTTGG+AGG 0.566283 2:+16804173 None:intergenic
GATGTCATTGAAAACATTGA+CGG 0.568358 2:+16804800 None:intergenic
CATTCCAACGACGGCACCAA+TGG 0.572081 2:+16804988 None:intergenic
AATCGATGCCATTACCATGC+TGG 0.572186 2:-16804162 MsaT007351.1:CDS
ACCAATGAAATTAAACACTC+AGG 0.574760 2:+16806501 None:intergenic
CAGACAGAACTTCAGGCACC+TGG 0.577240 2:-16804371 MsaT007351.1:CDS
ACTGGTGCACAGTCAGGCAG+TGG 0.578273 2:-16804269 MsaT007351.1:CDS
GTATGCGATGAAATAGATAT+GGG 0.584760 2:+16804290 None:intergenic
CAATGACATCCCTGCCGACA+AGG 0.588647 2:-16804787 MsaT007351.1:intron
GAACTTCAGGCACCTGGTGA+CGG 0.589320 2:-16804365 MsaT007351.1:CDS
GCATTGCTAACAGGAGTGAT+GGG 0.603727 2:+16804200 None:intergenic
TTCTAGAAAAGCGCAAGGAG+AGG 0.607349 2:-16803947 MsaT007351.1:intron
GGCTAGGAATGGTGTATCAG+TGG 0.612360 2:-16804408 MsaT007351.1:CDS
GATGAAATAGATATGGGACT+TGG 0.616222 2:+16804296 None:intergenic
TCTTTCAATCATGATGGGCA+AGG 0.623986 2:-16805217 MsaT007351.1:CDS
CCAACGACGGCACCAATGGT+GGG 0.628134 2:+16804992 None:intergenic
CAGCATACCTGACGCCAGCA+TGG 0.631084 2:+16804148 None:intergenic
ACCTCAAAAGACATCAAATG+TGG 0.632234 2:+16805827 None:intergenic
CATTGACGAACTCATTCCCG+AGG 0.632457 2:-16805111 MsaT007351.1:CDS
AAGGATGCTTTCCGAGCCTG+AGG 0.641286 2:+16803978 None:intergenic
TTCAATCATGATGGGCAAGG+TGG 0.642760 2:-16805214 MsaT007351.1:CDS
CGATTCAGGCATTCCAACGA+CGG 0.643026 2:+16804979 None:intergenic
GTATGTGTAGGCTTCACAAA+GGG 0.645767 2:-16805893 MsaT007351.1:intron
CAAAGGGTTCGGGTGCACAA+TGG 0.652681 2:-16805877 MsaT007351.1:CDS
GGTATGTGTAGGCTTCACAA+AGG 0.665915 2:-16805894 MsaT007351.1:intron
ATGAAGCTGCCACTACTTGG+GGG 0.671873 2:-16805046 MsaT007351.1:CDS
CCAACTTACCATCTTCTATG+CGG 0.674088 2:-16804826 MsaT007351.1:CDS
GGGACTTGGATGACCAGAGG+AGG 0.679930 2:+16804310 None:intergenic
TATGGGACTTGGATGACCAG+AGG 0.694039 2:+16804307 None:intergenic
ATGGTGGGAAGAGTTGGTTG+AGG 0.716568 2:+16805007 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 16803689 16806538 16803689 ID=MsaG007351
Chr2 mRNA 16803689 16806538 16803689 ID=MsaT007351.1;Parent=MsaG007351
Chr2 exon 16803689 16803749 16803689 ID=MsaT007351.1.exon7;Parent=MsaT007351.1
Chr2 CDS 16803689 16803749 16803689 ID=cds.MsaT007351.1;Parent=MsaT007351.1
Chr2 exon 16803948 16804005 16803948 ID=MsaT007351.1.exon6;Parent=MsaT007351.1
Chr2 CDS 16803948 16804005 16803948 ID=cds.MsaT007351.1;Parent=MsaT007351.1
Chr2 exon 16804156 16804450 16804156 ID=MsaT007351.1.exon5;Parent=MsaT007351.1
Chr2 CDS 16804156 16804450 16804156 ID=cds.MsaT007351.1;Parent=MsaT007351.1
Chr2 exon 16804788 16804875 16804788 ID=MsaT007351.1.exon4;Parent=MsaT007351.1
Chr2 CDS 16804788 16804875 16804788 ID=cds.MsaT007351.1;Parent=MsaT007351.1
Chr2 exon 16804977 16805242 16804977 ID=MsaT007351.1.exon3;Parent=MsaT007351.1
Chr2 CDS 16804977 16805242 16804977 ID=cds.MsaT007351.1;Parent=MsaT007351.1
Chr2 exon 16805721 16805905 16805721 ID=MsaT007351.1.exon2;Parent=MsaT007351.1
Chr2 CDS 16805721 16805905 16805721 ID=cds.MsaT007351.1;Parent=MsaT007351.1
Chr2 exon 16806493 16806538 16806493 ID=MsaT007351.1.exon1;Parent=MsaT007351.1
Chr2 CDS 16806493 16806538 16806493 ID=cds.MsaT007351.1;Parent=MsaT007351.1
Gene Sequence

>MsaT007351.1

ATGCATGCAAACATTCCTGAGTGTTTAATTTCATTGGTGGAACTAAGCTTCACAAAGGGTTCGGGTGCACAATGGCCCTTTTCCAACAAAGTATCTGCTCAACCACATTTGATGTCTTTTGAGGTTTCTCAAGATGATAATACTAAGATCTTATCTGATCCCATAACATCTGCTGGTTTTATGACTCCAGATGCATTTGACTCTAGTAAAAAACTCTCTGCTGAACCGCAGAAATCTTTCAATCATGATGGGCAAGGTGGCTTTCACTTTTCACTTATTCCATATCCTGTACAACATGATGTGAAGATGTTTTCACTTTCCAATCAAGCTAATACAGTTTCATTGACGAACTCATTCCCGAGGAATCATTTTGTAACGGCTGGTCAGAATATGAATGGTAATCATATGAAGCTGCCACTACTTGGGGGAATACCTGTTACATCGCCTCAACCAACTCTTCCCACCATTGGTGCCGTCGTTGGAATGCCTGAATCGTACAATGTGAAACCATCTCTGCCTTCTTCCCAACTTACCATCTTCTATGCGGGTACCGTCAATGTTTTCAATGACATCCCTGCCGACAAGGCACAAGCTATCCTGTTGTTGGCTAGGAATGGTGTATCAGTGGCTTCTAACATAGCACAGACAGAACTTCAGGCACCTGGTGACGGTGTGCTCGTGAGTCAACCTGCAAATGCACCAGCCTCCTCTGGTCATCCAAGTCCCATATCTATTTCATCGCATACTGGTGCACAGTCAGGCAGTGGCTCAACTAGCACCAATGAATTTCTCGCAGTTAAAACAACTGGTGTTCCCATCACTCCTGTTAGCAATGCCGAGCCTCCAAGAGTAATCGATGCCATTACCATGCTGGCGTCAGCGATACCTCAGGCTCGGAAAGCATCCTTGGCTCGTTTTCTAGAAAAGCGCAAGGAGAGGGTGATGAATGCAGCACCATATAACATTAACAAGAAATCTGAAGAGTGTACTTCATCATAA

Protein sequence

>MsaT007351.1

MHANIPECLISLVELSFTKGSGAQWPFSNKVSAQPHLMSFEVSQDDNTKILSDPITSAGFMTPDAFDSSKKLSAEPQKSFNHDGQGGFHFSLIPYPVQHDVKMFSLSNQANTVSLTNSFPRNHFVTAGQNMNGNHMKLPLLGGIPVTSPQPTLPTIGAVVGMPESYNVKPSLPSSQLTIFYAGTVNVFNDIPADKAQAILLLARNGVSVASNIAQTELQAPGDGVLVSQPANAPASSGHPSPISISSHTGAQSGSGSTSTNEFLAVKTTGVPITPVSNAEPPRVIDAITMLASAIPQARKASLARFLEKRKERVMNAAPYNINKKSEECTSS*