AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG008305


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008305 MtrunA17_Chr2g0300621 94.684 301 13 1 4 304 1 298 0.0 592
MsaG008305 MtrunA17_Chr4g0073171 27.979 193 104 5 112 283 58 236 1.53e-11 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG008305 AT2G06025.1 56.522 299 116 3 4 302 1 285 1.56e-117 340
MsaG008305 AT2G06025.6 56.522 299 116 3 4 302 1 285 1.56e-117 340
MsaG008305 AT2G06025.4 56.522 299 116 3 4 302 1 285 1.56e-117 340
MsaG008305 AT2G06025.3 56.641 256 97 3 4 259 1 242 1.67e-99 292
MsaG008305 AT2G06025.5 56.641 256 97 3 4 259 1 242 1.67e-99 292
MsaG008305 AT2G06025.2 56.641 256 97 3 4 259 1 242 1.67e-99 292
MsaG008305 AT2G06025.7 53.604 222 89 3 4 225 1 208 1.62e-78 238
MsaG008305 AT4G28030.1 30.583 206 101 7 108 289 58 245 2.96e-13 68.9

Find 59 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAACCTTCTTCCACCAATTT+AGG 0.169798 2:-32231911 None:intergenic
AAGTCCAATTGTTCCTAAAT+TGG 0.216411 2:+32231898 MsaT008305.1:CDS
TCCTTGTCGACGAGCCAATT+TGG 0.274791 2:-32234025 None:intergenic
AAATTTATGTGTTGCCAAAT+TGG 0.283413 2:+32234011 MsaT008305.1:CDS
TGAAATTCAGGTTTATGAAT+TGG 0.285497 2:-32231569 None:intergenic
GTTTGATATGAATAGGTCTA+TGG 0.288131 2:+32231793 MsaT008305.1:intron
TAAAGTAAGATATGAAATTC+AGG 0.293568 2:-32231581 None:intergenic
GGTCCATGAGGATGTAATTT+TGG 0.303454 2:-32231636 None:intergenic
AGAGAAAATAGATTTGAGTT+TGG 0.303539 2:+32231989 MsaT008305.1:CDS
AAGCGGTGCAAGGTGCAAAA+TGG 0.311231 2:+32233533 MsaT008305.1:CDS
GAGAAAATAGATTTGAGTTT+GGG 0.321359 2:+32231990 MsaT008305.1:CDS
CAAAAGGAAATTTGCTGATC+AGG 0.341147 2:+32233403 MsaT008305.1:CDS
CTGTGCTTGATGAAGAGTTT+TGG 0.345709 2:+32232032 MsaT008305.1:CDS
CTGTTTATGCTGCAACAAAA+AGG 0.359050 2:-32233958 None:intergenic
TCCACCAATTTAGGAACAAT+TGG 0.361687 2:-32231902 None:intergenic
TTACCTCAAAGCCCATCTTT+TGG 0.365388 2:-32234220 None:intergenic
TTTGGTGCATTTGTAATTAT+GGG 0.370191 2:-32231618 None:intergenic
TGCAGACAGCAGCCTGGCTA+AGG 0.397087 2:+32232811 MsaT008305.1:intron
TCTCTCCTTGCAGCAAATAT+CGG 0.397446 2:-32233830 None:intergenic
GGCTAAGGGCAGAAAGTCAT+TGG 0.397544 2:+32232826 MsaT008305.1:CDS
AGCGGTGCAAGGTGCAAAAT+GGG 0.411100 2:+32233534 MsaT008305.1:CDS
TCATTTAGCAGGTGTGAGTC+AGG 0.439184 2:+32234151 MsaT008305.1:intron
ATGACTTTCTGCCCTTAGCC+AGG 0.443627 2:-32232823 None:intergenic
AGAACACCACCAAGTAGATA+TGG 0.454568 2:+32233979 MsaT008305.1:CDS
GTTCCTAAATTGGTGGAAGA+AGG 0.454847 2:+32231908 MsaT008305.1:CDS
GTTGAAAATGCAAAATCTAA+TGG 0.457985 2:+32234075 MsaT008305.1:CDS
AGTTTGGGCAATTTGTAGCT+AGG 0.464831 2:+32232005 MsaT008305.1:CDS
GTACCAAAAGATGGGCTTTG+AGG 0.468548 2:+32234217 MsaT008305.1:CDS
ACAGTTATTGTACCAAAAGA+TGG 0.478573 2:+32234208 MsaT008305.1:CDS
TCATGTTTATCAGGTGAGAA+AGG 0.487782 2:+32233746 MsaT008305.1:intron
TGAATTGGAATAGTTGACAT+AGG 0.492624 2:-32231554 None:intergenic
CGTAGCAAGTATGTTTCCTC+TGG 0.493901 2:-32234367 None:intergenic
GATATATTGATATCTACAAA+AGG 0.499748 2:+32233387 MsaT008305.1:intron
TGCATGTGGACAGAAATAAT+AGG 0.513457 2:+32234180 MsaT008305.1:CDS
CGAATGGTCTTCGATTTGAT+CGG 0.516980 2:+32231939 MsaT008305.1:CDS
GCCAAATTGGCTCGTCGACA+AGG 0.522479 2:+32234024 MsaT008305.1:CDS
TCCAATTGTTCCTAAATTGG+TGG 0.526623 2:+32231901 MsaT008305.1:CDS
GTGGACAGAAATAATAGGCC+TGG 0.530546 2:+32234185 MsaT008305.1:CDS
GCAATGTAACCATATCTACT+TGG 0.536879 2:-32233988 None:intergenic
GCACCAAAATTACATCCTCA+TGG 0.537776 2:+32231633 MsaT008305.1:CDS
CTAATCAACTCTTGTTCCGA+CGG 0.540516 2:-32231968 None:intergenic
ATTTGATCGGTTGCAGCCGT+CGG 0.545614 2:+32231952 MsaT008305.1:CDS
GTGCATTTGTAATTATGGGT+TGG 0.548458 2:-32231614 None:intergenic
GTTTGGGCAATTTGTAGCTA+GGG 0.550313 2:+32232006 MsaT008305.1:CDS
CAGTTATTGTACCAAAAGAT+GGG 0.552741 2:+32234209 MsaT008305.1:CDS
GCTAAGGGCAGAAAGTCATT+GGG 0.553474 2:+32232827 MsaT008305.1:CDS
GAAGAAGGTTTGAGCTCGAA+TGG 0.560918 2:+32231923 MsaT008305.1:CDS
TATTAAGAATAAGAAGATGA+AGG 0.572830 2:+32231853 MsaT008305.1:CDS
TGGTTGAAACTGCAAACTCT+CGG 0.577388 2:+32234338 MsaT008305.1:CDS
GCAGACAGCAGCCTGGCTAA+GGG 0.579446 2:+32232812 MsaT008305.1:intron
GGGAGAATCAAACATATGAA+AGG 0.580964 2:+32232847 MsaT008305.1:CDS
AATATCCGATATTTGCTGCA+AGG 0.586800 2:+32233825 MsaT008305.1:CDS
CAGCTGCGCATGCATTATCG+CGG 0.671835 2:+32233559 MsaT008305.1:CDS
AAACTCTCGGTTGTTACCAG+AGG 0.674396 2:+32234351 MsaT008305.1:CDS
ATGTAACCATATCTACTTGG+TGG 0.675557 2:-32233985 None:intergenic
GAGTCAGGTATATGTGCATG+TGG 0.676318 2:+32234166 MsaT008305.1:CDS
GCGGTGCAAGGTGCAAAATG+GGG 0.677118 2:+32233535 MsaT008305.1:CDS
TATTGTTTAGGAATTTAATG+CGG 0.686710 2:+32233505 MsaT008305.1:intron
AGAAACTTACATGGTCCATG+AGG 0.687429 2:-32231648 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 32231548 32234402 32231548 ID=MsaG008305
Chr2 mRNA 32231548 32234402 32231548 ID=MsaT008305.1;Parent=MsaG008305
Chr2 exon 32231548 32231660 32231548 ID=MsaT008305.1.exon1;Parent=MsaT008305.1
Chr2 CDS 32231548 32231660 32231548 ID=cds.MsaT008305.1;Parent=MsaT008305.1
Chr2 exon 32231808 32232054 32231808 ID=MsaT008305.1.exon2;Parent=MsaT008305.1
Chr2 CDS 32231808 32232054 32231808 ID=cds.MsaT008305.1;Parent=MsaT008305.1
Chr2 exon 32232816 32232868 32232816 ID=MsaT008305.1.exon3;Parent=MsaT008305.1
Chr2 CDS 32232816 32232868 32232816 ID=cds.MsaT008305.1;Parent=MsaT008305.1
Chr2 exon 32233388 32233424 32233388 ID=MsaT008305.1.exon4;Parent=MsaT008305.1
Chr2 CDS 32233388 32233424 32233388 ID=cds.MsaT008305.1;Parent=MsaT008305.1
Chr2 exon 32233515 32233580 32233515 ID=MsaT008305.1.exon5;Parent=MsaT008305.1
Chr2 CDS 32233515 32233580 32233515 ID=cds.MsaT008305.1;Parent=MsaT008305.1
Chr2 exon 32233759 32233863 32233759 ID=MsaT008305.1.exon6;Parent=MsaT008305.1
Chr2 CDS 32233759 32233863 32233759 ID=cds.MsaT008305.1;Parent=MsaT008305.1
Chr2 exon 32233943 32234096 32233943 ID=MsaT008305.1.exon7;Parent=MsaT008305.1
Chr2 CDS 32233943 32234096 32233943 ID=cds.MsaT008305.1;Parent=MsaT008305.1
Chr2 exon 32234162 32234238 32234162 ID=MsaT008305.1.exon8;Parent=MsaT008305.1
Chr2 CDS 32234162 32234238 32234162 ID=cds.MsaT008305.1;Parent=MsaT008305.1
Chr2 exon 32234337 32234402 32234337 ID=MsaT008305.1.exon9;Parent=MsaT008305.1
Chr2 CDS 32234337 32234402 32234337 ID=cds.MsaT008305.1;Parent=MsaT008305.1
Gene Sequence

>MsaT008305.1

ATGTCACCTATGTCAACTATTCCAATTCATAAACCTGAATTTCATATCTTACTTTATAATTCATCTCCAACCCATAATTACAAATGCACCAAAATTACATCCTCATGGACCATGTCTATGGATTCTAAATTTTCTTCAACAGTGAATAGTAGTAATGATATTAAGAATAAGAAGATGAAGGATGAACTTTCTGTGAAGCTTTCAAGTCCAATTGTTCCTAAATTGGTGGAAGAAGGTTTGAGCTCGAATGGTCTTCGATTTGATCGGTTGCAGCCGTCGGAACAAGAGTTGATTAGAGAAAATAGATTTGAGTTTGGGCAATTTGTAGCTAGGGAAGCTGTGCTTGATGAAGAGTTTTGGACAGCAGCCTGGCTAAGGGCAGAAAGTCATTGGGAGAATCAAACATATGAAAGATATATTGATATCTACAAAAGGAAATTTGCTGATCAGGAATTTAATGCGGTAAAAAAGCGGTGCAAGGTGCAAAATGGGGACAGCTGCGCATGCATTATCGCGGTGAGAAAGGAGCAGAAGAATGTAAAGCGCTCGATAATAAAAAGTGTTGTAGGAACACTTGACTTGAATATCCGATATTTGCTGCAAGGAGAGACTTTTCCTGGGGAACGAGACAAAACTCCTTTTTGTTGCAGCATAAACAGAACACCACCAAGTAGATATGGTTACATTGCAAATTTATGTGTTGCCAAATTGGCTCGTCGACAAGGAATTGCAAGCAACATGATGTCTTTTGCTGTTGAAAATGCAAAATCTAATGGTGTGAGTCAGGTATATGTGCATGTGGACAGAAATAATAGGCCTGGACAGTTATTGTACCAAAAGATGGGCTTTGAGATGGTTGAAACTGCAAACTCTCGGTTGTTACCAGAGGAAACATACTTGCTACGTTTACAGACGTAA

Protein sequence

>MsaT008305.1

MSPMSTIPIHKPEFHILLYNSSPTHNYKCTKITSSWTMSMDSKFSSTVNSSNDIKNKKMKDELSVKLSSPIVPKLVEEGLSSNGLRFDRLQPSEQELIRENRFEFGQFVAREAVLDEEFWTAAWLRAESHWENQTYERYIDIYKRKFADQEFNAVKKRCKVQNGDSCACIIAVRKEQKNVKRSIIKSVVGTLDLNIRYLLQGETFPGERDKTPFCCSINRTPPSRYGYIANLCVAKLARRQGIASNMMSFAVENAKSNGVSQVYVHVDRNNRPGQLLYQKMGFEMVETANSRLLPEETYLLRLQT*