AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG007831

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG007831 MtrunA17_Chr2g0296791 97.840 463 10 0 13 475 18 480 0.0 947
MsaG007831 MtrunA17_Chr4g0042701 24.883 426 244 18 90 474 80 470 8.14e-15 76.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG007831 AT4G20130.1 71.648 455 126 3 23 475 30 483 0.0 687
MsaG007831 AT4G20130.3 73.425 365 96 1 111 475 1 364 0.0 580
MsaG007831 AT4G20130.2 73.425 365 96 1 111 475 1 364 0.0 580

Find 101 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTGAATTACCTAACAGTTTC+TGG 0.135526 2:-23385546 None:intergenic
CCATGGTAATTTCTTGCTTA+TGG 0.197935 2:-23382183 None:intergenic
ATTGATTGAATGTTCTTAAA+TGG 0.210954 2:+23380703 None:intergenic
GAAGCTGTTTCATCATCTTT+AGG 0.257907 2:-23381278 None:intergenic
TTGTCAGTCTTCAACATATC+TGG 0.279113 2:+23385214 MsaT007831.1:CDS
GTATATCTAGGAGGAACTTT+TGG 0.297229 2:+23382712 MsaT007831.1:intron
CAGTTTCTGGTCTTGCTTAG+AGG 0.304127 2:-23385533 None:intergenic
GTCCGAAGTATGCGAGCTTA+TGG 0.311545 2:+23381953 MsaT007831.1:CDS
AAGGAAGGGCCAAATGGTTT+TGG 0.316532 2:+23381986 MsaT007831.1:CDS
AACAACGAGCGTTAGAATTC+TGG 0.322289 2:+23382777 MsaT007831.1:CDS
TGACCAAGGGGAATTATATC+AGG 0.327820 2:-23382215 None:intergenic
TTCAAGAGTTCTCGTAGCTT+CGG 0.331867 2:-23386062 None:intergenic
TTCCTTTCTTCACTTGGGAT+TGG 0.339331 2:-23385454 None:intergenic
TGAACTTGGGCAGGTTATAA+TGG 0.358603 2:+23382136 MsaT007831.1:intron
GCAGCCTTCCTTTCTTCACT+TGG 0.361561 2:-23385460 None:intergenic
TAGAATTCTGGGAGAAGAAC+TGG 0.366779 2:+23382789 MsaT007831.1:CDS
TGGCGACCCACTTACTCGTT+TGG 0.373384 2:+23381182 MsaT007831.1:CDS
TTGACTGCAAAGACAACTTT+TGG 0.380436 2:+23382502 MsaT007831.1:CDS
AATCTTTGTGGCAGACAGAT+TGG 0.384792 2:+23382445 MsaT007831.1:intron
GTTTCAACAGAAGCTTTAAC+AGG 0.387453 2:-23381230 None:intergenic
AGGCAATGCACGAATCCATT+TGG 0.393759 2:+23385183 MsaT007831.1:CDS
ACTTAAATATGCAGAATCCT+TGG 0.397663 2:+23385143 MsaT007831.1:intron
AATCCTATCTTGTAGAAATC+AGG 0.398262 2:-23381929 None:intergenic
GATCCTGATTTCTACAAGAT+AGG 0.398743 2:+23381926 MsaT007831.1:CDS
CCGTTACGATAATACTCTTC+AGG 0.400533 2:-23385241 None:intergenic
TTGATTGAATGTTCTTAAAT+GGG 0.403341 2:+23380704 None:intergenic
CTTTCTTCACTTGGGATTGG+AGG 0.404062 2:-23385451 None:intergenic
CAGAAAATTGCTAATGGAAA+AGG 0.406976 2:+23386252 MsaT007831.1:CDS
AAGCAAGACCAGAAACTGTT+AGG 0.413582 2:+23385538 MsaT007831.1:CDS
TGTTCTTAAATGGGTTAAGT+AGG 0.417863 2:+23380713 MsaT007831.1:CDS
ATCTTTGTGGCAGACAGATT+GGG 0.429709 2:+23382446 MsaT007831.1:intron
GAGGCTGAAACAAGGGAAAT+GGG 0.430134 2:-23381256 None:intergenic
GAGTTGATAATATCAAATAT+TGG 0.430427 2:-23382239 None:intergenic
CTTAAATATGCAGAATCCTT+GGG 0.431199 2:+23385144 MsaT007831.1:intron
TCAAGAGTTCTCGTAGCTTC+GGG 0.432228 2:-23386061 None:intergenic
ATTGCACAGAAAATTGCTAA+TGG 0.432867 2:+23386246 MsaT007831.1:CDS
CTTGAGGTTCTTATAAATGC+TGG 0.434356 2:+23383286 MsaT007831.1:CDS
GGAGGCTGAAACAAGGGAAA+TGG 0.441003 2:-23381257 None:intergenic
CAGCCTTCCTTTCTTCACTT+GGG 0.444382 2:-23385459 None:intergenic
GCTAGTACTTTCATCTGCAC+TGG 0.452982 2:-23382547 None:intergenic
TTCCCTGATATAATTCCCCT+TGG 0.459258 2:+23382212 MsaT007831.1:CDS
TTGTAGAAATCAGGATCTAC+AGG 0.465598 2:-23381920 None:intergenic
CTCCATAAGCTCGCATACTT+CGG 0.475886 2:-23381955 None:intergenic
ACTGCCCACATGAACCTTTG+AGG 0.479039 2:-23382948 None:intergenic
GTTTGCGCCATGGTTATTTG+TGG 0.479861 2:+23381162 MsaT007831.1:CDS
ACAACGAGCGTTAGAATTCT+GGG 0.481989 2:+23382778 MsaT007831.1:CDS
GAACAAAGCTTACCAGCATA+AGG 0.490671 2:-23383047 None:intergenic
AACAATTTGGCTCAAACGAA+TGG 0.492685 2:-23383234 None:intergenic
CTGACAAGAAAGAATCCAAA+TGG 0.492742 2:-23385198 None:intergenic
GCATATACACCAAAACCATT+TGG 0.494211 2:-23381995 None:intergenic
TCTCATTGTAGAAGCAAGAT+CGG 0.504225 2:-23382747 None:intergenic
TGGGATGTGATCAAATTCTC+AGG 0.506817 2:+23385163 MsaT007831.1:CDS
ATCAAATATTGGATGACCAA+GGG 0.508658 2:-23382228 None:intergenic
CTCCAATCCCAAGTGAAGAA+AGG 0.512257 2:+23385452 MsaT007831.1:CDS
TCTTTAGGAGGCTGAAACAA+GGG 0.516914 2:-23381263 None:intergenic
GGAAAAGGTTATCCTAGCAT+TGG 0.517530 2:+23386267 MsaT007831.1:CDS
CAGTTCAAAGGTTTGCGCCA+TGG 0.522935 2:+23381152 MsaT007831.1:intron
GTTAATCTTGTTCAGCATAG+TGG 0.526606 2:+23382891 MsaT007831.1:intron
TGCTGGACAACGGATAAGAA+AGG 0.527485 2:+23383303 MsaT007831.1:CDS
CTCATTGTAGAAGCAAGATC+GGG 0.528009 2:-23382746 None:intergenic
TTACTTTCTAAACAGTTCAA+AGG 0.544119 2:+23381140 MsaT007831.1:intron
CTTGATAGATCTCCAATGCT+AGG 0.544253 2:-23386279 None:intergenic
TCGAACCTCTTCGCCGACCA+AGG 0.545300 2:+23382029 MsaT007831.1:CDS
AATATGCTGATTCCTTATGC+TGG 0.547916 2:+23383035 MsaT007831.1:CDS
CAAAGGTTCATGTGGGCAGT+AGG 0.553144 2:+23382951 MsaT007831.1:CDS
GCAGAAGTTCTATCGAGCAC+TGG 0.557263 2:+23385358 MsaT007831.1:intron
CAGCACGAACATTGCCAACA+TGG 0.557449 2:+23385413 MsaT007831.1:CDS
GCTGTTTCATCATCTTTAGG+AGG 0.562065 2:-23381275 None:intergenic
GCTGGACAACGGATAAGAAA+GGG 0.563259 2:+23383304 MsaT007831.1:CDS
AGATGATGAAACAGCTTCTG+AGG 0.564802 2:+23381283 MsaT007831.1:CDS
CTCACCCTTGGTCGGCGAAG+AGG 0.565363 2:-23382034 None:intergenic
GACATGTTAATGCAAAGATA+CGG 0.568057 2:+23384704 MsaT007831.1:CDS
CTAGTACTTTCATCTGCACT+GGG 0.569363 2:-23382546 None:intergenic
TCCTGTCCTTAAAACGCCAA+TGG 0.569618 2:-23383261 None:intergenic
GTTAAGTAGGTTTCTGCAAG+TGG 0.571411 2:+23380726 MsaT007831.1:CDS
TTTCTGGTCTTGCTTAGAGG+TGG 0.573797 2:-23385530 None:intergenic
GTGATCCTCAAAGGTTCATG+TGG 0.575415 2:+23382943 MsaT007831.1:CDS
GAGAATTTGATCACATCCCA+AGG 0.578387 2:-23385160 None:intergenic
GTCTTGCTCGTGATCCTCAA+AGG 0.578672 2:+23382934 MsaT007831.1:CDS
ATCTTTAGGAGGCTGAAACA+AGG 0.580488 2:-23381264 None:intergenic
TATCAAATATTGGATGACCA+AGG 0.581735 2:-23382229 None:intergenic
AGTCAAATGAAAACAAGAGA+AGG 0.583863 2:-23382485 None:intergenic
AATCCCAAGTGAAGAAAGGA+AGG 0.592614 2:+23385456 MsaT007831.1:CDS
CCTGAAGAGTATTATCGTAA+CGG 0.595528 2:+23385241 MsaT007831.1:CDS
ATGGTTAGCATCAATTCAAG+AGG 0.596700 2:-23382164 None:intergenic
CGAACCTCTTCGCCGACCAA+GGG 0.606118 2:+23382030 MsaT007831.1:CDS
GACCAAGGGGAATTATATCA+GGG 0.608421 2:-23382214 None:intergenic
TGAGGCTACTCACCCTTGGT+CGG 0.610693 2:-23382042 None:intergenic
AGGCTGAAACAAGGGAAATG+GGG 0.620587 2:-23381255 None:intergenic
TCAAATATTGGATGACCAAG+GGG 0.620822 2:-23382227 None:intergenic
ACATTGCCAACATGGTCAGA+TGG 0.621351 2:+23385421 MsaT007831.1:CDS
AGAATTCTGGGAGAAGAACT+GGG 0.626608 2:+23382790 MsaT007831.1:CDS
TTCTTATAAATGCTGGACAA+CGG 0.630290 2:+23383293 MsaT007831.1:CDS
ACATCTCCATCTGACCATGT+TGG 0.640415 2:-23385427 None:intergenic
TACGATAATACTCTTCAGGA+AGG 0.641879 2:-23385237 None:intergenic
ACGGATAAGAAAGGGAGATG+AGG 0.666436 2:+23383312 MsaT007831.1:CDS
TAGCTTACTTCTAGCTACAG+AGG 0.670222 2:+23382566 MsaT007831.1:CDS
TGATCCTCAAAGGTTCATGT+GGG 0.670337 2:+23382944 MsaT007831.1:CDS
CCATAAGCAAGAAATTACCA+TGG 0.675291 2:+23382183 MsaT007831.1:CDS
TATCAACTCAACAAATCCAG+AGG 0.680162 2:+23382253 MsaT007831.1:CDS
TGGGTCGCCACAAATAACCA+TGG 0.693090 2:-23381169 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 23380712 23386318 23380712 ID=MsaG007831
Chr2 mRNA 23380712 23386318 23380712 ID=MsaT007831.1;Parent=MsaG007831
Chr2 exon 23380712 23380747 23380712 ID=MsaT007831.1.exon1;Parent=MsaT007831.1
Chr2 CDS 23380712 23380747 23380712 ID=cds.MsaT007831.1;Parent=MsaT007831.1
Chr2 exon 23381155 23381304 23381155 ID=MsaT007831.1.exon2;Parent=MsaT007831.1
Chr2 CDS 23381155 23381304 23381155 ID=cds.MsaT007831.1;Parent=MsaT007831.1
Chr2 exon 23381914 23382051 23381914 ID=MsaT007831.1.exon3;Parent=MsaT007831.1
Chr2 CDS 23381914 23382051 23381914 ID=cds.MsaT007831.1;Parent=MsaT007831.1
Chr2 exon 23382149 23382274 23382149 ID=MsaT007831.1.exon4;Parent=MsaT007831.1
Chr2 CDS 23382149 23382274 23382149 ID=cds.MsaT007831.1;Parent=MsaT007831.1
Chr2 exon 23382459 23382587 23382459 ID=MsaT007831.1.exon5;Parent=MsaT007831.1
Chr2 CDS 23382459 23382587 23382459 ID=cds.MsaT007831.1;Parent=MsaT007831.1
Chr2 exon 23382722 23382811 23382722 ID=MsaT007831.1.exon6;Parent=MsaT007831.1
Chr2 CDS 23382722 23382811 23382722 ID=cds.MsaT007831.1;Parent=MsaT007831.1
Chr2 exon 23382906 23383056 23382906 ID=MsaT007831.1.exon7;Parent=MsaT007831.1
Chr2 CDS 23382906 23383056 23382906 ID=cds.MsaT007831.1;Parent=MsaT007831.1
Chr2 exon 23383224 23383333 23383224 ID=MsaT007831.1.exon8;Parent=MsaT007831.1
Chr2 CDS 23383224 23383333 23383224 ID=cds.MsaT007831.1;Parent=MsaT007831.1
Chr2 exon 23384671 23384742 23384671 ID=MsaT007831.1.exon9;Parent=MsaT007831.1
Chr2 CDS 23384671 23384742 23384671 ID=cds.MsaT007831.1;Parent=MsaT007831.1
Chr2 exon 23385157 23385262 23385157 ID=MsaT007831.1.exon10;Parent=MsaT007831.1
Chr2 CDS 23385157 23385262 23385157 ID=cds.MsaT007831.1;Parent=MsaT007831.1
Chr2 exon 23385362 23385559 23385362 ID=MsaT007831.1.exon11;Parent=MsaT007831.1
Chr2 CDS 23385362 23385559 23385362 ID=cds.MsaT007831.1;Parent=MsaT007831.1
Chr2 exon 23386053 23386095 23386053 ID=MsaT007831.1.exon12;Parent=MsaT007831.1
Chr2 CDS 23386053 23386095 23386053 ID=cds.MsaT007831.1;Parent=MsaT007831.1
Chr2 exon 23386240 23386318 23386240 ID=MsaT007831.1.exon13;Parent=MsaT007831.1
Chr2 CDS 23386240 23386318 23386240 ID=cds.MsaT007831.1;Parent=MsaT007831.1
Gene Sequence

>MsaT007831.1

ATGTTCTTAAATGGGTTAAGTAGGTTTCTGCAAGTGTTCAAAGGTTTGCGCCATGGTTATTTGTGGCGACCCACTTACTCGTTTGGTTTTTGTGCTGAAAACAAAGTACAACCTGTTAAAGCTTCTGTTGAAACTGCCCCATTTCCCTTGTTTCAGCCTCCTAAAGATGATGAAACAGCTTCTGAGTTGGAGCCTGTAGATCCTGATTTCTACAAGATAGGATTCGTCCGAAGTATGCGAGCTTATGGAGTTGATTTTAAGGAAGGGCCAAATGGTTTTGGTGTATATGCTTCTAAAGATGTCGAACCTCTTCGCCGACCAAGGGTTATAATGGAAATTCCTCTTGAATTGATGCTAACCATAAGCAAGAAATTACCATGGATGTTTTTCCCTGATATAATTCCCCTTGGTCATCCAATATTTGATATTATCAACTCAACAAATCCAGAGACAGATTGGGATTTACGATTAGCATGCCTTCTCTTGTTTTCATTTGACTGCAAAGACAACTTTTGGCAGTATTACGGCGATTTCTTACCCAGTGCAGATGAAAGTACTAGCTTACTTCTAGCTACAGAGGAGGAACTTTTGGAGCTGCAGGATCCCGATCTTGCTTCTACAATGAGAGTTCAGCAACAACGAGCGTTAGAATTCTGGGAGAAGAACTGGCATAGTGGTGCACCGCTCAAAGTAAAACGTCTTGCTCGTGATCCTCAAAGGTTCATGTGGGCAGTAGGAATTGCACAGTCACGATGTATCAACATGCAAATGAGAATGTGTGCACTAACTCAACAAGCGAATATGCTGATTCCTTATGCTGATATGCTGAACCATTCGTTTGAGCCAAATTGTTTTTTCCATTGGCGTTTTAAGGACAGGATGCTTGAGGTTCTTATAAATGCTGGACAACGGATAAGAAAGGGAGATGAGATGACAGTTGATTACATGAGCGCACAGAAGAACGACATGTTAATGCAAAGATACGGATTTTCATCGCCAGTGAATCCTTGGGATGTGATCAAATTCTCAGGCAATGCACGAATCCATTTGGATTCTTTCTTGTCAGTCTTCAACATATCTGGCCTTCCTGAAGAGTATTATCGTAACGAAGTTCTATCGAGCACTGGAGATACTTTTGTTGATGGAGCTGTCATAGCTGCAGCACGAACATTGCCAACATGGTCAGATGGAGATGTACCTCCAATCCCAAGTGAAGAAAGGAAGGCTGCGAAAGCATTACAACAAGAGTGCAAACAAATGCTTGCAGAATTCGCTACCACCTCTAAGCAAGACCAGAAACTGTTAGATTCATCACCCGAAGCTACGAGAACTCTTGAAGCTGCAATAAAGTATAGATTGCACAGAAAATTGCTAATGGAAAAGGTTATCCTAGCATTGGAGATCTATCAAGAGCAAATACTATTCTGA
Protein sequence

>MsaT007831.1

MFLNGLSRFLQVFKGLRHGYLWRPTYSFGFCAENKVQPVKASVETAPFPLFQPPKDDETASELEPVDPDFYKIGFVRSMRAYGVDFKEGPNGFGVYASKDVEPLRRPRVIMEIPLELMLTISKKLPWMFFPDIIPLGHPIFDIINSTNPETDWDLRLACLLLFSFDCKDNFWQYYGDFLPSADESTSLLLATEEELLELQDPDLASTMRVQQQRALEFWEKNWHSGAPLKVKRLARDPQRFMWAVGIAQSRCINMQMRMCALTQQANMLIPYADMLNHSFEPNCFFHWRFKDRMLEVLINAGQRIRKGDEMTVDYMSAQKNDMLMQRYGFSSPVNPWDVIKFSGNARIHLDSFLSVFNISGLPEEYYRNEVLSSTGDTFVDGAVIAAARTLPTWSDGDVPPIPSEERKAAKALQQECKQMLAEFATTSKQDQKLLDSSPEATRTLEAAIKYRLHRKLLMEKVILALEIYQEQILF*