AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024679

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024679 MtrunA17_Chr8g0392991 86.340 388 17 9 1 382 1 358 0.0 632
MsaG024679 MtrunA17_Chr8g0385441 83.750 160 10 4 1 158 1 146 1.06e-88 265
MsaG024679 MtrunA17_Chr3g0125111 81.875 160 11 3 1 158 1 144 5.12e-84 253
MsaG024679 MtrunA17_Chr4g0043891 36.700 297 130 8 92 382 6 250 2.74e-45 156
MsaG024679 MtrunA17_Chr7g0238431 74.627 67 17 0 92 158 6 72 2.33e-28 110
MsaG024679 MtrunA17_Chr4g0031341 63.636 77 26 1 94 170 25 99 5.13e-27 107
MsaG024679 MtrunA17_Chr1g0153171 73.846 65 17 0 92 156 88 152 8.24e-27 107
MsaG024679 MtrunA17_Chr5g0436661 71.429 63 18 0 94 156 33 95 5.04e-26 103
MsaG024679 MtrunA17_Chr5g0405351 70.769 65 18 1 92 155 28 92 2.14e-25 104
MsaG024679 MtrunA17_Chr7g0223471 50.000 62 31 0 94 155 47 108 7.75e-16 78.6
MsaG024679 MtrunA17_Chr2g0283141 50.000 62 31 0 94 155 55 116 1.44e-15 77.8
MsaG024679 MtrunA17_Chr7g0222981 36.170 94 60 0 94 187 68 161 2.91e-14 70.5
MsaG024679 MtrunA17_Chr1g0212511 39.506 81 47 1 94 172 85 165 9.95e-13 67.8
MsaG024679 MtrunA17_Chr3g0144021 42.623 61 35 0 94 154 82 142 3.02e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024679 AT3G18010.1 36.893 412 168 17 1 382 1 350 7.42e-61 200
MsaG024679 AT2G01500.1 56.604 106 37 3 46 148 16 115 5.56e-29 114
MsaG024679 AT2G28610.1 71.014 69 20 0 90 158 4 72 9.78e-29 112
MsaG024679 AT5G59340.1 61.905 84 30 1 87 170 7 88 4.88e-28 111
MsaG024679 AT3G11260.1 52.000 100 42 2 83 182 13 106 2.03e-26 104
MsaG024679 AT1G46480.2 70.769 65 19 0 92 156 88 152 2.28e-26 104
MsaG024679 AT1G46480.1 41.830 153 68 4 92 241 88 222 1.32e-25 104
MsaG024679 AT2G17950.1 69.697 66 19 1 91 155 35 100 1.30e-24 102
MsaG024679 AT5G05770.1 59.459 74 28 1 92 165 27 98 1.80e-23 94.7
MsaG024679 AT5G45980.1 35.294 119 68 2 94 212 55 164 1.67e-16 80.1
MsaG024679 AT2G33880.1 50.000 62 31 0 94 155 55 116 4.23e-15 76.6
MsaG024679 AT2G33880.2 50.000 62 31 0 94 155 55 116 4.43e-15 76.6
MsaG024679 AT4G35550.1 47.541 61 32 0 94 154 99 159 5.26e-13 68.9
MsaG024679 AT1G20700.2 33.684 95 59 1 94 184 33 127 1.52e-11 62.4
MsaG024679 AT1G20700.3 33.684 95 59 1 94 184 95 189 3.17e-11 62.8
MsaG024679 AT1G20700.1 33.684 95 59 1 94 184 95 189 3.57e-11 62.8
MsaG024679 AT3G03660.1 42.029 69 40 0 77 145 16 84 4.31e-11 63.5
MsaG024679 AT3G03660.2 42.029 69 40 0 77 145 16 84 5.73e-11 63.5
MsaG024679 AT3G03660.4 42.029 69 40 0 77 145 16 84 7.28e-11 63.2
MsaG024679 AT5G17810.3 45.455 55 30 0 91 145 18 72 8.66e-11 62.4
MsaG024679 AT5G17810.1 45.455 55 30 0 91 145 18 72 9.16e-11 62.4
MsaG024679 AT5G17810.2 45.455 55 30 0 91 145 18 72 9.16e-11 62.4
MsaG024679 AT3G03660.3 42.029 69 40 0 77 145 16 84 9.28e-11 63.2

Find 81 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCATGATCTCCATTCCTTAT+TGG 0.159741 4:+102165791 None:intergenic
ACAGCAAAGAAGAAACTTTA+TGG 0.180399 4:-102166089 MsaT024679.1:CDS
GCCACCATGAATGCGGTTTA+AGG 0.219928 4:+102167685 None:intergenic
TCATGGGTCTTGATGAGTTT+TGG 0.224893 4:+102165944 None:intergenic
TCCAGTGCTCTTAACTGTTC+TGG 0.231980 4:+102167435 None:intergenic
TCTCTGTCTCTTTGTGTTGC+TGG 0.237936 4:+102165732 None:intergenic
CATGATCTCCATTCCTTATT+GGG 0.239327 4:+102165792 None:intergenic
TTGTTAGGAGAAGTAGTAGT+AGG 0.295175 4:+102167728 None:intergenic
ACTGCCCAGCTTAGAAAGTT+TGG 0.297339 4:-102167357 MsaT024679.1:CDS
GTAATTCTGCTTCATCGAAT+TGG 0.317991 4:+102166110 None:intergenic
CACAGTAACAACTAGACTTA+TGG 0.319387 4:-102165969 MsaT024679.1:CDS
GTTATAGTTGAAGTGTTGTT+AGG 0.334243 4:+102167713 None:intergenic
TAAGCTGGGCAGTGATTTGT+TGG 0.366393 4:+102167367 None:intergenic
ACTGGGACTGGGACTGGTCT+TGG 0.368417 4:+102167752 None:intergenic
CCTTCCTTAAACCGCATTCA+TGG 0.383571 4:-102167689 MsaT024679.1:CDS
TGTAGTTGATACTGTTTAAG+TGG 0.389042 4:+102165858 None:intergenic
TTGTAGTAGAGGTGTTTAAG+AGG 0.411927 4:+102166017 None:intergenic
GCTCTTAACTGTTCTGGTGT+TGG 0.418756 4:+102167441 None:intergenic
ACGGAAGAAACTCAATAAAC+TGG 0.421182 4:+102165681 None:intergenic
GCTCTTGAAAAGAAAGACTT+AGG 0.434053 4:-102167231 MsaT024679.1:intron
GGAATCTGTTTCAATTCAAA+GGG 0.434967 4:-102166188 MsaT024679.1:CDS
GAACTCACCACAACTGCTGC+TGG 0.437507 4:+102167474 None:intergenic
AGGAATCTGTTTCAATTCAA+AGG 0.438330 4:-102166189 MsaT024679.1:CDS
CAGCAGTTGTGGTGAGTTCA+AGG 0.440070 4:-102167470 MsaT024679.1:CDS
GTAGGGACTGGGACTGGGAC+TGG 0.441780 4:+102167746 None:intergenic
AAATGAATAAGTTGAAATCA+TGG 0.444662 4:+102165927 None:intergenic
GGAGAAGTAGTAGTAGGGAC+TGG 0.452188 4:+102167734 None:intergenic
CATACTACAACTACAAAGAA+AGG 0.456924 4:-102165895 MsaT024679.1:CDS
AACATGGCTGATTATCCATT+CGG 0.461072 4:-102167800 MsaT024679.1:CDS
GTAGTAGTAGGGACTGGGAC+TGG 0.475721 4:+102167740 None:intergenic
TCCTTATTGGGAAAAGTTGA+AGG 0.475905 4:+102165804 None:intergenic
TGTAGTAGAGGTGTTTAAGA+GGG 0.476333 4:+102166018 None:intergenic
TGTTAGGAGAAGTAGTAGTA+GGG 0.476529 4:+102167729 None:intergenic
CCAATAAGGAATGGAGATCA+TGG 0.480192 4:-102165791 MsaT024679.1:CDS
TCTAGTTGTTACTGTGGTTG+TGG 0.492333 4:+102165976 None:intergenic
CAGCAGCTGATTCCATTTGA+CGG 0.494340 4:+102167265 None:intergenic
AGAAACTCAATAAACTGGTT+GGG 0.503624 4:+102165686 None:intergenic
AAGAAACTCAATAAACTGGT+TGG 0.507314 4:+102165685 None:intergenic
ACCAGAACAGTTAAGAGCAC+TGG 0.518122 4:-102167436 MsaT024679.1:CDS
AGAATCACAAAGCTAGAGAA+AGG 0.519499 4:-102167299 MsaT024679.1:CDS
GAGAAGTAGTAGTAGGGACT+GGG 0.523006 4:+102167735 None:intergenic
CTGATTATCCATTCGGTGGA+AGG 0.525296 4:-102167793 MsaT024679.1:CDS
ATACTACAACTACAAAGAAA+GGG 0.528240 4:-102165894 MsaT024679.1:CDS
TGTTGGATTTGTTCAGCAGA+AGG 0.532776 4:+102167384 None:intergenic
GTAGAGGTGTTTAAGAGGGT+AGG 0.534985 4:+102166022 None:intergenic
TAGTAGTAGGGACTGGGACT+GGG 0.536421 4:+102167741 None:intergenic
GGGACTGGTCTTGGCATGAG+AGG 0.539540 4:+102167761 None:intergenic
GATCAGTACTCTAGAACAGA+TGG 0.548364 4:-102166139 MsaT024679.1:CDS
CATTCGGTGGAAGGAAACTA+AGG 0.548710 4:-102167784 MsaT024679.1:CDS
AAAGAAGAAACTTTATGGAA+AGG 0.550327 4:-102166084 MsaT024679.1:CDS
CTTAGTTTCCTTCCACCGAA+TGG 0.550835 4:+102167785 None:intergenic
TAATAATCCAGCAGCAGTTG+TGG 0.553191 4:-102167481 MsaT024679.1:CDS
AAGAGGAAGAGTACTGGTAC+TGG 0.555814 4:+102166990 None:intergenic
CCTTATTGGGAAAAGTTGAA+GGG 0.559443 4:+102165805 None:intergenic
TGGATGGTGGGTTACAATGA+AGG 0.562024 4:-102167833 MsaT024679.1:CDS
CTGGAAGAATTGTATAGAAG+AGG 0.567704 4:-102167417 MsaT024679.1:CDS
CATAAGTCTAGTTGTTACTG+TGG 0.571838 4:+102165970 None:intergenic
AGTTGTTACTGTGGTTGTGG+TGG 0.572763 4:+102165979 None:intergenic
CTCTGCAAGAGGAAGAGTAC+TGG 0.573556 4:+102166984 None:intergenic
AATGAATAAGTTGAAATCAT+GGG 0.576972 4:+102165928 None:intergenic
CCATGAATGCGGTTTAAGGA+AGG 0.585809 4:+102167689 None:intergenic
GCTAGCTGTTGTTGTAGTAG+AGG 0.592314 4:+102166006 None:intergenic
GAATTATAGACCTCTGCAAG+AGG 0.592853 4:+102166973 None:intergenic
TTGTAGTTGTAGTATGTGTG+AGG 0.596125 4:+102165902 None:intergenic
CAGTACTCTTCCTCTTGCAG+AGG 0.600602 4:-102166983 MsaT024679.1:intron
ACTGGTACTGGAATTTGTAG+AGG 0.614002 4:+102167002 None:intergenic
ATGGTGGGTTACAATGAAGG+TGG 0.633455 4:-102167830 MsaT024679.1:CDS
TACTACAACAACAGCTAGCG+TGG 0.635131 4:-102166002 MsaT024679.1:CDS
CTGGTACTGGAATTTGTAGA+GGG 0.635755 4:+102167003 None:intergenic
AGTTGACAACATGTGGATGG+TGG 0.636173 4:-102167846 None:intergenic
ATGGCTGATTATCCATTCGG+TGG 0.637470 4:-102167797 MsaT024679.1:CDS
AATCATTGCCACCATGAATG+CGG 0.641369 4:+102167678 None:intergenic
AGTACTCTAGAACAGATGGA+TGG 0.652013 4:-102166135 MsaT024679.1:CDS
TCCTTAAACCGCATTCATGG+TGG 0.652436 4:-102167686 MsaT024679.1:CDS
CATCACAATCTGCAGCAGCA+AGG 0.652597 4:-102167641 MsaT024679.1:intron
GTTGACAACATGTGGATGGT+GGG 0.672963 4:-102167845 None:intergenic
CCTAGTTGACAACATGTGGA+TGG 0.687638 4:-102167849 None:intergenic
TGAAGGTGGTGAGTTCAACA+TGG 0.718834 4:-102167816 MsaT024679.1:CDS
CAGTTGTGGTGAGTTCAAGG+TGG 0.724586 4:-102167467 MsaT024679.1:CDS
TTATGGAAAGGAATGCCACG+TGG 0.750564 4:-102166072 MsaT024679.1:CDS
TAACTGCATCATATGCCACG+TGG 0.781883 4:+102166057 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 102165670 102167858 102165670 ID=MsaG024679
Chr4 mRNA 102165670 102167858 102165670 ID=MsaT024679.1;Parent=MsaG024679
Chr4 exon 102165670 102166209 102165670 ID=MsaT024679.1.exon4;Parent=MsaT024679.1
Chr4 CDS 102165670 102166209 102165670 ID=cds.MsaT024679.1;Parent=MsaT024679.1
Chr4 exon 102166984 102167072 102166984 ID=MsaT024679.1.exon3;Parent=MsaT024679.1
Chr4 CDS 102166984 102167072 102166984 ID=cds.MsaT024679.1;Parent=MsaT024679.1
Chr4 exon 102167232 102167534 102167232 ID=MsaT024679.1.exon2;Parent=MsaT024679.1
Chr4 CDS 102167232 102167534 102167232 ID=cds.MsaT024679.1;Parent=MsaT024679.1
Chr4 exon 102167642 102167858 102167642 ID=MsaT024679.1.exon1;Parent=MsaT024679.1
Chr4 CDS 102167642 102167858 102167642 ID=cds.MsaT024679.1;Parent=MsaT024679.1
Gene Sequence

>MsaT024679.1

ATGTGGATGGTGGGTTACAATGAAGGTGGTGAGTTCAACATGGCTGATTATCCATTCGGTGGAAGGAAACTAAGGCCTCTCATGCCAAGACCAGTCCCAGTCCCAGTCCCTACTACTACTTCTCCTAACAACACTTCAACTATAACTCCTTCCTTAAACCGCATTCATGGTGGCAATGATTTATTTTCACAATATCATCACAATCTGCAGCAGCAAGTAGGAGATCATAGCAAGAGATCAGAGTTGAATAATAATCCAGCAGCAGTTGTGGTGAGTTCAAGGTGGAATCCAACACCAGAACAGTTAAGAGCACTGGAAGAATTGTATAGAAGAGGAACAAGAACACCTTCTGCTGAACAAATCCAACAAATCACTGCCCAGCTTAGAAAGTTTGGAAAAATTGAAGGCAAAAATGTTTTCTATTGGTTTCAGAATCACAAAGCTAGAGAAAGGCAAAAACGACGCCGTCAAATGGAATCAGCTGCTGAGTTTGATTCTGCTCTTGAAAAGAAAGACTTAGGCGCAAGTAGGACAGTGTTTGAAGTTGAACACACCAAAAACTGGCTACCCTCTACAAATTCCAGTACCAGTACTCTTCCTCTTGCAGAGGAATCTGTTTCAATTCAAAGGGCAGCAGTAGCAGCAGCAGCAAAAGCAGATCAGTACTCTAGAACAGATGGATGGCTCCAATTCGATGAAGCAGAATTACAGCAAAGAAGAAACTTTATGGAAAGGAATGCCACGTGGCATATGATGCAGTTAACTTCTTCTTGTCCTACCCTCTTAAACACCTCTACTACAACAACAGCTAGCGTGGCCACCACAACCACAGTAACAACTAGACTTATGGACCCAAAACTCATCAAGACCCATGATTTCAACTTATTCATTTCACCTCACACATACTACAACTACAAAGAAAGGGAAAACGCTTTTATCCACTTAAACAGTATCAACTACAATAGTACTCATCAAAATGAATCTGATCAAACCCTTCAACTTTTCCCAATAAGGAATGGAGATCATGGATGCACTAATGATGATCATCATCATAACATCATTAACCAGCAACACAAAGAGACAGAGATATCAGCTTCAGCAATCAATGCACCCAACCAGTTTATTGAGTTTCTTCCGTTGAAAAACTGA
Protein sequence

>MsaT024679.1

MWMVGYNEGGEFNMADYPFGGRKLRPLMPRPVPVPVPTTTSPNNTSTITPSLNRIHGGNDLFSQYHHNLQQQVGDHSKRSELNNNPAAVVVSSRWNPTPEQLRALEELYRRGTRTPSAEQIQQITAQLRKFGKIEGKNVFYWFQNHKARERQKRRRQMESAAEFDSALEKKDLGASRTVFEVEHTKNWLPSTNSSTSTLPLAEESVSIQRAAVAAAAKADQYSRTDGWLQFDEAELQQRRNFMERNATWHMMQLTSSCPTLLNTSTTTTASVATTTTVTTRLMDPKLIKTHDFNLFISPHTYYNYKERENAFIHLNSINYNSTHQNESDQTLQLFPIRNGDHGCTNDDHHHNIINQQHKETEISASAINAPNQFIEFLPLKN*