AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024634

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024634 MtrunA17_Chr8g0392331 98.930 374 4 0 1 374 1 374 0.0 752
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024634 AT1G30970.1 64.599 387 104 12 1 374 1 367 2.33e-157 447
MsaG024634 AT1G30970.3 63.488 367 101 12 1 354 1 347 1.96e-142 410
MsaG024634 AT1G30970.2 59.317 322 98 12 66 374 14 315 6.83e-104 309

Find 136 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTGAAGGACCACCGGTATT+TGG 0.170439 4:+101641526 None:intergenic
CAGCCTTTGTTTCCTGTTGT+TGG 0.240602 4:-101641887 MsaT024634.1:CDS
GGAAACAAAGGCTGTGAAAC+TGG 0.284002 4:+101641896 None:intergenic
GGAGCTTTGTTTGAGATTAC+TGG 0.297232 4:+101641493 None:intergenic
GTTCCTATTGACGCACATTT+AGG 0.300973 4:-101641773 MsaT024634.1:CDS
ACAGCATACATTGGTCGAAT+TGG 0.303869 4:+101642296 None:intergenic
ATTTCTGTACTCTCTCTTCC+AGG 0.309747 4:+101644442 None:intergenic
TCCACCTTGGCTGTCTTTGA+TGG 0.324836 4:+101642398 None:intergenic
AACTCACATTCTTATGCTTC+TGG 0.326574 4:-101641550 MsaT024634.1:CDS
TCTCTTCCAGGTTTCGCATT+TGG 0.327140 4:+101644454 None:intergenic
TTGAAGGACCACCGGTATTT+GGG 0.341503 4:+101641527 None:intergenic
ACCAGGCCCTCCTAATGCTT+GGG 0.344462 4:-101642110 MsaT024634.1:CDS
CTTATCTATGGCTGCATCAA+TGG 0.344752 4:+101640353 None:intergenic
CTCAAGTATCCTCTTATCTA+TGG 0.345061 4:+101640341 None:intergenic
ACAAGTAGTTATCAAGCAAT+AGG 0.347700 4:-101641734 MsaT024634.1:CDS
CATGTCCATTCACGTTCTTC+AGG 0.348004 4:-101645170 MsaT024634.1:CDS
GACATGGGTGCAGCGGAAAA+TGG 0.372457 4:+101641836 None:intergenic
TGGAATGGTGCCACCTCCTA+TGG 0.375927 4:-101642351 MsaT024634.1:CDS
ACATTCTGAACAGGAAATAA+TGG 0.376562 4:+101642004 None:intergenic
AACTGTTTCAATTCCTCCTC+CGG 0.388888 4:-101642044 MsaT024634.1:CDS
AATGTCTTTAACAAAATATC+AGG 0.390175 4:-101641305 MsaT024634.1:CDS
TACCAGGCCCTCCTAATGCT+TGG 0.392438 4:-101642111 MsaT024634.1:CDS
CAGCATACATTGGTCGAATT+GGG 0.393166 4:+101642297 None:intergenic
AGTACAGAAATTGAAATATA+CGG 0.394552 4:-101644430 MsaT024634.1:CDS
ATCCCATCAACCCCATTTGC+AGG 0.396537 4:-101642374 MsaT024634.1:CDS
CTAACGAAGTCTACCTGGTT+TGG 0.400133 4:-101641453 MsaT024634.1:CDS
GGCACCATTCCACCTGCAAA+TGG 0.405114 4:+101642362 None:intergenic
CCACCTGCAAATGGGGTTGA+TGG 0.408036 4:+101642371 None:intergenic
GAATTGAAACAGTTGGAGGC+TGG 0.414100 4:+101642053 None:intergenic
CATAAGAAGCTTTCCACTGC+TGG 0.419731 4:-101645196 MsaT024634.1:CDS
GGAACAACTCCCCAAGCATT+AGG 0.420757 4:+101642100 None:intergenic
TATCAAGCAATAGGGATTCC+AGG 0.422402 4:-101641725 MsaT024634.1:intron
GGGGATTCCGCCAGATGTCT+TGG 0.430401 4:-101644401 MsaT024634.1:CDS
GGTGTAGATGAAGGCAGTCC+AGG 0.433874 4:+101641926 None:intergenic
TAACGAAGTCTACCTGGTTT+GGG 0.436179 4:-101641452 MsaT024634.1:CDS
ATGTGGTTATTTCCAACAAC+AGG 0.437841 4:+101641875 None:intergenic
AATACCGGTGGTCCTTCAAT+TGG 0.438291 4:-101641523 MsaT024634.1:CDS
ATGCCTAAATGTGCGTCAAT+AGG 0.440753 4:+101641770 None:intergenic
TAATGAGCAGCCAAGACATC+TGG 0.442885 4:+101644391 None:intergenic
GGTTGATCGTGGAGGATATC+CGG 0.443716 4:+101642325 None:intergenic
GATGTCTTGGCTGCTCATTA+TGG 0.444172 4:-101644388 MsaT024634.1:CDS
GCACCATTCCACCTGCAAAT+GGG 0.451889 4:+101642363 None:intergenic
ATTCGACGACGAGAAGATCT+TGG 0.459699 4:-101645260 MsaT024634.1:CDS
GGAGGCCTCACATTCTGAAC+AGG 0.464202 4:+101641995 None:intergenic
AATTGAAATATACGGAATGC+AGG 0.468518 4:-101644422 MsaT024634.1:CDS
AATTGAAACAGTTGGAGGCT+GGG 0.475617 4:+101642054 None:intergenic
TATGCTTCTGGCCCAAATAC+CGG 0.477985 4:-101641538 MsaT024634.1:CDS
AGTGTACCATCAATAGCTCC+TGG 0.479304 4:-101641809 MsaT024634.1:CDS
GAAGAAGCGCGTTGCTTCAA+AGG 0.480211 4:-101645308 MsaT024634.1:CDS
TTGATGCAGCCATAGATAAG+AGG 0.483071 4:-101640350 MsaT024634.1:CDS
AACATGACACTTAAAGTGCT+TGG 0.485491 4:+101645222 None:intergenic
CCCCAAGCATTAGGAGGGCC+TGG 0.491220 4:+101642109 None:intergenic
GGAAACCATGGCTGAGGTCG+AGG 0.492794 4:+101642076 None:intergenic
TTGTTTGAGATTACTGGTGG+AGG 0.495717 4:+101641499 None:intergenic
CAAGTAGTTATCAAGCAATA+GGG 0.496128 4:-101641733 MsaT024634.1:CDS
AGATATAATCCTGCTGTACC+AGG 0.505163 4:-101642127 MsaT024634.1:CDS
TTAGGAGGGCCTGGTACAGC+AGG 0.509971 4:+101642118 None:intergenic
AGGGTGCCAAATGCGAAACC+TGG 0.511393 4:-101644460 MsaT024634.1:CDS
GGCTGGGGAAACCATGGCTG+AGG 0.511844 4:+101642070 None:intergenic
CAATCTCAGATTACTCCTCC+TGG 0.513612 4:-101641944 MsaT024634.1:CDS
GAAAGCCCAGGAGCTATTGA+TGG 0.514115 4:+101641803 None:intergenic
GTAATCTGAGATTGTAGTGC+AGG 0.514880 4:+101641953 None:intergenic
CACCATTCCACCTGCAAATG+GGG 0.522457 4:+101642364 None:intergenic
ACTGGTGGAGGTCCAATTGA+AGG 0.524549 4:+101641511 None:intergenic
AACCAGGTAGACTTCGTTAG+TGG 0.526452 4:+101641456 None:intergenic
TTCCACCTCGACCTCAGCCA+TGG 0.530637 4:-101642081 MsaT024634.1:CDS
AACCCCATTTGCAGGTGGAA+TGG 0.531347 4:-101642366 MsaT024634.1:CDS
ATACTTGAGAGCAGGCTAGC+TGG 0.531564 4:-101640327 MsaT024634.1:CDS
GGTTGCTGTGGGTATTGAAC+CGG 0.533307 4:+101642025 None:intergenic
CCAGGCCCTCCTAATGCTTG+GGG 0.544705 4:-101642109 MsaT024634.1:CDS
ATAAGAGGATACTTGAGAGC+AGG 0.545989 4:-101640335 MsaT024634.1:CDS
AATGGACATGCCACCAGCAG+TGG 0.546032 4:+101645183 None:intergenic
TTAGTGGCAGGCTGAGTAGC+GGG 0.546294 4:+101641472 None:intergenic
TGCCACTAACGAAGTCTACC+TGG 0.547063 4:-101641458 MsaT024634.1:CDS
GCTGCTCATTATGGAGATGA+AGG 0.547626 4:-101644379 MsaT024634.1:intron
ATTGAAACAGTTGGAGGCTG+GGG 0.549843 4:+101642055 None:intergenic
GCTTTGTTTGAGATTACTGG+TGG 0.553404 4:+101641496 None:intergenic
CATTGGTCGAATTGGGCCCA+CGG 0.553954 4:+101642304 None:intergenic
TGTGGGTATTGAACCGGAGG+AGG 0.557963 4:+101642031 None:intergenic
AGGTAGACTTCGTTAGTGGC+AGG 0.558673 4:+101641460 None:intergenic
CACCTGCAAATGGGGTTGAT+GGG 0.560328 4:+101642372 None:intergenic
ATTGAAATATACGGAATGCA+GGG 0.566703 4:-101644421 MsaT024634.1:CDS
GGCTGTGAAACTGGGACAGG+AGG 0.567372 4:+101641905 None:intergenic
GGTTGATGGGATGTCCACCT+TGG 0.568451 4:+101642385 None:intergenic
GGTTCATGATGAAAGTAGCC+AGG 0.569158 4:-101641284 MsaT024634.1:intron
GGAATGGTGCCACCTCCTAT+GGG 0.569199 4:-101642350 MsaT024634.1:CDS
GGAGGAGGAATTGAAACAGT+TGG 0.574521 4:+101642046 None:intergenic
GGATGACGAGGCAATGTCCA+TGG 0.575495 4:-101641431 MsaT024634.1:intron
GTGCCACCTCCTATGGGTAC+CGG 0.575683 4:-101642344 MsaT024634.1:CDS
GAAACAAAGGCTGTGAAACT+GGG 0.576837 4:+101641897 None:intergenic
GTGGACCTGAAGAACGTGAA+TGG 0.577922 4:+101645165 None:intergenic
TATTTCCTGTTCAGAATGTG+AGG 0.578258 4:-101642000 MsaT024634.1:CDS
GGGACAGGAGGTGTAGATGA+AGG 0.578656 4:+101641917 None:intergenic
ATTGGGCCCACGGTTGATCG+TGG 0.579337 4:+101642314 None:intergenic
GGAACATTTGAAGAAAGCCC+AGG 0.581787 4:+101641791 None:intergenic
ACAACTCCCCAAGCATTAGG+AGG 0.584661 4:+101642103 None:intergenic
TTATCTGAATTTCGATGGGG+AGG 0.585856 4:-101645333 None:intergenic
GGAGGATATCCGGTACCCAT+AGG 0.590455 4:+101642335 None:intergenic
TGCTGTGGGTATTGAACCGG+AGG 0.591412 4:+101642028 None:intergenic
AAAGGCTGTGAAACTGGGAC+AGG 0.593167 4:+101641902 None:intergenic
GAGCAGGCTAGCTGGTCGCA+TGG 0.599459 4:-101640319 MsaT024634.1:CDS
TTGCCTCGTCATCCCAAACC+AGG 0.602208 4:+101641440 None:intergenic
AAGAAGCTTTCCACTGCTGG+TGG 0.604453 4:-101645193 MsaT024634.1:CDS
GAAGTAGTTGATGGCAATGG+AGG 0.606455 4:+101641977 None:intergenic
AGCGCGTTGCTTCAAAGGTG+TGG 0.608922 4:-101645303 MsaT024634.1:CDS
AGTGCAGGTGAAGTAGTTGA+TGG 0.611818 4:+101641968 None:intergenic
TTTCCAACAACAGGAAACAA+AGG 0.612122 4:+101641884 None:intergenic
GGATATCCGGTACCCATAGG+AGG 0.617032 4:+101642338 None:intergenic
GTGTACCATCAATAGCTCCT+GGG 0.617725 4:-101641808 MsaT024634.1:CDS
GTTGGAGGCTGGGGAAACCA+TGG 0.620715 4:+101642064 None:intergenic
ACTTGAAGACATGGGTGCAG+CGG 0.621248 4:+101641829 None:intergenic
AGGTCCAATTGAAGGACCAC+CGG 0.621456 4:+101641519 None:intergenic
AACCATGGCTGAGGTCGAGG+TGG 0.623423 4:+101642079 None:intergenic
GGAGGAATTGAAACAGTTGG+AGG 0.628063 4:+101642049 None:intergenic
GTTAGTGGCAGGCTGAGTAG+CGG 0.628691 4:+101641471 None:intergenic
GGAAAATGGTGAACTTTGAG+TGG 0.629363 4:+101641850 None:intergenic
GGTGAAGTAGTTGATGGCAA+TGG 0.630819 4:+101641974 None:intergenic
TTGAAATATACGGAATGCAG+GGG 0.631086 4:-101644420 MsaT024634.1:CDS
TGATGGTACACTTGAAGACA+TGG 0.634182 4:+101641820 None:intergenic
CTACCTGGTTTGGGATGACG+AGG 0.635306 4:-101641443 MsaT024634.1:CDS
ACAGGAAATAATGGTTGCTG+TGG 0.636390 4:+101642013 None:intergenic
CCATCAACCCCATTTGCAGG+TGG 0.645938 4:-101642371 MsaT024634.1:CDS
TGAGCAGCCAAGACATCTGG+CGG 0.647342 4:+101644394 None:intergenic
ATATCCTCCACGATCAACCG+TGG 0.655774 4:-101642321 MsaT024634.1:CDS
TCCATCAAAGACAGCCAAGG+TGG 0.658500 4:-101642399 MsaT024634.1:CDS
TATCCGGTACCCATAGGAGG+TGG 0.658522 4:+101642341 None:intergenic
CAACTCCCCAAGCATTAGGA+GGG 0.662716 4:+101642104 None:intergenic
TATCCTCCACGATCAACCGT+GGG 0.663319 4:-101642320 MsaT024634.1:CDS
GTAGATGAAGGCAGTCCAGG+AGG 0.667864 4:+101641929 None:intergenic
GCTTCTGGCCCAAATACCGG+TGG 0.670008 4:-101641535 MsaT024634.1:CDS
GGGCCCACGGTTGATCGTGG+AGG 0.671495 4:+101642317 None:intergenic
TGTTCCATCAAAGACAGCCA+AGG 0.680961 4:-101642402 MsaT024634.1:CDS
CAGGAAATAATGGTTGCTGT+GGG 0.694551 4:+101642014 None:intergenic
TGTTGTTGGAAATAACCACA+TGG 0.708917 4:-101641873 MsaT024634.1:CDS
GTGAACTTTGAGTGGCCATG+TGG 0.742581 4:+101641858 None:intergenic
GATGGTACACTTGAAGACAT+GGG 0.786065 4:+101641821 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 101640311 101645341 101640311 ID=MsaG024634
Chr4 mRNA 101640311 101645341 101640311 ID=MsaT024634.1;Parent=MsaG024634
Chr4 exon 101640311 101640382 101640311 ID=MsaT024634.1.exon7;Parent=MsaT024634.1
Chr4 CDS 101640311 101640382 101640311 ID=cds.MsaT024634.1;Parent=MsaT024634.1
Chr4 exon 101641285 101641338 101641285 ID=MsaT024634.1.exon6;Parent=MsaT024634.1
Chr4 CDS 101641285 101641338 101641285 ID=cds.MsaT024634.1;Parent=MsaT024634.1
Chr4 exon 101641432 101641586 101641432 ID=MsaT024634.1.exon5;Parent=MsaT024634.1
Chr4 CDS 101641432 101641586 101641432 ID=cds.MsaT024634.1;Parent=MsaT024634.1
Chr4 exon 101641726 101642147 101641726 ID=MsaT024634.1.exon4;Parent=MsaT024634.1
Chr4 CDS 101641726 101642147 101641726 ID=cds.MsaT024634.1;Parent=MsaT024634.1
Chr4 exon 101642305 101642431 101642305 ID=MsaT024634.1.exon3;Parent=MsaT024634.1
Chr4 CDS 101642305 101642431 101642305 ID=cds.MsaT024634.1;Parent=MsaT024634.1
Chr4 exon 101644380 101644480 101644380 ID=MsaT024634.1.exon2;Parent=MsaT024634.1
Chr4 CDS 101644380 101644480 101644380 ID=cds.MsaT024634.1;Parent=MsaT024634.1
Chr4 exon 101645148 101645341 101645148 ID=MsaT024634.1.exon1;Parent=MsaT024634.1
Chr4 CDS 101645148 101645341 101645148 ID=cds.MsaT024634.1;Parent=MsaT024634.1
Gene Sequence

>MsaT024634.1

ATGGGGAGGAAGAAGAAGCGCGTTGCTTCAAAGGTGTGGTGTTATTACTGCGATCGTGAATTCGACGACGAGAAGATCTTGGTTCAGCATCAGAAAGCCAAGCACTTTAAGTGTCATGTTTGTCATAAGAAGCTTTCCACTGCTGGTGGCATGTCCATTCACGTTCTTCAGGTCCACAAAGAAAACGTCACCAAGGTGCCAAATGCGAAACCTGGAAGAGAGAGTACAGAAATTGAAATATACGGAATGCAGGGGATTCCGCCAGATGTCTTGGCTGCTCATTATGGAGATGAAGACGATGATGTTCCATCAAAGACAGCCAAGGTGGACATCCCATCAACCCCATTTGCAGGTGGAATGGTGCCACCTCCTATGGGTACCGGATATCCTCCACGATCAACCGTGGGCCCAATTCGACCAATATATAATCCTGCTGTACCAGGCCCTCCTAATGCTTGGGGAGTTGTTCCACCTCGACCTCAGCCATGGTTTCCCCAGCCTCCAACTGTTTCAATTCCTCCTCCGGTTCAATACCCACAGCAACCATTATTTCCTGTTCAGAATGTGAGGCCTCCATTGCCATCAACTACTTCACCTGCACTACAATCTCAGATTACTCCTCCTGGACTGCCTTCATCTACACCTCCTGTCCCAGTTTCACAGCCTTTGTTTCCTGTTGTTGGAAATAACCACATGGCCACTCAAAGTTCACCATTTTCCGCTGCACCCATGTCTTCAAGTGTACCATCAATAGCTCCTGGGCTTTCTTCAAATGTTCCTATTGACGCACATTTAGGCATCAACTCTTCTGTGACAAGTAGTTATCAAGCAATAGGGATTCCAGGTGGGATATCAAGTAACTCACATTCTTATGCTTCTGGCCCAAATACCGGTGGTCCTTCAATTGGACCTCCACCAGTAATCTCAAACAAAGCTCCCGCTACTCAGCCTGCCACTAACGAAGTCTACCTGGTTTGGGATGACGAGGCAATGTCCATGGAGGAAAGAAGAATGTCTTTAACAAAATATCAGGTTCATGATGAAAGTAGCCAGATGAGCTCCATTGATGCAGCCATAGATAAGAGGATACTTGAGAGCAGGCTAGCTGGTCGCATGGCATTTTAA
Protein sequence

>MsaT024634.1

MGRKKKRVASKVWCYYCDREFDDEKILVQHQKAKHFKCHVCHKKLSTAGGMSIHVLQVHKENVTKVPNAKPGRESTEIEIYGMQGIPPDVLAAHYGDEDDDVPSKTAKVDIPSTPFAGGMVPPPMGTGYPPRSTVGPIRPIYNPAVPGPPNAWGVVPPRPQPWFPQPPTVSIPPPVQYPQQPLFPVQNVRPPLPSTTSPALQSQITPPGLPSSTPPVPVSQPLFPVVGNNHMATQSSPFSAAPMSSSVPSIAPGLSSNVPIDAHLGINSSVTSSYQAIGIPGGISSNSHSYASGPNTGGPSIGPPPVISNKAPATQPATNEVYLVWDDEAMSMEERRMSLTKYQVHDESSQMSSIDAAIDKRILESRLAGRMAF*