AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG011051

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011051 MtrunA17_Chr2g0332121 91.041 413 33 3 1 412 1 410 0.0 716
MsaG011051 MtrunA17_Chr4g0002411 76.129 155 37 0 82 236 18 172 1.19e-70 220
MsaG011051 MtrunA17_Chr3g0133791 41.921 229 127 2 9 237 5 227 2.39e-48 164
MsaG011051 MtrunA17_Chr8g0375001 57.143 105 45 0 130 234 34 138 3.42e-38 135
MsaG011051 MtrunA17_Chr1g0163071 38.384 99 56 3 137 233 192 287 3.25e-11 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011051 AT5G58280.3 47.036 253 102 4 12 237 5 252 1.73e-65 211
MsaG011051 AT5G58280.2 46.032 252 107 3 12 237 5 253 8.43e-65 210
MsaG011051 AT5G58280.1 46.121 232 109 4 12 240 5 223 5.05e-59 194
MsaG011051 AT3G19184.1 42.683 246 127 4 12 255 8 241 2.51e-47 163
MsaG011051 AT3G19184.2 42.683 246 127 4 12 255 8 241 3.30e-47 163
MsaG011051 AT5G42700.1 41.228 228 117 4 10 234 7 220 6.46e-44 153
MsaG011051 AT5G42700.2 53.333 120 55 1 116 234 56 175 1.73e-36 132

Find 71 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCAATTTCTGTCAATGTTT+TGG 0.183464 2:+80760093 None:intergenic
ATTTGCATTGGAACATAAAT+TGG 0.189949 2:-80758916 MsaT011051.1:CDS
GGTTGAAGCAGCAAGATTTA+AGG 0.234558 2:-80758865 MsaT011051.1:intron
ACAAGATTAGTCATTGATTT+TGG 0.234870 2:+80759949 None:intergenic
TCGAGGTGTGCATCCTCTTT+TGG 0.264938 2:+80757467 None:intergenic
TCGAAGACTGCAAATTGATT+TGG 0.297643 2:+80759272 None:intergenic
ACAAACTTATCATCTGTCTT+TGG 0.300776 2:+80759017 None:intergenic
ATACGAAGGAACTGTGTTTC+TGG 0.317329 2:+80759900 None:intergenic
ATCAATGACTAATCTTGTTC+TGG 0.319215 2:-80759944 MsaT011051.1:CDS
TGTATCTGAGAAGATTCTTT+TGG 0.324472 2:-80757384 MsaT011051.1:CDS
TTTACCATAGATTTCTTTGC+TGG 0.324976 2:+80760067 None:intergenic
AGCCGCTTCATACTTGTTAC+TGG 0.338525 2:+80760934 None:intergenic
TTAAATCAGAGGAAACTTCT+AGG 0.340932 2:-80757550 MsaT011051.1:CDS
GTTAGAGCATTTGAAAATAT+AGG 0.348130 2:-80757740 MsaT011051.1:CDS
GGCAACTTTGTAGCTGCCTC+TGG 0.368043 2:+80757434 None:intergenic
AAAAGAAGAAATCGATGCTT+TGG 0.405663 2:-80757705 MsaT011051.1:CDS
AGCATTGACTTGATAAATGA+TGG 0.425290 2:+80759247 None:intergenic
CCTCTGGTTTCACTGTTTCG+AGG 0.427493 2:+80757450 None:intergenic
ATGTTCCTCACAAAATCTAC+TGG 0.429660 2:+80759043 None:intergenic
AAGTCCAGCAAAGAAATCTA+TGG 0.435811 2:-80760071 MsaT011051.1:intron
ACGTGCTTGGGATGCGGCAG+AGG 0.447956 2:-80759299 MsaT011051.1:CDS
TCAACATCAACATCCTCAAT+AGG 0.454483 2:+80757314 None:intergenic
CAAAGTTGCCAAACAAGAAA+AGG 0.458834 2:-80757421 MsaT011051.1:CDS
TTCATACTTGTTACTGGTAG+TGG 0.459676 2:+80760940 None:intergenic
CTCAAGAAAGAAAACGTGCT+TGG 0.462354 2:-80759312 MsaT011051.1:CDS
GATTTAACAGTTTCAGACTT+TGG 0.463466 2:+80757566 None:intergenic
ACCTCCTCTGCAACTGTGGA+AGG 0.464273 2:+80759500 None:intergenic
GGAAAACAAGAAGAGGTTTG+AGG 0.478514 2:-80760894 MsaT011051.1:intron
TCAAGAAAGAAAACGTGCTT+GGG 0.482815 2:-80759311 MsaT011051.1:CDS
AAAGAAAACTAGAATGCAAA+AGG 0.483014 2:-80757612 MsaT011051.1:CDS
CTAATCTTGTTCTGGAACCT+AGG 0.484454 2:-80759936 MsaT011051.1:CDS
CGCATACGCTGCGAGGCCAC+TGG 0.491715 2:-80759356 MsaT011051.1:CDS
CTTGACCTCCTCTGCAACTG+TGG 0.495701 2:+80759496 None:intergenic
ATCGATGCTTTGGTGGAAGA+AGG 0.508677 2:-80757695 MsaT011051.1:CDS
GAAGACTGACTTAGAGAAGA+AGG 0.513775 2:-80757342 MsaT011051.1:CDS
AAAATGGGCTTAGTGGTGGC+TGG 0.515469 2:-80758944 MsaT011051.1:CDS
AACAAGAAAAGGAAGGCAAA+AGG 0.516875 2:-80757410 MsaT011051.1:CDS
GTCAAGGTCAAGTTCATCAT+GGG 0.517227 2:-80759473 MsaT011051.1:CDS
TACTGCAATTGAGCCAAAAG+AGG 0.526506 2:-80757480 MsaT011051.1:CDS
GGTCAAGGTCAAGTTCATCA+TGG 0.531659 2:-80759474 MsaT011051.1:CDS
GGGCTTAGTGGTGGCTGGAG+AGG 0.533204 2:-80758939 MsaT011051.1:CDS
AGTTCCTTCGTATGCTGAAG+AGG 0.549926 2:-80759890 MsaT011051.1:intron
TCAGACTTTGGCTCAAGTGT+AGG 0.550961 2:+80757578 None:intergenic
ATTTGAAAATATAGGTGTAG+AGG 0.552770 2:-80757732 MsaT011051.1:CDS
ACCTTCCACAGTTGCAGAGG+AGG 0.555440 2:-80759501 MsaT011051.1:CDS
AGAAGAAATCGATGCTTTGG+TGG 0.560673 2:-80757702 MsaT011051.1:CDS
GAAGAAGGAAGAACCTATTG+AGG 0.562199 2:-80757327 MsaT011051.1:CDS
CACAGTTGCAGAGGAGGTCA+AGG 0.568720 2:-80759495 MsaT011051.1:CDS
AACAGCTATAAACATGAGAC+CGG 0.574078 2:+80759224 None:intergenic
AAGAAAACGTGCTTGGGATG+CGG 0.574526 2:-80759305 MsaT011051.1:CDS
CATTTATCAAGTCAATGCTC+CGG 0.576831 2:-80759243 MsaT011051.1:CDS
GCTACTTTGATTTCATCCAG+TGG 0.577540 2:+80759340 None:intergenic
TTGGAACATAAATTGGATGA+TGG 0.579994 2:-80758909 MsaT011051.1:CDS
GTCTGAAACTGTTAAATCAG+AGG 0.582113 2:-80757561 MsaT011051.1:CDS
TGCAGAGGAGGTCAAGGTCA+AGG 0.592516 2:-80759489 MsaT011051.1:CDS
GACTTGAGGAAAACAAGAAG+AGG 0.599382 2:-80760901 MsaT011051.1:CDS
CTGGCACGAGAAGAGCGCCT+AGG 0.600809 2:+80759919 None:intergenic
TACCAGTAACAAGTATGAAG+CGG 0.610415 2:-80760936 MsaT011051.1:CDS
TGTTCCTCACAAAATCTACT+GGG 0.611018 2:+80759044 None:intergenic
TGGCTGGAGAGGATTTGCAT+TGG 0.612968 2:-80758928 MsaT011051.1:CDS
GGTCAAGTTCATCATGGGGA+AGG 0.616212 2:-80759468 MsaT011051.1:intron
ATCTAAAACTGTGAAACCAA+AGG 0.619114 2:-80757642 MsaT011051.1:CDS
CAGACCTTCCACAGTTGCAG+AGG 0.621654 2:-80759504 MsaT011051.1:CDS
GTGTGTAAGCAGATGGCAAA+GGG 0.623184 2:-80760968 None:intergenic
TGTGTGTAAGCAGATGGCAA+AGG 0.632316 2:-80760969 None:intergenic
GTTGCCAAACAAGAAAAGGA+AGG 0.644080 2:-80757417 MsaT011051.1:CDS
GGCTAGAGAACAAAGACTTG+AGG 0.682861 2:-80760915 MsaT011051.1:CDS
TCAGTTACGCATACGCTGCG+AGG 0.686193 2:-80759363 MsaT011051.1:intron
TCAAGGTCAAGTTCATCATG+GGG 0.693464 2:-80759472 MsaT011051.1:CDS
CTTACCTCTTCAGCATACGA+AGG 0.705335 2:+80759886 None:intergenic
CCTCGAAACAGTGAAACCAG+AGG 0.741911 2:-80757450 MsaT011051.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 80757217 80760978 80757217 ID=MsaG011051
Chr2 mRNA 80757217 80760978 80757217 ID=MsaT011051.1;Parent=MsaG011051
Chr2 exon 80757217 80757771 80757217 ID=MsaT011051.1.exon7;Parent=MsaT011051.1
Chr2 CDS 80757217 80757771 80757217 ID=cds.MsaT011051.1;Parent=MsaT011051.1
Chr2 exon 80758866 80759072 80758866 ID=MsaT011051.1.exon6;Parent=MsaT011051.1
Chr2 CDS 80758866 80759072 80758866 ID=cds.MsaT011051.1;Parent=MsaT011051.1
Chr2 exon 80759216 80759381 80759216 ID=MsaT011051.1.exon5;Parent=MsaT011051.1
Chr2 CDS 80759216 80759381 80759216 ID=cds.MsaT011051.1;Parent=MsaT011051.1
Chr2 exon 80759469 80759533 80759469 ID=MsaT011051.1.exon4;Parent=MsaT011051.1
Chr2 CDS 80759469 80759533 80759469 ID=cds.MsaT011051.1;Parent=MsaT011051.1
Chr2 exon 80759891 80759986 80759891 ID=MsaT011051.1.exon3;Parent=MsaT011051.1
Chr2 CDS 80759891 80759986 80759891 ID=cds.MsaT011051.1;Parent=MsaT011051.1
Chr2 exon 80760072 80760137 80760072 ID=MsaT011051.1.exon2;Parent=MsaT011051.1
Chr2 CDS 80760072 80760137 80760072 ID=cds.MsaT011051.1;Parent=MsaT011051.1
Chr2 exon 80760895 80760978 80760895 ID=MsaT011051.1.exon1;Parent=MsaT011051.1
Chr2 CDS 80760895 80760978 80760895 ID=cds.MsaT011051.1;Parent=MsaT011051.1
Gene Sequence

>MsaT011051.1

ATGGCAAAGGGTTGTTCCACTACCAGTAACAAGTATGAAGCGGCTAGAGAACAAAGACTTGAGGAAAACAAGAAGAGGTTTGAGGATTTAGGAATTTCAAAAATTTCCAAAACATTGACAGAAATTGCAAGTCCAGCAAAGAAATCTATGAATCGTCGTTTCAGACCAAAATCAATGACTAATCTTGTTCTGGAACCTAGGCGCTCTTCTCGTGCCAGAAACACAGTTCCTTCGTATGCTGAAGAGTTTGGCACAGACCTTCCACAGTTGCAGAGGAGGTCAAGGTCAAGGTCAAGTTCATCATGGGGAAGTTACGCATACGCTGCGAGGCCACTGGATGAAATCAAAGTAGCTACAGCTCAAGAAAGAAAACGTGCTTGGGATGCGGCAGAGGCACTCCAAATCAATTTGCAGTCTTCGAATCCATCATTTATCAAGTCAATGCTCCGGTCTCATGTTTATAGCTGTTTTTGGTTGGGTCTTCCCAGTAGATTTTGTGAGGAACATCTTCCAAAGACAGATGATAAGTTTGTTTTAGAGGATGAAAAAGGCGCAGAATATGATGCTGTTTACCTTGCCCATAAAAATGGGCTTAGTGGTGGCTGGAGAGGATTTGCATTGGAACATAAATTGGATGATGGTGATGCAGTAGTTTTTGAATTGGTTGAAGCAGCAAGATTTAAGGTTTATATTGTTAGAGCATTTGAAAATATAGGTGTAGAGGAAGAAAAAGAAGAAATCGATGCTTTGGTGGAAGAAGGAAATATGCAAACATCCAAAGCAATCAAAAAATCTAAAACTGTGAAACCAAAGGAAGCTCCAAAGAAAACTAGAATGCAAAAGGTATCTAAAGTACCTACACTTGAGCCAAAGTCTGAAACTGTTAAATCAGAGGAAACTTCTAGGAAAACAAGATCTTCTCAGAACAAAAAGCAAAAGATATCTGATGTATCTACTGCAATTGAGCCAAAAGAGGATGCACACCTCGAAACAGTGAAACCAGAGGCAGCTACAAAGTTGCCAAACAAGAAAAGGAAGGCAAAAGGTGATGTATCTGAGAAGATTCTTTTGGAAGATAATGCTAAAGCAATGAAGACTGACTTAGAGAAGAAGGAAGAACCTATTGAGGATGTTGATGTTGAGCTAAAGAAAGTTAAGCTAGATGATAAAGCAAGCAAACCTGCTGCAGAAAAACCTCGGAAAATTCGAGCTCCAAAGTTTTTTAGAAAGAGAGGTTAG
Protein sequence

>MsaT011051.1

MAKGCSTTSNKYEAAREQRLEENKKRFEDLGISKISKTLTEIASPAKKSMNRRFRPKSMTNLVLEPRRSSRARNTVPSYAEEFGTDLPQLQRRSRSRSSSSWGSYAYAARPLDEIKVATAQERKRAWDAAEALQINLQSSNPSFIKSMLRSHVYSCFWLGLPSRFCEEHLPKTDDKFVLEDEKGAEYDAVYLAHKNGLSGGWRGFALEHKLDDGDAVVFELVEAARFKVYIVRAFENIGVEEEKEEIDALVEEGNMQTSKAIKKSKTVKPKEAPKKTRMQKVSKVPTLEPKSETVKSEETSRKTRSSQNKKQKISDVSTAIEPKEDAHLETVKPEAATKLPNKKRKAKGDVSEKILLEDNAKAMKTDLEKKEEPIEDVDVELKKVKLDDKASKPAAEKPRKIRAPKFFRKRG*