AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG025414

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025414 MtrunA17_Chr5g0401401 95.671 231 10 0 1 231 1 231 3.60e-164 452
MsaG025414 MtrunA17_Chr4g0053911 70.124 241 54 6 1 231 1 233 5.24e-111 318
MsaG025414 MtrunA17_Chr1g0207471 55.921 152 62 3 1 147 1 152 5.96e-54 172
MsaG025414 MtrunA17_Chr7g0215281 64.545 110 39 0 1 110 3 112 4.70e-52 170
MsaG025414 MtrunA17_Chr6g0457431 52.899 138 55 1 1 128 3 140 3.12e-50 161
MsaG025414 MtrunA17_Chr6g0469271 48.684 152 71 4 1 147 3 152 6.28e-46 152
MsaG025414 MtrunA17_Chr6g0470651 48.120 133 65 3 1 131 3 133 9.03e-41 139
MsaG025414 MtrunA17_Chr6g0470631 47.368 133 66 3 1 131 3 133 1.11e-39 136
MsaG025414 MtrunA17_Chr1g0209841 46.617 133 57 3 1 131 3 123 1.09e-36 128
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG025414 AT4G37540.1 56.048 248 84 8 1 231 1 240 1.01e-81 244
MsaG025414 AT3G49940.1 56.641 256 77 10 1 231 1 247 1.54e-79 239
MsaG025414 AT5G67420.2 52.549 255 92 6 1 231 1 250 2.82e-74 226
MsaG025414 AT5G67420.1 52.549 255 92 6 1 231 1 250 2.82e-74 226
MsaG025414 AT1G67100.1 64.545 110 39 0 1 110 3 112 5.22e-51 166
MsaG025414 AT3G02550.1 63.636 110 40 0 1 110 3 112 3.13e-49 162
MsaG025414 AT1G68510.1 60.177 113 43 1 1 111 3 115 8.80e-47 155

Find 76 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACTCATGAACCGGACTTTC+TGG 0.160468 5:-8043423 None:intergenic
GAAACTCCGGTAAGGGTTTA+AGG 0.160922 5:-8043312 None:intergenic
ACGCGTTGACCAACGGTTTC+CGG 0.249914 5:+8043530 MsaT025414.1:CDS
ATTAAAATTCTCAAACAAAA+AGG 0.262922 5:-8043678 None:intergenic
GTGGCATGACCTTGAGCTTC+AGG 0.279564 5:-8042937 None:intergenic
ACTCACTACAACCCTTTCTA+AGG 0.331551 5:-8042876 None:intergenic
GAATTCATCGACGGTGTTCC+CGG 0.351208 5:-8043568 None:intergenic
GGACTTTCTGGTTCGGATCT+CGG 0.355586 5:-8043411 None:intergenic
AGTCCGACAGCACCGTTAAC+GGG 0.370602 5:-8043226 None:intergenic
ACGCGTTCTGTGGCGTTAAC+CGG 0.381628 5:-8043513 None:intergenic
CGGAACCCTTAAACCCTTAC+CGG 0.384595 5:+8043306 MsaT025414.1:CDS
AAAGTCCGGTTCATGAGTTC+TGG 0.390533 5:+8043427 MsaT025414.1:CDS
TATTACGCCCTTGTATTCAA+TGG 0.394479 5:+8042905 MsaT025414.1:CDS
AAGTCCGACAGCACCGTTAA+CGG 0.413291 5:-8043227 None:intergenic
AAACTCCGGTAAGGGTTTAA+GGG 0.432686 5:-8043311 None:intergenic
AAACCCTTACCGGAGTTTCT+CGG 0.442329 5:+8043316 MsaT025414.1:CDS
CGGTTGCCGTGTCCTTAGAA+AGG 0.456637 5:+8042864 MsaT025414.1:CDS
GGTGGTAAACGCAAGCGATC+AGG 0.465080 5:+8043448 MsaT025414.1:CDS
TACCACCAGAACTCATGAAC+CGG 0.478203 5:-8043432 None:intergenic
ATGAACCGGACTTTCTGGTT+CGG 0.483553 5:-8043418 None:intergenic
AGCACCGTTAACGGGGTTCA+CGG 0.485215 5:-8043218 None:intergenic
TGTGACGACGGTGACGTGCT+TGG 0.492180 5:+8043600 MsaT025414.1:CDS
TGGCATGACCTTGAGCTTCA+GGG 0.492713 5:-8042936 None:intergenic
GTTGAAACGGTGCTCGGTGG+CGG 0.492913 5:+8043286 MsaT025414.1:CDS
CGGAGGGAAATTCGCCGGCC+GGG 0.499369 5:+8043550 MsaT025414.1:CDS
AGAACCGTGAACCCCGTTAA+CGG 0.510533 5:+8043214 MsaT025414.1:CDS
CCGGAGGGAAATTCGCCGGC+CGG 0.514516 5:+8043549 MsaT025414.1:CDS
GTGTCAAGCGGCGGTTGAAA+CGG 0.518728 5:+8043273 MsaT025414.1:CDS
TTACCAGGTCTCTGTGGTGA+AGG 0.520683 5:-8043018 None:intergenic
GGTTGCCGTGTCCTTAGAAA+GGG 0.520856 5:+8042865 MsaT025414.1:CDS
CGTTAGAAATGAAAGACATA+AGG 0.526325 5:-8042993 None:intergenic
GCGTCTAAACCGAGAAACTC+CGG 0.534500 5:-8043325 None:intergenic
GAGATCCGAACCAGAAAGTC+CGG 0.539752 5:+8043413 MsaT025414.1:CDS
TCATCGACGGTGTTCCCGGC+CGG 0.542141 5:-8043564 None:intergenic
ACGGTGACGTGCTTGGAAAG+TGG 0.543942 5:+8043607 MsaT025414.1:CDS
GTATCGATCCATTGAATACA+AGG 0.548656 5:-8042913 None:intergenic
CGGTGACGTGCTTGGAAAGT+GGG 0.551329 5:+8043608 MsaT025414.1:CDS
TACCAGGTCTCTGTGGTGAA+GGG 0.560196 5:-8043017 None:intergenic
TTCTGAGGAATCTGTGACGA+CGG 0.564218 5:+8043588 MsaT025414.1:CDS
TGCTTGGAAAGTGGGATCGG+AGG 0.566383 5:+8043616 MsaT025414.1:CDS
AAACCGAGAAACTCCGGTAA+GGG 0.570584 5:-8043319 None:intergenic
TAAACCGAGAAACTCCGGTA+AGG 0.571879 5:-8043320 None:intergenic
CCGTTGGTCAACGCGTTCTG+TGG 0.575430 5:-8043523 None:intergenic
GCGGCGGTTGAAACGGTGCT+CGG 0.577386 5:+8043280 MsaT025414.1:CDS
GTTTCCGGAGGGAAATTCGC+CGG 0.577846 5:+8043545 MsaT025414.1:CDS
AATTTCCCTCCGGAAACCGT+TGG 0.583258 5:-8043539 None:intergenic
ACCGTTGATGACTCATCTGA+AGG 0.585962 5:+8043358 MsaT025414.1:CDS
ACGTGCTTGGAAAGTGGGAT+CGG 0.586938 5:+8043613 MsaT025414.1:CDS
CCGGCCGGCGAATTTCCCTC+CGG 0.587093 5:-8043549 None:intergenic
AACCCCGTTAACGGTGCTGT+CGG 0.588780 5:+8043223 MsaT025414.1:CDS
GTCCCTTCACCACAGAGACC+TGG 0.592710 5:+8043015 MsaT025414.1:CDS
AGATTAAGATCAGTCGTCGC+CGG 0.593377 5:-8043490 None:intergenic
TCCTTCAGATGAGTCATCAA+CGG 0.596231 5:-8043359 None:intergenic
CGACGACTGATCTTAATCTC+CGG 0.598907 5:+8043494 MsaT025414.1:CDS
AAGTCACGTGCAACGACGCG+CGG 0.599047 5:+8043383 MsaT025414.1:CDS
CGTTGACCAACGGTTTCCGG+AGG 0.601993 5:+8043533 MsaT025414.1:CDS
CCACAGAACGCGTTGACCAA+CGG 0.603462 5:+8043523 MsaT025414.1:CDS
GGCATGACCTTGAGCTTCAG+GGG 0.607961 5:-8042935 None:intergenic
TACAACCCTTTCTAAGGACA+CGG 0.609661 5:-8042870 None:intergenic
ATCGATACCCCTGAAGCTCA+AGG 0.611816 5:+8042928 MsaT025414.1:CDS
CAACTAGGTATGAGTTGCAA+CGG 0.621586 5:+8042844 None:intergenic
GTCCGGTTCATGAGTTCTGG+TGG 0.622596 5:+8043430 MsaT025414.1:CDS
TGAAAGACATAAGGTCAGCA+CGG 0.634887 5:-8042984 None:intergenic
GTCCGACAGCACCGTTAACG+GGG 0.636214 5:-8043225 None:intergenic
AAACTGGCACGTGTGTCAAG+CGG 0.645348 5:+8043261 MsaT025414.1:CDS
GTTGACCAACGGTTTCCGGA+GGG 0.646523 5:+8043534 MsaT025414.1:CDS
CTGGCACGTGTGTCAAGCGG+CGG 0.654365 5:+8043264 MsaT025414.1:CDS
TTCAGATGAGTCATCAACGG+TGG 0.656087 5:-8043356 None:intergenic
GCGGTTGAAACGGTGCTCGG+TGG 0.657002 5:+8043283 MsaT025414.1:CDS
GATTATTTACCAGGTCTCTG+TGG 0.665083 5:-8043024 None:intergenic
TCTTTGTTGTTTGAAGCGTG+TGG 0.669278 5:+8043190 MsaT025414.1:CDS
GATTCCTCAGAATTCATCGA+CGG 0.685600 5:-8043577 None:intergenic
TATCGATCCATTGAATACAA+GGG 0.699979 5:-8042912 None:intergenic
AACACCGTCGATGAATTCTG+AGG 0.704407 5:+8043573 MsaT025414.1:CDS
AAACTTGGCTACAAAGACAG+TGG 0.714204 5:-8042956 None:intergenic
GGAGATAACTACGTTCACGA+CGG 0.740228 5:+8043637 MsaT025414.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 8042853 8043690 8042853 ID=MsaG025414
Chr5 mRNA 8042853 8043690 8042853 ID=MsaT025414.1;Parent=MsaG025414
Chr5 exon 8042853 8043036 8042853 ID=MsaT025414.1.exon1;Parent=MsaT025414.1
Chr5 CDS 8042853 8043036 8042853 ID=cds.MsaT025414.1;Parent=MsaT025414.1
Chr5 exon 8043179 8043690 8043179 ID=MsaT025414.1.exon2;Parent=MsaT025414.1
Chr5 CDS 8043179 8043690 8043179 ID=cds.MsaT025414.1;Parent=MsaT025414.1
Gene Sequence

>MsaT025414.1

ATGAGTTGCAACGGTTGCCGTGTCCTTAGAAAGGGTTGTAGTGAGTCATGTATATTACGCCCTTGTATTCAATGGATCGATACCCCTGAAGCTCAAGGTCATGCCACTGTCTTTGTAGCCAAGTTTTTCGGCCGTGCTGACCTTATGTCTTTCATTTCTAACGTCCCTTCACCACAGAGACCTGCTTTGTTTCAATCTTTGTTGTTTGAAGCGTGTGGAAGAACCGTGAACCCCGTTAACGGTGCTGTCGGACTTTTGTGGACAGGAAACTGGCACGTGTGTCAAGCGGCGGTTGAAACGGTGCTCGGTGGCGGAACCCTTAAACCCTTACCGGAGTTTCTCGGTTTAGACGCTCTTACTTCCACCGTTGATGACTCATCTGAAGGAGAAGTCACGTGCAACGACGCGCGGAAGATCCGAGATCCGAACCAGAAAGTCCGGTTCATGAGTTCTGGTGGTAAACGCAAGCGATCAGGTGCTGAAGTTTTGAAGCTTCCGGCGACGACTGATCTTAATCTCCGGTTAACGCCACAGAACGCGTTGACCAACGGTTTCCGGAGGGAAATTCGCCGGCCGGGAACACCGTCGATGAATTCTGAGGAATCTGTGACGACGGTGACGTGCTTGGAAAGTGGGATCGGAGGAGATAACTACGTTCACGACGGAGACCGCAAAGTTCTCAACCTTTTTGTTTGA
Protein sequence

>MsaT025414.1

MSCNGCRVLRKGCSESCILRPCIQWIDTPEAQGHATVFVAKFFGRADLMSFISNVPSPQRPALFQSLLFEACGRTVNPVNGAVGLLWTGNWHVCQAAVETVLGGGTLKPLPEFLGLDALTSTVDDSSEGEVTCNDARKIRDPNQKVRFMSSGGKRKRSGAEVLKLPATTDLNLRLTPQNALTNGFRREIRRPGTPSMNSEESVTTVTCLESGIGGDNYVHDGDRKVLNLFV*