AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038693

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038693 MtrunA17_Chr2g0308841 70.543 129 38 0 290 418 98 226 1.92e-58 196
MsaG038693 MtrunA17_Chr1g0203051 36.860 293 169 4 6 291 5 288 1.96e-55 198
MsaG038693 MtrunA17_Chr1g0203051 35.652 115 74 0 292 406 507 621 9.01e-16 80.9
MsaG038693 MtrunA17_Chr2g0287651 33.937 221 144 1 73 291 66 286 7.17e-37 146
MsaG038693 MtrunA17_Chr2g0287651 27.758 281 181 6 292 566 505 769 5.70e-20 94.4
MsaG038693 MtrunA17_Chr1g0171741 40.373 161 94 2 53 212 103 262 2.46e-31 122
MsaG038693 MtrunA17_Chr8g0389811 42.520 127 73 0 67 193 69 195 1.49e-29 115
MsaG038693 MtrunA17_Chr2g0331371 42.038 157 89 1 32 186 3 159 5.16e-28 111
MsaG038693 MtrunA17_Chr6g0473421 46.316 95 51 0 64 158 37 131 1.21e-23 97.4
MsaG038693 MtrunA17_Chr1g0172931 36.508 126 80 0 39 164 33 158 3.67e-19 84.7
MsaG038693 MtrunA17_Chr5g0448761 31.776 214 140 5 84 291 62 275 7.10e-19 90.9
MsaG038693 MtrunA17_Chr5g0448761 28.387 155 108 2 292 444 499 652 9.79e-12 68.2
MsaG038693 MtrunA17_Chr1g0202341 27.358 212 147 4 83 291 52 259 3.73e-16 82.0
MsaG038693 MtrunA17_Chr1g0198761 28.959 221 133 8 88 291 53 266 2.01e-15 79.7
MsaG038693 MtrunA17_Chr8g0340801 33.333 99 66 0 193 291 1 99 3.24e-15 72.0
MsaG038693 MtrunA17_Chr2g0276841 30.189 212 137 7 88 291 76 284 3.66e-15 79.0
MsaG038693 MtrunA17_Chr5g0431001 26.818 220 139 6 88 291 67 280 4.23e-14 75.1
MsaG038693 MtrunA17_Chr2g0290391 28.182 220 139 7 88 291 57 273 8.88e-13 71.2
MsaG038693 MtrunA17_Chr3g0118611 28.090 178 114 4 272 444 358 526 1.38e-12 70.9
MsaG038693 MtrunA17_Chr6g0458391 31.282 195 97 9 87 257 96 277 9.91e-12 68.2
MsaG038693 MtrunA17_Chr8g0363841 26.754 228 156 5 92 312 27 250 1.82e-11 67.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038693 AT4G38180.1 29.368 269 174 8 38 291 17 284 2.18e-18 89.7
MsaG038693 AT5G28530.1 30.455 220 134 7 88 291 61 277 2.30e-18 89.4
MsaG038693 AT5G28530.3 30.455 220 134 7 88 291 61 277 2.63e-18 89.4
MsaG038693 AT5G28530.2 30.455 220 134 7 88 291 61 277 2.63e-18 89.4
MsaG038693 AT5G28530.5 29.386 228 151 5 88 311 61 282 3.49e-18 89.0
MsaG038693 AT5G28530.4 29.386 228 151 5 88 311 61 282 3.68e-18 88.6
MsaG038693 AT1G10240.2 30.180 222 140 8 88 299 54 270 4.03e-15 79.3
MsaG038693 AT1G10240.1 30.180 222 140 8 88 299 54 270 4.03e-15 79.3
MsaG038693 AT2G27110.2 29.787 141 97 2 283 422 443 582 3.92e-11 66.6
MsaG038693 AT2G27110.1 29.787 141 97 2 283 422 443 582 3.92e-11 66.6
MsaG038693 AT2G27110.3 29.787 141 97 2 283 422 298 437 5.94e-11 65.9

Find 121 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGGGCTTTGGCAGATGCTTC+TGG 0.082781 7:-79617389 MsaT038693.1:CDS
CAAATTGCTGCAAGGTATTC+TGG 0.243533 7:-79616096 MsaT038693.1:CDS
CATCACAGGAAGACCGTAAT+TGG 0.250209 7:+79616506 None:intergenic
TTTGTTCATGTCAAGGTTAC+AGG 0.251328 7:-79617673 MsaT038693.1:CDS
GGGCTTTGGCAGATGCTTCT+GGG 0.266190 7:-79617388 MsaT038693.1:CDS
CTGGGCAAAACCAAACATTT+TGG 0.278132 7:+79616186 None:intergenic
CACGAGCATTTCAAAATAAC+TGG 0.290463 7:+79616285 None:intergenic
ATGCCAATGGATCTCTCTAT+TGG 0.291523 7:-79616125 MsaT038693.1:CDS
GATCACAATCATGTTATGTT+AGG 0.300544 7:-79617518 MsaT038693.1:CDS
CCGCAACAACTTTACACATT+TGG 0.310861 7:+79616067 None:intergenic
CTGTGATGCAGACCAGTTTA+CGG 0.319178 7:-79616491 MsaT038693.1:CDS
TGATGATCTTCCAAAATGTT+TGG 0.355568 7:-79616196 MsaT038693.1:CDS
TTTGATTACCAATCCAATTA+CGG 0.365424 7:-79616519 MsaT038693.1:CDS
TCCGATTATGATAAAAGATA+TGG 0.367150 7:-79617876 MsaT038693.1:CDS
AACTGAAAATCCTGACGTTC+TGG 0.369216 7:+79617751 None:intergenic
TTCAAATTCAGTTGAAGGCT+TGG 0.371929 7:-79617921 MsaT038693.1:CDS
TTAATCGGCTTAATTTGAAA+TGG 0.383984 7:-79615984 MsaT038693.1:CDS
GGAGGCTTGAGCGGTTGTTC+TGG 0.392707 7:-79617205 MsaT038693.1:intron
ATCTGAGCGGTGAAATTAAT+CGG 0.405130 7:-79615999 MsaT038693.1:CDS
GGAAGTTCAAATTCAGTTGA+AGG 0.407056 7:-79617926 MsaT038693.1:CDS
TGTTGGTTTGCCAGAACGTC+AGG 0.409400 7:-79617761 MsaT038693.1:CDS
TCAAGGTTACAGGGAGGATA+GGG 0.412309 7:-79617663 MsaT038693.1:CDS
GTACCAAATGTATGGGGCTT+TGG 0.414713 7:-79617402 MsaT038693.1:CDS
CTGCCAAAGCCCCATACATT+TGG 0.417656 7:+79617399 None:intergenic
ACACAAACTTGCAGCGTTTG+TGG 0.418146 7:-79615823 MsaT038693.1:CDS
TGCCAATGGATCTCTCTATT+GGG 0.422416 7:-79616124 MsaT038693.1:CDS
ATCACTGCTTCTTAGAGTTA+CGG 0.429117 7:-79616397 MsaT038693.1:CDS
TTTCTCTAATGACCGTAAAC+TGG 0.429918 7:+79616479 None:intergenic
CGTAAACTGGTCTGCATCAC+AGG 0.434963 7:+79616492 None:intergenic
GAAATGCTCGTGTCTTAGAA+TGG 0.443162 7:-79616274 MsaT038693.1:CDS
GATTGAATCTTTAGCAAACT+TGG 0.446051 7:+79616158 None:intergenic
TTTAGCAAACTTGGACCACC+TGG 0.451664 7:+79616167 None:intergenic
TGCAAAATTTCGAGTCCACT+TGG 0.456820 7:-79617582 MsaT038693.1:CDS
ATAAGACCGTACCAAATGTA+TGG 0.463653 7:-79617410 MsaT038693.1:CDS
GGCTTTGGCAGATGCTTCTG+GGG 0.464116 7:-79617387 MsaT038693.1:CDS
CCATCAGTCGCATCAATGTT+GGG 0.475672 7:-79615768 MsaT038693.1:CDS
CCCTTTGTTCTTACACATTG+TGG 0.482784 7:+79615889 None:intergenic
ACCTTTGTTTGTTCATGTCA+AGG 0.486075 7:-79617680 MsaT038693.1:CDS
CAAAATACCGTGGTGATGGT+AGG 0.487602 7:-79616335 MsaT038693.1:CDS
ACCGTGGTGATGGTAGGGTT+TGG 0.493348 7:-79616329 MsaT038693.1:CDS
GCGTCTACCAGGAGTACCAC+TGG 0.495794 7:+79615852 None:intergenic
ATGAACAAACAAAGGTCTGC+TGG 0.497463 7:+79617687 None:intergenic
ATCTACGTTGCTTGGCAACC+TGG 0.500008 7:+79617324 None:intergenic
TCCATCAGTCGCATCAATGT+TGG 0.500041 7:-79615769 MsaT038693.1:CDS
GTGTAAAGTTGTTGCGGAGA+TGG 0.500773 7:-79616061 MsaT038693.1:CDS
TGTTGTACGCATCCTCGTCT+TGG 0.504705 7:+79615707 None:intergenic
AAATTCAGTTGAAGGCTTGG+AGG 0.512939 7:-79617918 MsaT038693.1:CDS
AAACAATGATCTACGTTGCT+TGG 0.514058 7:+79617316 None:intergenic
TTGCAGCGTTTGTGGTGTCA+TGG 0.518568 7:-79615815 MsaT038693.1:CDS
GTCAAGGTTACAGGGAGGAT+AGG 0.518923 7:-79617664 MsaT038693.1:CDS
GCTTTGGCAGATGCTTCTGG+GGG 0.524995 7:-79617386 MsaT038693.1:CDS
CGTCTACCAGGAGTACCACT+GGG 0.526093 7:+79615853 None:intergenic
AAAATACCGTGGTGATGGTA+GGG 0.526246 7:-79616334 MsaT038693.1:CDS
CCACAATGTGTAAGAACAAA+GGG 0.527111 7:-79615889 MsaT038693.1:CDS
CAGGAAGACCGTAATTGGAT+TGG 0.527713 7:+79616511 None:intergenic
TGTGTGCGTCTGCGTCTACC+AGG 0.527784 7:+79615841 None:intergenic
TTCACTTACATTGTAACCCT+CGG 0.528797 7:+79615684 None:intergenic
CACAATCATGTTATGTTAGG+AGG 0.529443 7:-79617515 MsaT038693.1:CDS
TGTCTTAGAATGGAATCGCT+TGG 0.529768 7:-79616264 MsaT038693.1:CDS
CAAAGCAATGGAGATGTCAA+TGG 0.531347 7:-79617947 MsaT038693.1:CDS
CCCAACATTGATGCGACTGA+TGG 0.535314 7:+79615768 None:intergenic
AAAGCTGTATTGACGATGAT+AGG 0.536822 7:-79617226 MsaT038693.1:CDS
TAAGACCGTACCAAATGTAT+GGG 0.537974 7:-79617409 MsaT038693.1:CDS
ACACCATCGCGCTCTAACAA+AGG 0.543044 7:+79618112 None:intergenic
ATTGAGCGTAGTCGAAAAGC+TGG 0.551197 7:-79617434 MsaT038693.1:CDS
TTGTTCATGTCAAGGTTACA+GGG 0.556666 7:-79617672 MsaT038693.1:CDS
GCTAACCCCAGTGGTACTCC+TGG 0.561368 7:-79615859 MsaT038693.1:CDS
GTTTCAAAATACCGTGGTGA+TGG 0.561793 7:-79616339 MsaT038693.1:CDS
GTCCCAATAGAGAGATCCAT+TGG 0.565136 7:+79616122 None:intergenic
AGAAATGGACGGACGTTCAG+AGG 0.566572 7:-79618143 None:intergenic
TCGTAAGGGGCAAGTGGTGA+GGG 0.567327 7:-79617729 MsaT038693.1:CDS
ACGCTCAATTTCAGCTATGT+CGG 0.568884 7:+79617448 None:intergenic
ATCCGTGGTAGTTATGCCAA+TGG 0.569518 7:-79616138 MsaT038693.1:CDS
TTCGTAAGGGGCAAGTGGTG+AGG 0.571006 7:-79617730 MsaT038693.1:CDS
TGCAGCGTTTGTGGTGTCAT+GGG 0.575980 7:-79615814 MsaT038693.1:CDS
TTCAGTTCGTAAGGGGCAAG+TGG 0.578338 7:-79617735 MsaT038693.1:CDS
TGATATAATGAAGATTGACC+TGG 0.579924 7:-79617852 MsaT038693.1:CDS
ATTCCTTCGTCAGTTGACAT+TGG 0.580868 7:+79615733 None:intergenic
TGTGTAAGAACAAAGGGCTG+TGG 0.586971 7:-79615883 MsaT038693.1:CDS
CGAGAATGCTGAGAATGTGT+TGG 0.587048 7:-79615914 MsaT038693.1:CDS
CAAGTGGTGAGGGATCGAAA+TGG 0.589736 7:-79617719 MsaT038693.1:CDS
ACATTGATGCGACTGATGGA+AGG 0.591550 7:+79615772 None:intergenic
GGAAAGGCAAGAAATGTCCA+TGG 0.592217 7:-79616376 MsaT038693.1:CDS
GAAAGGCAAGAAATGTCCAT+GGG 0.594396 7:-79616375 MsaT038693.1:CDS
TCCACAATGTGTAAGAACAA+AGG 0.597614 7:-79615890 MsaT038693.1:CDS
CCAAATGTGTAAAGTTGTTG+CGG 0.598797 7:-79616067 MsaT038693.1:CDS
TTTGCTAAAGATTCAATCCG+TGG 0.606851 7:-79616153 MsaT038693.1:CDS
AACCGTGAAAATAAACCCCA+TGG 0.607032 7:+79616359 None:intergenic
CAAGGTTACAGGGAGGATAG+GGG 0.609406 7:-79617662 MsaT038693.1:CDS
AAACCAACAGTAAAACATGT+AGG 0.611187 7:+79617775 None:intergenic
CGCTCAGATATTCGACAACA+CGG 0.612178 7:+79616013 None:intergenic
AAGGTTACAGGGAGGATAGG+GGG 0.615842 7:-79617661 MsaT038693.1:CDS
AAAGCCCCATACATTTGGTA+CGG 0.620279 7:+79617404 None:intergenic
GCTGTATTGACGATGATAGG+AGG 0.621205 7:-79617223 MsaT038693.1:CDS
ACAAATTGCGAACAAAGCAA+TGG 0.627176 7:-79617959 MsaT038693.1:CDS
TGCTTCTTAGAGTTACGGAA+AGG 0.629851 7:-79616392 MsaT038693.1:CDS
AATTTGTGAACCAGTTCCAG+TGG 0.630564 7:-79615953 MsaT038693.1:CDS
CGAAGGAATTCTCCAAGACG+AGG 0.638814 7:-79615719 MsaT038693.1:CDS
TTCACGGTTTCAAAATACCG+TGG 0.639319 7:-79616345 MsaT038693.1:CDS
ACCTTGACATGAACAAACAA+AGG 0.644270 7:+79617679 None:intergenic
TTGGTATTCAGAGAAATGGA+CGG 0.649153 7:-79618154 None:intergenic
CAAGATACAGAAGCACAGCA+AGG 0.651758 7:+79616223 None:intergenic
GCCTCGACAAAATATCCAAG+TGG 0.653435 7:+79617567 None:intergenic
AATCCTTTGTTAGAGCGCGA+TGG 0.654133 7:-79618115 MsaT038693.1:CDS
TTAGCAAACTTGGACCACCT+GGG 0.656483 7:+79616168 None:intergenic
TGCTGCTAATAAGTTTACGA+AGG 0.658067 7:-79616454 MsaT038693.1:CDS
GGGACTCGCAAATTGCTGCA+AGG 0.660465 7:-79616104 MsaT038693.1:CDS
ATCCATTGGCATAACTACCA+CGG 0.671550 7:+79616136 None:intergenic
ACACCAATGTCAACTGACGA+AGG 0.680831 7:-79615736 MsaT038693.1:CDS
GCCAAACCCTACCATCACCA+CGG 0.683425 7:+79616328 None:intergenic
GAGGATGCGTACAACACCGA+GGG 0.685934 7:-79615700 MsaT038693.1:CDS
ACGATGATAGGAGGCTTGAG+CGG 0.692756 7:-79617214 MsaT038693.1:CDS
GGCTGTGGAGCTAACCCCAG+TGG 0.693658 7:-79615868 MsaT038693.1:CDS
AAGACCGTACCAAATGTATG+GGG 0.707217 7:-79617408 MsaT038693.1:CDS
TTCATGTCAAGGTTACAGGG+AGG 0.709283 7:-79617669 MsaT038693.1:CDS
ACAGCAAGGATATGATCACA+CGG 0.726193 7:+79616237 None:intergenic
ATGTTAGGAGGTACTCTGTG+TGG 0.729376 7:-79617503 MsaT038693.1:CDS
CGAGGATGCGTACAACACCG+AGG 0.735213 7:-79615701 MsaT038693.1:CDS
AAAGGCAAGAAATGTCCATG+GGG 0.755955 7:-79616374 MsaT038693.1:CDS
GTCTACCAGGAGTACCACTG+GGG 0.788532 7:+79615854 None:intergenic
CGTGTTGTCGAATATCTGAG+CGG 0.788889 7:-79616012 MsaT038693.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 79615548 79618161 79615548 ID=MsaG038693
Chr7 mRNA 79615548 79618161 79615548 ID=MsaT038693.1;Parent=MsaG038693
Chr7 exon 79615548 79615586 79615548 ID=MsaT038693.1.exon4;Parent=MsaT038693.1
Chr7 CDS 79615548 79615586 79615548 ID=cds.MsaT038693.1;Parent=MsaT038693.1
Chr7 exon 79615693 79616551 79615693 ID=MsaT038693.1.exon3;Parent=MsaT038693.1
Chr7 CDS 79615693 79616551 79615693 ID=cds.MsaT038693.1;Parent=MsaT038693.1
Chr7 exon 79617206 79618014 79617206 ID=MsaT038693.1.exon2;Parent=MsaT038693.1
Chr7 CDS 79617206 79618014 79617206 ID=cds.MsaT038693.1;Parent=MsaT038693.1
Chr7 exon 79618099 79618161 79618099 ID=MsaT038693.1.exon1;Parent=MsaT038693.1
Chr7 CDS 79618099 79618161 79618099 ID=cds.MsaT038693.1;Parent=MsaT038693.1
Gene Sequence

>MsaT038693.1

ATGGACGGACGTTCAGAGGCTGTGAATCCTTTGTTAGAGCGCGATGGTGTGAGAATTTCAAGAGATTTTGAAGCTGAAAGTGGAGGTAATTACAACACAAATTGCGAACAAAGCAATGGAGATGTCAATGGAAGTTCAAATTCAGTTGAAGGCTTGGAGGATGAAACTAATGAAGTCAATCCGATTATGATAAAAGATATGGTTGATATAATGAAGATTGACCTGGAAAACTTTTGTGTGGCTGATGTGGAAAGATATGAATTTGTTGCTTTAGATGTTGCCTACATGTTTTACTGTTGGTTTGCCAGAACGTCAGGATTTTCAGTTCGTAAGGGGCAAGTGGTGAGGGATCGAAATGGTGAAGTCGTCCAGCAGACCTTTGTTTGTTCATGTCAAGGTTACAGGGAGGATAGGGGGTTAACAATGGAAAACCGAAAGCGTGAGCCAAAAAATGAAACAAGATGTGGGTGTAATGCAAAATTTCGAGTCCACTTGGATATTTTGTCGAGGCACTGGTATGTTACTGTATTTGAATTTGATCACAATCATGTTATGTTAGGAGGTACTCTGTGTGGAATGTTGCCAGCGTATAGAAAAATGAGTGTAGCCGACATAGCTGAAATTGAGCGTAGTCGAAAAGCTGGTATAAGACCGTACCAAATGTATGGGGCTTTGGCAGATGCTTCTGGGGGTTTTCATAAGGTAGGATTTGTTAAAAAAGATTTGTACAACCAGGTTGCCAAGCAACGTAGATCATTGTTTTCTGATGCTTGTGGCGCAGTTAAGTATCTTCGAGATCTTTGCAAAGACGATCCTCTAATGTTTGTGAAAAGCTGTATTGACGATGATAGGAGGCTTGAGCGGTTGTTCTGGGAAATTTTATTTGATTACCAATCCAATTACGGTCTTCCTGTGATGCAGACCAGTTTACGGTCATTAGAGAAATCTGCTGCTAATAAGTTTACGAAGGCGATCTTTCTACTGTTTCGTACCGTGCTGAAAAGATCACTGCTTCTTAGAGTTACGGAAAGGCAAGAAATGTCCATGGGGTTTATTTTCACGGTTTCAAAATACCGTGGTGATGGTAGGGTTTGGCATGTGACATTCTGTGAAGAACCAGTTATTTTGAAATGCTCGTGTCTTAGAATGGAATCGCTTGGTTTGCCGTGTGATCATATCCTTGCTGTGCTTCTGTATCTTGATTTTGATGATCTTCCAAAATGTTTGGTTTTGCCCAGGTGGTCCAAGTTTGCTAAAGATTCAATCCGTGGTAGTTATGCCAATGGATCTCTCTATTGGGACTCGCAAATTGCTGCAAGGTATTCTGGCATAGTCCAAATGTGTAAAGTTGTTGCGGAGATGGTTTACGAAGATGAAGATGAGTACAACCGTGTTGTCGAATATCTGAGCGGTGAAATTAATCGGCTTAATTTGAAATGGAACAACGCAATTTGTGAACCAGTTCCAGTGGCACAAAACAGCACAGACGAGAATGCTGAGAATGTGTTGGATCCACAATGTGTAAGAACAAAGGGCTGTGGAGCTAACCCCAGTGGTACTCCTGGTAGACGCAGACGCACACAAACTTGCAGCGTTTGTGGTGTCATGGGTCACAATAGACGTTGTTGTCCTTCCATCAGTCGCATCAATGTTGGGCAGACACAAACACCAATGTCAACTGACGAAGGAATTCTCCAAGACGAGGATGCGTACAACACCGAGGGTTACAATGTGTATACTCAAATTTTTACGTATATGGTTAATCATTAA
Protein sequence

>MsaT038693.1

MDGRSEAVNPLLERDGVRISRDFEAESGGNYNTNCEQSNGDVNGSSNSVEGLEDETNEVNPIMIKDMVDIMKIDLENFCVADVERYEFVALDVAYMFYCWFARTSGFSVRKGQVVRDRNGEVVQQTFVCSCQGYREDRGLTMENRKREPKNETRCGCNAKFRVHLDILSRHWYVTVFEFDHNHVMLGGTLCGMLPAYRKMSVADIAEIERSRKAGIRPYQMYGALADASGGFHKVGFVKKDLYNQVAKQRRSLFSDACGAVKYLRDLCKDDPLMFVKSCIDDDRRLERLFWEILFDYQSNYGLPVMQTSLRSLEKSAANKFTKAIFLLFRTVLKRSLLLRVTERQEMSMGFIFTVSKYRGDGRVWHVTFCEEPVILKCSCLRMESLGLPCDHILAVLLYLDFDDLPKCLVLPRWSKFAKDSIRGSYANGSLYWDSQIAARYSGIVQMCKVVAEMVYEDEDEYNRVVEYLSGEINRLNLKWNNAICEPVPVAQNSTDENAENVLDPQCVRTKGCGANPSGTPGRRRRTQTCSVCGVMGHNRRCCPSISRINVGQTQTPMSTDEGILQDEDAYNTEGYNVYTQIFTYMVNH*