AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG041429

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG041429 MtrunA17_Chr8g0340401 98.538 342 4 1 1 341 1 342 0.0 702
MsaG041429 MtrunA17_Chr1g0146231 46.429 336 134 11 35 341 26 344 6.55e-83 255
MsaG041429 MtrunA17_Chr3g0140331 45.082 366 128 11 1 341 47 364 4.68e-81 251
MsaG041429 MtrunA17_Chr8g0372291 39.362 282 119 7 31 295 41 287 1.63e-48 164
MsaG041429 MtrunA17_Chr4g0035891 38.489 278 120 10 33 295 39 280 3.04e-43 151
MsaG041429 MtrunA17_Chr5g0404981 40.336 238 80 6 102 295 150 369 6.72e-41 147
MsaG041429 MtrunA17_Chr3g0145121 36.786 280 126 6 33 295 39 284 1.72e-40 144
MsaG041429 MtrunA17_Chr6g0461591 39.316 234 76 10 115 292 35 258 7.11e-36 130
MsaG041429 MtrunA17_Chr1g0169431 58.824 119 44 3 179 295 126 241 3.12e-35 128
MsaG041429 MtrunA17_Chr5g0395391 76.389 72 17 0 225 296 269 340 2.19e-33 126
MsaG041429 MtrunA17_Chr5g0395391 76.923 65 15 0 225 289 167 231 2.73e-29 115
MsaG041429 MtrunA17_Chr1g0199671 58.333 96 33 1 226 321 242 330 5.01e-33 125
MsaG041429 MtrunA17_Chr7g0253101 75.385 65 16 0 226 290 188 252 3.67e-31 118
MsaG041429 MtrunA17_Chr4g0028961 52.727 110 40 1 212 321 218 315 3.04e-30 117
MsaG041429 MtrunA17_Chr1g0213161 69.333 75 21 1 226 298 152 226 1.03e-29 114
MsaG041429 MtrunA17_Chr2g0326771 75.385 65 16 0 226 290 216 280 1.52e-29 115
MsaG041429 MtrunA17_Chr7g0232671 53.947 76 34 1 213 287 173 248 2.91e-21 91.3
MsaG041429 MtrunA17_Chr7g0232681 31.492 181 107 4 107 287 30 193 2.26e-19 84.7
MsaG041429 MtrunA17_Chr7g0232701 56.452 62 27 0 226 287 73 134 1.79e-18 80.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG041429 AT4G32890.1 48.457 324 121 13 33 341 16 308 1.14e-82 253
MsaG041429 AT5G25830.1 45.404 359 103 15 35 341 14 331 7.68e-73 229
MsaG041429 AT3G60530.1 48.792 207 58 8 101 298 63 230 8.75e-49 164
MsaG041429 AT2G45050.1 44.954 218 67 5 104 300 68 253 2.79e-48 163
MsaG041429 AT5G66320.2 41.277 235 79 6 102 294 100 317 6.32e-41 146
MsaG041429 AT5G66320.1 41.277 235 79 6 102 294 100 317 6.32e-41 146
MsaG041429 AT4G36240.1 39.114 271 103 10 35 293 11 231 2.38e-40 142
MsaG041429 AT4G34680.1 44.444 189 73 3 107 295 93 249 2.67e-39 140
MsaG041429 AT4G34680.2 44.444 189 73 3 107 295 93 249 2.67e-39 140
MsaG041429 AT1G08010.2 76.056 71 17 0 226 296 220 290 9.32e-34 126
MsaG041429 AT1G08010.1 76.056 71 17 0 226 296 220 290 9.32e-34 126
MsaG041429 AT1G08010.3 76.056 71 17 0 226 296 220 290 9.32e-34 126
MsaG041429 AT3G24050.1 77.941 68 15 0 225 292 193 260 1.43e-33 125
MsaG041429 AT3G54810.1 61.290 93 36 0 226 318 229 321 2.64e-33 125
MsaG041429 AT3G54810.2 61.290 93 36 0 226 318 229 321 2.64e-33 125
MsaG041429 AT3G51080.1 73.913 69 18 0 226 294 221 289 7.08e-31 119
MsaG041429 AT1G08000.2 74.627 67 17 0 226 292 218 284 1.13e-30 118
MsaG041429 AT1G08000.1 74.627 67 17 0 226 292 218 284 1.13e-30 118
MsaG041429 AT3G45170.1 57.143 77 33 0 218 294 107 183 4.62e-26 103
MsaG041429 AT2G28340.1 68.254 63 20 0 228 290 193 255 4.50e-25 103
MsaG041429 AT3G06740.1 32.990 97 40 2 226 307 41 127 5.94e-11 60.5

Find 89 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTCCTGGTAGAGGTGTTTC+TGG 0.198536 8:+6739158 None:intergenic
GGAAGAGTCGGTGGAATTTC+CGG 0.199866 8:+6739615 None:intergenic
GGAGGCACAATTGTTCCTTA+TGG 0.277726 8:-6739535 MsaT041429.1:CDS
GAATTCTCATAGGAAAGTTT+TGG 0.321671 8:-6738841 MsaT041429.1:CDS
GACGCTTCTCCGGCGAGAAT+TGG 0.338370 8:+6739743 None:intergenic
TCCTCACGCTTCTTCACAAT+TGG 0.355227 8:+6739050 None:intergenic
GTATGATGACATGGCGGAAC+TGG 0.373031 8:-6739357 MsaT041429.1:CDS
TCTCCGGCGAGAATTGGTTT+TGG 0.374243 8:+6739749 None:intergenic
AGGCGCGTGGACCAGTCTCC+TGG 0.390187 8:+6739107 None:intergenic
CTTCCAGAACATTCCACATT+CGG 0.390638 8:+6739026 None:intergenic
GATCCGAATGTGGAATGTTC+TGG 0.407889 8:-6739029 MsaT041429.1:CDS
AGACATAATCGCGTCGGCAT+TGG 0.413357 8:+6739663 None:intergenic
CACGCGCTGCTCCAGGAGAC+TGG 0.436417 8:-6739118 MsaT041429.1:CDS
AAACGCTCACGCGCTGCTCC+AGG 0.438274 8:-6739125 MsaT041429.1:CDS
AGCTGTAACTCGTCTGGCTC+TGG 0.462242 8:-6739574 MsaT041429.1:CDS
ATCAATTATCATCATCATTG+TGG 0.463155 8:-6738702 MsaT041429.1:CDS
TACTTTGTCGGTGGCTACTA+CGG 0.465894 8:-6739778 MsaT041429.1:CDS
AAGACGCCGCAGTGGAGAAC+AGG 0.467796 8:-6738978 MsaT041429.1:CDS
TGGTCACCGTGACGCTTCTC+CGG 0.476812 8:+6739733 None:intergenic
CGAAGCATTCGAATTCTCAT+AGG 0.477067 8:-6738851 MsaT041429.1:CDS
GCGCGTCGGGGAGATGTAGT+AGG 0.479766 8:+6739087 None:intergenic
TCAATTATCATCATCATTGT+GGG 0.480828 8:-6738701 MsaT041429.1:CDS
GAAGCACAAGATTACTTTGT+CGG 0.482794 8:-6739790 MsaT041429.1:CDS
CACCGGTGAACTCTGTGTTC+CGG 0.483064 8:-6739491 MsaT041429.1:intron
TCCGGTGATGTTCAACTCAC+CGG 0.487659 8:-6739508 MsaT041429.1:CDS
GTTGACAGCTGTAACTCGTC+TGG 0.493159 8:-6739580 MsaT041429.1:CDS
AAAACATTGCAACTTCTCTC+CGG 0.498282 8:-6739284 MsaT041429.1:CDS
CGGTTTAACAGCACCGGCGC+CGG 0.503197 8:+6739265 None:intergenic
GATGAAGATTCCGGTGTTTG+CGG 0.503689 8:+6739245 None:intergenic
TAAGTCCGGTAGGTTGGTGC+CGG 0.508279 8:-6738910 MsaT041429.1:CDS
TTGCAACTTCTCTCCGGCGC+CGG 0.510336 8:-6739278 MsaT041429.1:CDS
TCTGGTGGTGATAACCGCTT+TGG 0.512040 8:-6739556 MsaT041429.1:CDS
CAGTGGAGAACAGGACCAAT+GGG 0.512631 8:-6738969 MsaT041429.1:CDS
GAAATCAAGTAAATCATCAA+TGG 0.517205 8:+6739687 None:intergenic
GGTGGTGATAACCGCTTTGG+AGG 0.525558 8:-6739553 MsaT041429.1:CDS
TGCTTCGCCGATACAAAAGT+TGG 0.526129 8:+6738867 None:intergenic
CTCGCCGCCGGTCGATACTC+CGG 0.528513 8:+6738891 None:intergenic
GTCGGTGGCTACTACGGTGC+CGG 0.534317 8:-6739772 MsaT041429.1:CDS
CTGGTAGAGGTGTTTCTGGA+CGG 0.544153 8:+6739162 None:intergenic
CGTCCAGAAACACCTCTACC+AGG 0.545940 8:-6739161 MsaT041429.1:CDS
GGAATGGCTTTCGAATTTCG+TGG 0.546230 8:-6739336 MsaT041429.1:CDS
ACCGGTGAGTTGAACATCAC+CGG 0.549777 8:+6739507 None:intergenic
TCGGTGGAAGATGAAGATTC+CGG 0.552072 8:+6739236 None:intergenic
TTCTTCGATAACAATGTCGC+CGG 0.552150 8:-6739634 MsaT041429.1:CDS
ATACTCCGGCACCAACCTAC+CGG 0.552745 8:+6738905 None:intergenic
GAGGTTTAAGTCCGGTAGGT+TGG 0.552850 8:-6738916 MsaT041429.1:CDS
GTTTCGTCGGTGGAGAATGA+AGG 0.553392 8:+6739206 None:intergenic
GCTGTCAACAGCGGTGACAT+TGG 0.554444 8:+6739594 None:intergenic
GCAGTGGAGAACAGGACCAA+TGG 0.555338 8:-6738970 MsaT041429.1:CDS
AGCGGTGACATTGGAAGAGT+CGG 0.570500 8:+6739603 None:intergenic
TGCTGTTAAACCGCAAACAC+CGG 0.571815 8:-6739255 MsaT041429.1:CDS
TGTTTGCGGTTTAACAGCAC+CGG 0.574755 8:+6739259 None:intergenic
ACAAAAGTTGGACTCGCCGC+CGG 0.580278 8:+6738879 None:intergenic
ATGACATGGCGGAACTGGAA+TGG 0.581462 8:-6739352 MsaT041429.1:CDS
TACCGGAACACAGAGTTCAC+CGG 0.583290 8:+6739489 None:intergenic
TAGATAACATGTCTAAACTC+TGG 0.596187 8:+6738678 None:intergenic
GTTGGTGCCGGAGTATCGAC+CGG 0.600084 8:-6738898 MsaT041429.1:CDS
TGTAACTCGTCTGGCTCTGG+TGG 0.609264 8:-6739571 MsaT041429.1:CDS
GAATGAAGGAAGTGTGTCGG+TGG 0.610970 8:+6739220 None:intergenic
AGTAAATCATCAATGGCGAA+AGG 0.614239 8:+6739694 None:intergenic
TTCTCGCCGGAGAAGCGTCA+CGG 0.616797 8:-6739739 MsaT041429.1:CDS
TCAATGGCGAAAGGCTCACA+CGG 0.620341 8:+6739703 None:intergenic
GGGGAGATGTAGTAGGCGCG+TGG 0.625946 8:+6739094 None:intergenic
CGGCCAAAACCAATTCTCGC+CGG 0.631060 8:-6739752 MsaT041429.1:CDS
GCCGACGCGATTATGTCTGA+CGG 0.636094 8:-6739658 MsaT041429.1:CDS
GCACAAGATTACTTTGTCGG+TGG 0.638723 8:-6739787 MsaT041429.1:CDS
GTTACGAGCAGTTTCGTCGG+TGG 0.641102 8:+6739196 None:intergenic
TGTGGTGTGAGGTTTAAGTC+CGG 0.641447 8:-6738924 MsaT041429.1:CDS
GTGTGAGGTTTAAGTCCGGT+AGG 0.641902 8:-6738920 MsaT041429.1:CDS
ACCGTCAGACATAATCGCGT+CGG 0.646289 8:+6739657 None:intergenic
AATTTCATAGTATGATGACA+TGG 0.646855 8:-6739366 MsaT041429.1:intron
AAAATGTCTCCACTGCGGCA+CGG 0.653917 8:-6739003 MsaT041429.1:CDS
GAAGCGTGAGGATCCGAATG+TGG 0.654903 8:-6739039 MsaT041429.1:CDS
AGCGTTACGAGCAGTTTCGT+CGG 0.655792 8:+6739193 None:intergenic
GCGTCTTATCCGTGCCGCAG+TGG 0.667437 8:+6738994 None:intergenic
GGTGACATTGGAAGAGTCGG+TGG 0.674783 8:+6739606 None:intergenic
TATGCAATGCGTGTGGTGTG+AGG 0.675574 8:-6738935 MsaT041429.1:CDS
GCACGGATAAGACGCCGCAG+TGG 0.685559 8:-6738986 MsaT041429.1:CDS
GGAGAATGAAGGAAGTGTGT+CGG 0.695811 8:+6739217 None:intergenic
TTCGGCGTTTCATCTAACGG+TGG 0.696201 8:-6738735 MsaT041429.1:CDS
TCCAATTGTGAAGAAGCGTG+AGG 0.700580 8:-6739051 MsaT041429.1:CDS
GGTGCCGGAGTATCGACCGG+CGG 0.709828 8:-6738895 MsaT041429.1:CDS
CGAGTTACAGCTGTCAACAG+CGG 0.715870 8:+6739585 None:intergenic
TTCATAGTATGATGACATGG+CGG 0.725133 8:-6739363 MsaT041429.1:intron
GAACAATTGTGCCTCCAAAG+CGG 0.725448 8:+6739542 None:intergenic
AAAACACTATGCAATGCGTG+TGG 0.749100 8:-6738942 MsaT041429.1:CDS
ATTGGTCCTGTTCTCCACTG+CGG 0.754224 8:+6738972 None:intergenic
ATGGCGAAAGGCTCACACGG+TGG 0.757233 8:+6739706 None:intergenic
GGAAGAAAATGTCTCCACTG+CGG 0.780752 8:-6739008 MsaT041429.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 6738677 6739815 6738677 ID=MsaG041429
Chr8 mRNA 6738677 6739815 6738677 ID=MsaT041429.1;Parent=MsaG041429
Chr8 exon 6738677 6739378 6738677 ID=MsaT041429.1.exon2;Parent=MsaT041429.1
Chr8 CDS 6738677 6739378 6738677 ID=cds.MsaT041429.1;Parent=MsaT041429.1
Chr8 exon 6739492 6739815 6739492 ID=MsaT041429.1.exon1;Parent=MsaT041429.1
Chr8 CDS 6739492 6739815 6739492 ID=cds.MsaT041429.1;Parent=MsaT041429.1
Gene Sequence

>MsaT041429.1

ATGGAAGCACAAGATTACTTTGTCGGTGGCTACTACGGTGCCGGCCAAAACCAATTCTCGCCGGAGAAGCGTCACGGTGACCAAAAACCACCGTGTGAGCCTTTCGCCATTGATGATTTACTTGATTTCTCCAATGCCGACGCGATTATGTCTGACGGTTTCTTCGATAACAATGTCGCCGGAAATTCCACCGACTCTTCCAATGTCACCGCTGTTGACAGCTGTAACTCGTCTGGCTCTGGTGGTGATAACCGCTTTGGAGGCACAATTGTTCCTTATGGTTTTTCCGGTGATGTTCAACTCACCGGTGAACTCTGTGTTCCGTATGATGACATGGCGGAACTGGAATGGCTTTCGAATTTCGTGGAAGATTCATACTCCGCTGAAGAAGAATTGAAAACATTGCAACTTCTCTCCGGCGCCGGTGCTGTTAAACCGCAAACACCGGAATCTTCATCTTCCACCGACACACTTCCTTCATTCTCCACCGACGAAACTGCTCGTAACGCTTCATTTCTCCGTCCAGAAACACCTCTACCAGGAAAAGCACGTAGCAAACGCTCACGCGCTGCTCCAGGAGACTGGTCCACGCGCCTACTACATCTCCCCGACGCGCCACCGAAAAGTTATCCAATTGTGAAGAAGCGTGAGGATCCGAATGTGGAATGTTCTGGAAGAAAATGTCTCCACTGCGGCACGGATAAGACGCCGCAGTGGAGAACAGGACCAATGGGACCAAAAACACTATGCAATGCGTGTGGTGTGAGGTTTAAGTCCGGTAGGTTGGTGCCGGAGTATCGACCGGCGGCGAGTCCAACTTTTGTATCGGCGAAGCATTCGAATTCTCATAGGAAAGTTTTGGAACTTCGAAGACAGAAAGAGATGCAAAGATCATCACAGCATCATCATCATCATCAACAACAGCTTATGAGTCACAGTTCAATTTTCGGCGTTTCATCTAACGGTGGAGATGATTTCATCAATTATCATCATCATTGTGGGCCAGAGTTTAGACATGTTATCTAG
Protein sequence

>MsaT041429.1

MEAQDYFVGGYYGAGQNQFSPEKRHGDQKPPCEPFAIDDLLDFSNADAIMSDGFFDNNVAGNSTDSSNVTAVDSCNSSGSGGDNRFGGTIVPYGFSGDVQLTGELCVPYDDMAELEWLSNFVEDSYSAEEELKTLQLLSGAGAVKPQTPESSSSTDTLPSFSTDETARNASFLRPETPLPGKARSKRSRAAPGDWSTRLLHLPDAPPKSYPIVKKREDPNVECSGRKCLHCGTDKTPQWRTGPMGPKTLCNACGVRFKSGRLVPEYRPAASPTFVSAKHSNSHRKVLELRRQKEMQRSSQHHHHHQQQLMSHSSIFGVSSNGGDDFINYHHHCGPEFRHVI*