AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG028993

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028993 MtrunA17_Chr5g0439391 100.000 248 0 0 1 248 51 298 0.0 520
MsaG028993 MtrunA17_Chr2g0289201 65.873 252 71 4 1 242 122 368 2.51e-108 317
MsaG028993 MtrunA17_Chr5g0413201 54.274 234 92 4 2 225 78 306 9.10e-77 234
MsaG028993 MtrunA17_Chr1g0151961 55.508 236 91 3 1 226 124 355 4.11e-75 233
MsaG028993 MtrunA17_Chr1g0192791 49.590 244 98 4 2 228 25 260 1.18e-72 223
MsaG028993 MtrunA17_Chr2g0305101 30.894 246 132 4 1 213 99 339 4.59e-34 125
MsaG028993 MtrunA17_Chr3g0137241 29.388 245 141 4 1 213 111 355 7.01e-34 125
MsaG028993 MtrunA17_Chr1g0149651 31.276 243 137 4 1 213 178 420 8.64e-34 126
MsaG028993 MtrunA17_Chr5g0398181 31.967 244 134 5 2 213 33 276 2.38e-32 120
MsaG028993 MtrunA17_Chr4g0065241 31.600 250 125 8 1 213 75 315 1.01e-29 114
MsaG028993 MtrunA17_Chr8g0373801 39.394 99 53 4 126 219 546 642 2.82e-12 66.2
MsaG028993 MtrunA17_Chr5g0403251 39.362 94 51 3 126 215 494 585 3.77e-12 65.9
MsaG028993 MtrunA17_Chr3g0141941 35.135 111 60 3 111 215 302 406 4.65e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG028993 AT1G62360.1 66.148 257 69 4 1 244 126 377 4.22e-107 315
MsaG028993 AT4G08150.1 55.187 241 93 3 1 229 139 376 6.61e-77 238
MsaG028993 AT1G23380.1 52.361 233 100 4 3 228 92 320 2.90e-74 229
MsaG028993 AT1G70510.1 51.064 235 102 3 2 228 75 304 1.33e-73 227
MsaG028993 AT1G23380.2 51.915 235 100 5 3 228 92 322 2.99e-72 224
MsaG028993 AT1G70510.2 50.209 239 102 4 2 228 75 308 2.41e-71 221
MsaG028993 AT5G25220.2 30.833 240 139 5 1 213 164 403 1.68e-35 131
MsaG028993 AT5G25220.1 30.833 240 139 5 1 213 164 403 2.12e-35 130
MsaG028993 AT5G11060.1 35.366 246 120 9 1 213 128 367 6.76e-35 129
MsaG028993 AT1G62990.1 30.081 246 133 5 2 213 35 275 8.48e-34 124
MsaG028993 AT4G32040.2 27.935 247 137 6 1 213 123 362 2.09e-29 114
MsaG028993 AT4G32040.1 27.935 247 137 6 1 213 123 362 2.33e-29 114
MsaG028993 AT4G36870.2 37.234 94 53 3 126 215 468 559 1.92e-11 63.9
MsaG028993 AT4G36870.1 37.234 94 53 3 126 215 468 559 1.92e-11 63.9
MsaG028993 AT2G23760.2 37.234 94 53 3 126 215 394 485 2.68e-11 63.5
MsaG028993 AT2G23760.1 37.234 94 53 3 126 215 394 485 2.68e-11 63.5
MsaG028993 AT2G23760.3 37.234 94 53 3 126 215 394 485 2.68e-11 63.5
MsaG028993 AT1G14760.2 33.962 106 57 3 2 102 39 136 8.18e-11 58.9
MsaG028993 AT2G27990.1 50.909 55 27 0 161 215 431 485 8.20e-11 62.0
MsaG028993 AT5G41410.1 40.698 86 43 2 161 240 398 481 8.49e-11 62.0

Find 54 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTCTGCAAGTGCTTGCTTT+TGG 0.251155 5:+71643781 None:intergenic
TGTTGATCTGCTTCAAATCT+AGG 0.290613 5:+71643751 None:intergenic
GAAATATTGAATGGCTCTTC+AGG 0.317305 5:-71647107 MsaT028993.1:CDS
CTCTTACCTCAATTGCTTGA+AGG 0.355056 5:-71647488 MsaT028993.1:intron
TCTAAGCTAGCCACCACTTC+AGG 0.359706 5:+71647149 None:intergenic
CTTCACCTTGAGTAGTATCT+AGG 0.374756 5:+71644790 None:intergenic
TCCAGGTTTGGATCAGTTCA+TGG 0.403203 5:-71647048 MsaT028993.1:CDS
TGAAGTGGTGGCTAGCTTAG+AGG 0.404107 5:-71647147 MsaT028993.1:CDS
GAAAAGCATGGCTTCTTTGA+AGG 0.406625 5:+71646977 None:intergenic
CGCAAGTATAGTGGATATCT+AGG 0.434219 5:-71644741 MsaT028993.1:CDS
TACTACTCAAGGTGAAGATC+AGG 0.439850 5:-71644784 MsaT028993.1:CDS
AGTTGCTGTCGAGCTTCCTT+TGG 0.440818 5:+71644672 None:intergenic
GGCATAGCATCCATAGGAAA+TGG 0.441925 5:+71643624 None:intergenic
CTCGACAGCAACTACTTGAT+TGG 0.448986 5:-71644662 MsaT028993.1:CDS
TATAGGTGAAGATCCAGGTT+TGG 0.460482 5:-71647060 MsaT028993.1:CDS
GGAAGTAGTAGTTCTTGTAT+AGG 0.474614 5:-71647077 MsaT028993.1:CDS
AACTACTTGATTGGTGGAGC+AGG 0.476464 5:-71644653 MsaT028993.1:CDS
ATTTGAAGCAGATCAACAAT+TGG 0.483386 5:-71643746 MsaT028993.1:CDS
TCAGGACCTTCAAGCAATTG+AGG 0.486076 5:+71647482 None:intergenic
GTTGCTGTTTCAACTGACTT+TGG 0.488737 5:-71646924 MsaT028993.1:intron
CAGCTTCTACGCAAGTATAG+TGG 0.489736 5:-71644750 MsaT028993.1:CDS
AAAAGCATGGCTTCTTTGAA+GGG 0.505700 5:+71646978 None:intergenic
GGATATGCAATTTGCTGTGA+TGG 0.523714 5:-71643685 MsaT028993.1:CDS
GCTGAGACTCAATTCTTGAA+AGG 0.524479 5:+71646955 None:intergenic
GGTGGAGCAGGCATTACAAA+TGG 0.526535 5:-71644641 MsaT028993.1:CDS
TCCATGAACTGATCCAAACC+TGG 0.528067 5:+71647047 None:intergenic
GACAGCAACTACTTGATTGG+TGG 0.536393 5:-71644659 MsaT028993.1:CDS
AGAATAGTTACCGATGGGTA+AGG 0.537725 5:+71644618 None:intergenic
CTTCAAGCAATTGAGGTAAG+AGG 0.538407 5:+71647489 None:intergenic
TCTTGTATAGGTGAAGATCC+AGG 0.538996 5:-71647065 MsaT028993.1:CDS
AATGGCTCTTCAGGAAGGAC+AGG 0.539828 5:-71647098 MsaT028993.1:CDS
GACAAGAGACGAGGAAAGAG+AGG 0.541929 5:+71647511 None:intergenic
AAGAATTGAGTCTCAGCTCA+AGG 0.557965 5:-71646949 MsaT028993.1:CDS
AATTCTTGAAAGGAAAAGCA+TGG 0.577216 5:+71646965 None:intergenic
TTAATGTGCTAAAGAAGCAT+AGG 0.578609 5:+71643603 None:intergenic
TTAATCAGAGAAAACGCCAC+TGG 0.580206 5:-71643719 MsaT028993.1:CDS
GGATGCCACAAATTACTACA+TGG 0.582043 5:-71643664 MsaT028993.1:CDS
GATGTGCAAGCCATTTCCTA+TGG 0.586987 5:-71643634 MsaT028993.1:CDS
GGTTGGAGCACCTCCTGAAG+TGG 0.595718 5:-71647162 MsaT028993.1:CDS
CAAGCACTTGCAGAATCCAC+AGG 0.600586 5:-71643774 MsaT028993.1:CDS
GCAAAATGTGAAATATTGAA+TGG 0.601951 5:-71647116 MsaT028993.1:CDS
TTACAAATGGCCTTACCCAT+CGG 0.606989 5:-71644628 MsaT028993.1:intron
TGGAGCACCTCCTGAAGTGG+TGG 0.608141 5:-71647159 MsaT028993.1:CDS
CTGCTTCAAATCTAGGCCTG+TGG 0.610652 5:+71643758 None:intergenic
TATTGAATGGCTCTTCAGGA+AGG 0.613053 5:-71647103 MsaT028993.1:CDS
GCAAATTGCATATCCTCAGA+AGG 0.614720 5:+71643693 None:intergenic
ACGCCACTGGAAGCCTTCTG+AGG 0.619253 5:-71643706 MsaT028993.1:CDS
AGCATAGGCATAGCATCCAT+AGG 0.634428 5:+71643618 None:intergenic
AAAGAATGGAAAGTTACCAA+AGG 0.641055 5:-71644688 MsaT028993.1:CDS
AAGCTAGCCACCACTTCAGG+AGG 0.647427 5:+71647152 None:intergenic
AACAACCTAGATACTACTCA+AGG 0.648557 5:-71644795 MsaT028993.1:CDS
TATCCTCAGAAGGCTTCCAG+TGG 0.672824 5:+71643703 None:intergenic
AGGTAAGAGGACAAGAGACG+AGG 0.679022 5:+71647502 None:intergenic
AGGTTTGGATCAGTTCATGG+AGG 0.735955 5:-71647045 MsaT028993.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 71643611 71647542 71643611 ID=MsaG028993
Chr5 mRNA 71643611 71647542 71643611 ID=MsaT028993.1;Parent=MsaG028993
Chr5 exon 71643611 71643808 71643611 ID=MsaT028993.1.exon4;Parent=MsaT028993.1
Chr5 CDS 71643611 71643808 71643611 ID=cds.MsaT028993.1;Parent=MsaT028993.1
Chr5 exon 71644629 71644864 71644629 ID=MsaT028993.1.exon3;Parent=MsaT028993.1
Chr5 CDS 71644629 71644864 71644629 ID=cds.MsaT028993.1;Parent=MsaT028993.1
Chr5 exon 71646925 71647183 71646925 ID=MsaT028993.1.exon2;Parent=MsaT028993.1
Chr5 CDS 71646925 71647183 71646925 ID=cds.MsaT028993.1;Parent=MsaT028993.1
Chr5 exon 71647489 71647542 71647489 ID=MsaT028993.1.exon1;Parent=MsaT028993.1
Chr5 CDS 71647489 71647542 71647489 ID=cds.MsaT028993.1;Parent=MsaT028993.1
Gene Sequence

>MsaT028993.1

ATGGCTCATCCTCTCTTTCCTCGTCTCTTGTCCTCTTACCTCAATTGCTTGAAGGTTGGAGCACCTCCTGAAGTGGTGGCTAGCTTAGAGGAGTCATGTGCAAAATGTGAAATATTGAATGGCTCTTCAGGAAGGACAGGAAGTAGTAGTTCTTGTATAGGTGAAGATCCAGGTTTGGATCAGTTCATGGAGGCATATTGTGAGATGCTTATCAAGTATGAGCAAGAACTCACTAAACCCTTCAAAGAAGCCATGCTTTTCCTTTCAAGAATTGAGTCTCAGCTCAAGGCTGTTGCTGTTTCAACTGACTTTGGTCAAAGTGAATTTGCAGCTTCACAGAATGAGATTGATGTGCATGAAAACAACCTAGATACTACTCAAGGTGAAGATCAGGAATTAAAAGTGCAGCTTCTACGCAAGTATAGTGGATATCTAGGAAGCCTTAAGAAAGAGTTTTTGAAGAAGAAAAAGAATGGAAAGTTACCAAAGGAAGCTCGACAGCAACTACTTGATTGGTGGAGCAGGCATTACAAATGGCCTTACCCATCGGAATCCCAAAAGCAAGCACTTGCAGAATCCACAGGCCTAGATTTGAAGCAGATCAACAATTGGTTCATTAATCAGAGAAAACGCCACTGGAAGCCTTCTGAGGATATGCAATTTGCTGTGATGGATGCCACAAATTACTACATGGAAAATGTGATGTGCAAGCCATTTCCTATGGATGCTATGCCTATGCTTCTTTAG
Protein sequence

>MsaT028993.1

MAHPLFPRLLSSYLNCLKVGAPPEVVASLEESCAKCEILNGSSGRTGSSSSCIGEDPGLDQFMEAYCEMLIKYEQELTKPFKEAMLFLSRIESQLKAVAVSTDFGQSEFAASQNEIDVHENNLDTTQGEDQELKVQLLRKYSGYLGSLKKEFLKKKKNGKLPKEARQQLLDWWSRHYKWPYPSESQKQALAESTGLDLKQINNWFINQRKRHWKPSEDMQFAVMDATNYYMENVMCKPFPMDAMPMLL*