AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG009552

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009552 MtrunA17_Chr2g0314671 98.299 294 5 0 1 294 1 294 0.0 606
MsaG009552 MtrunA17_Chr4g0033641 60.550 109 43 0 1 109 1 109 3.88e-43 147
MsaG009552 MtrunA17_Chr2g0329511 40.314 191 79 3 1 191 1 156 1.73e-42 146
MsaG009552 MtrunA17_Chr3g0145061 50.685 146 71 1 1 145 1 146 5.07e-41 142
MsaG009552 MtrunA17_Chr4g0035651 54.717 106 47 1 1 105 1 106 6.70e-36 128
MsaG009552 MtrunA17_Chr3g0142221 54.717 106 46 1 1 104 1 106 8.83e-36 128
MsaG009552 MtrunA17_Chr1g0155811 54.286 105 47 1 1 104 1 105 1.07e-35 129
MsaG009552 MtrunA17_Chr5g0405151 50.000 104 49 2 1 104 1 101 1.05e-26 103
MsaG009552 MtrunA17_Chr1g0150471 41.667 96 47 1 5 100 6 92 7.29e-19 85.1
MsaG009552 MtrunA17_Chr3g0136701 44.792 96 44 1 5 100 6 92 1.22e-18 84.0
MsaG009552 MtrunA17_Chr7g0220721 43.478 92 43 1 5 96 26 108 1.35e-17 82.4
MsaG009552 MtrunA17_Chr4g0072871 38.043 92 48 1 5 96 22 104 1.31e-14 73.6
MsaG009552 MtrunA17_Chr5g0429341 33.333 96 55 1 1 96 1 87 2.42e-11 63.9
MsaG009552 MtrunA17_Chr2g0322941 29.747 158 89 4 1 147 40 186 8.02e-11 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG009552 AT1G78600.1 52.448 286 114 4 1 273 1 277 2.77e-93 278
MsaG009552 AT1G78600.2 48.693 306 115 5 1 273 1 297 1.98e-91 274
MsaG009552 AT1G06040.2 64.220 109 39 0 1 109 1 109 1.90e-46 154
MsaG009552 AT1G06040.1 64.220 109 39 0 1 109 1 109 6.98e-46 155
MsaG009552 AT2G31380.1 61.468 109 42 0 1 109 1 109 2.27e-42 146
MsaG009552 AT4G10240.1 49.701 167 62 5 1 161 1 151 8.83e-41 139
MsaG009552 AT1G75540.1 40.090 222 114 6 1 211 1 214 4.45e-36 132
MsaG009552 AT4G39070.1 49.640 139 68 2 1 138 1 138 1.74e-35 128
MsaG009552 AT2G21320.1 50.000 104 49 2 1 104 1 101 1.51e-26 102
MsaG009552 AT4G38960.1 40.580 138 78 3 1 138 1 134 3.08e-26 102
MsaG009552 AT4G38960.6 40.580 138 78 3 1 138 1 134 3.08e-26 102
MsaG009552 AT5G15850.1 42.857 98 47 1 5 102 12 100 3.29e-18 84.0
MsaG009552 AT2G24790.1 41.667 96 47 1 5 100 8 94 9.97e-18 82.0
MsaG009552 AT5G24930.1 42.708 96 46 1 5 100 6 92 1.05e-17 82.8
MsaG009552 AT4G38960.3 30.939 181 78 4 1 138 1 177 1.49e-17 80.1
MsaG009552 AT3G02380.1 43.011 93 44 1 5 97 16 99 1.73e-17 82.0
MsaG009552 AT2G24790.2 41.667 96 47 1 5 100 8 94 3.08e-17 79.3
MsaG009552 AT5G15840.1 37.755 98 52 1 5 102 20 108 5.18e-16 77.8
MsaG009552 AT5G15840.2 39.785 93 47 1 5 97 20 103 1.12e-15 75.9
MsaG009552 AT2G47890.1 38.710 93 48 1 5 97 13 96 1.13e-12 67.8
MsaG009552 AT2G47890.3 38.710 93 48 1 5 97 13 96 1.14e-12 67.4
MsaG009552 AT2G47890.2 38.710 93 48 1 5 97 13 96 3.50e-12 65.5
MsaG009552 AT5G57660.1 34.783 92 47 2 5 96 22 100 2.69e-11 63.9
MsaG009552 AT4G38960.5 33.981 103 64 3 36 138 3 101 6.20e-11 60.1
MsaG009552 AT4G38960.2 33.981 103 64 3 36 138 3 101 6.20e-11 60.1

Find 60 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTTCATTGGATCTTAAATT+AGG 0.220665 2:-61186275 None:intergenic
CCACCAGCCAAGGTGTCTTA+TGG 0.275750 2:+61185409 MsaT009552.1:CDS
CCTACCGAAGCCGGAGGATT+TGG 0.277213 2:+61185379 MsaT009552.1:CDS
GTATTCCATTTCCTCTTCAT+TGG 0.294524 2:-61186288 None:intergenic
AATTCGTTGAAGACAGATTC+TGG 0.304552 2:+61185271 MsaT009552.1:CDS
CGATAATGCTCTATTTGTTC+CGG 0.320546 2:+61186418 MsaT009552.1:CDS
CTACAGCTTCGGGGCTAAAC+TGG 0.326015 2:+61186372 MsaT009552.1:CDS
CCTTCACCACCTACAGCTTC+GGG 0.337772 2:+61186362 MsaT009552.1:CDS
TTCCGTGATCAGTAGCTTCT+AGG 0.348013 2:-61185240 None:intergenic
CCCTTCACCACCTACAGCTT+CGG 0.376461 2:+61186361 MsaT009552.1:CDS
GGAACTGTCCAAGACGAATC+TGG 0.395347 2:-61186332 None:intergenic
ATCTGTCTTCAACGAATTTG+AGG 0.404754 2:-61185266 None:intergenic
TGATGAAGCTGCTTTGTGTT+GGG 0.412693 2:+61183898 MsaT009552.1:CDS
AAGATCCAATGAAGAGGAAA+TGG 0.413798 2:+61186283 MsaT009552.1:CDS
ACCTGACAAATATCACATTT+AGG 0.415653 2:-61184004 None:intergenic
ATCTCCAAATCCTCCGGCTT+CGG 0.419987 2:-61185383 None:intergenic
ATCTTCTTCTGTCTCGAGAA+AGG 0.428233 2:+61185315 MsaT009552.1:CDS
GCTCTATTTGTTCCGGACAT+AGG 0.432303 2:+61186425 MsaT009552.1:CDS
TAAATCTTTCAGGAAGCATT+CGG 0.445968 2:+61185097 MsaT009552.1:intron
GCCTAAATGTGATATTTGTC+AGG 0.459129 2:+61184003 MsaT009552.1:CDS
CTGATGAAGCTGCTTTGTGT+TGG 0.463397 2:+61183897 MsaT009552.1:CDS
TATGGTGGTGGTTCTAACTC+TGG 0.487845 2:+61185427 MsaT009552.1:CDS
GAAATGTTGCCTACCGAAGC+CGG 0.489819 2:+61185370 MsaT009552.1:CDS
TGGATGGATCATCAAATTCA+AGG 0.498918 2:+61185518 MsaT009552.1:CDS
CAGTCAGAATTATAACTACA+TGG 0.503150 2:+61185498 MsaT009552.1:CDS
GCCAAGGTGTCTTATGGTGG+TGG 0.508324 2:+61185415 MsaT009552.1:CDS
CCCGAAGCTGTAGGTGGTGA+AGG 0.511688 2:-61186362 None:intergenic
CCACCATAAGACACCTTGGC+TGG 0.515474 2:-61185412 None:intergenic
ACTGCAAATGCATTTGTCTC+AGG 0.516070 2:+61185181 MsaT009552.1:CDS
TGGAAAATCTCCAAATCCTC+CGG 0.517904 2:-61185389 None:intergenic
CAGAATTATAACTACATGGA+TGG 0.518101 2:+61185502 MsaT009552.1:CDS
ACCGTGTTCCAGATTCGTCT+TGG 0.527866 2:+61186324 MsaT009552.1:CDS
TCATTGTACTCAGATGATTG+AGG 0.549321 2:-61185349 None:intergenic
TGAGAAGAAGAAGCAGAAAG+AGG 0.549965 2:-61183977 None:intergenic
CTTCTCACCGGTGTAAAAGT+CGG 0.551046 2:+61185217 MsaT009552.1:CDS
ATGCTTGTAAAGCCTATGTC+CGG 0.560747 2:-61186437 None:intergenic
CAGTTTAGCCCCGAAGCTGT+AGG 0.563024 2:-61186371 None:intergenic
AATGGAATACAACGACTACA+TGG 0.564075 2:+61186301 MsaT009552.1:CDS
CATCAAAGGTTTCTTCTCAC+CGG 0.573699 2:+61185205 MsaT009552.1:CDS
CCAGCCAAGGTGTCTTATGG+TGG 0.576805 2:+61185412 MsaT009552.1:CDS
CCAAATCCTCCGGCTTCGGT+AGG 0.580489 2:-61185379 None:intergenic
CATTTGTCTCAGGACATCAA+AGG 0.584028 2:+61185191 MsaT009552.1:CDS
CCGAAGCTGTAGGTGGTGAA+GGG 0.591243 2:-61186361 None:intergenic
ACCACCACCATAAGACACCT+TGG 0.592536 2:-61185416 None:intergenic
TTGTGAAGGTGCTGAAGCTA+AGG 0.593143 2:+61183862 MsaT009552.1:CDS
CCATAAGACACCTTGGCTGG+TGG 0.594137 2:-61185409 None:intergenic
GGCCTAGAAGCTACTGATCA+CGG 0.598771 2:+61185238 MsaT009552.1:CDS
GGATGGATCATCAAATTCAA+GGG 0.601507 2:+61185519 MsaT009552.1:CDS
CATTATCGAATGAATACCGA+GGG 0.607602 2:-61186403 None:intergenic
TAATTTAAGATCCAATGAAG+AGG 0.617693 2:+61186277 MsaT009552.1:CDS
ATTCAGTGTAATGTTTGTGA+AGG 0.627076 2:+61183848 MsaT009552.1:CDS
GTAGGTGGTGAAGGGATCTG+AGG 0.637306 2:-61186353 None:intergenic
CCGAATTAGTGATGATTCCG+CGG 0.646351 2:-61186494 None:intergenic
TTTAGCCCCGAAGCTGTAGG+TGG 0.663191 2:-61186368 None:intergenic
TCCAAGACGAATCTGGAACA+CGG 0.671574 2:-61186325 None:intergenic
CTTCACCACCTACAGCTTCG+GGG 0.680692 2:+61186363 MsaT009552.1:CDS
GAGTTTATGCAGGCTGACAG+TGG 0.687400 2:+61186230 MsaT009552.1:intron
GCATTATCGAATGAATACCG+AGG 0.703310 2:-61186404 None:intergenic
ATGTTGCCTACCGAAGCCGG+AGG 0.732134 2:+61185373 MsaT009552.1:CDS
ACTCTGGAAACATGTCACAG+TGG 0.763112 2:+61185443 MsaT009552.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 61183842 61186511 61183842 ID=MsaG009552
Chr2 mRNA 61183842 61186511 61183842 ID=MsaT009552.1;Parent=MsaG009552
Chr2 exon 61183842 61184024 61183842 ID=MsaT009552.1.exon1;Parent=MsaT009552.1
Chr2 CDS 61183842 61184024 61183842 ID=cds.MsaT009552.1;Parent=MsaT009552.1
Chr2 exon 61185109 61185540 61185109 ID=MsaT009552.1.exon2;Parent=MsaT009552.1
Chr2 CDS 61185109 61185540 61185109 ID=cds.MsaT009552.1;Parent=MsaT009552.1
Chr2 exon 61186242 61186511 61186242 ID=MsaT009552.1.exon3;Parent=MsaT009552.1
Chr2 CDS 61186242 61186511 61186242 ID=cds.MsaT009552.1;Parent=MsaT009552.1
Gene Sequence

>MsaT009552.1

ATGAAGATTCAGTGTAATGTTTGTGAAGGTGCTGAAGCTAAGGTTCTTTGTTGTGCTGATGAAGCTGCTTTGTGTTGGGAATGTGATGAGAAAGTTCATGCTGCTAATAAACTTGCTAGCAAACATCAAAGAGTTCCTCTTTCTGCTTCTTCTTCTCATATGCCTAAATGTGATATTTGTCAGGAAGCATTCGGCTATTTCTTTTGTCTAGAGGATCGCGCTCTACTCTGTCGAAAATGTGATTTAGCAATACACACTGCAAATGCATTTGTCTCAGGACATCAAAGGTTTCTTCTCACCGGTGTAAAAGTCGGCCTAGAAGCTACTGATCACGGAACTTCCTCAAATTCGTTGAAGACAGATTCTGGTGAGAAAGTTTCCGATACAAAATCTTCTTCTGTCTCGAGAAAGGTTTCGCAAATGCCTCAATCATCTGAGTACAATGAAATGTTGCCTACCGAAGCCGGAGGATTTGGAGATTTTCCACCAGCCAAGGTGTCTTATGGTGGTGGTTCTAACTCTGGAAACATGTCACAGTGGACAATTGATGAATTTTTCGGCGTAAATGATTTCAGTCAGAATTATAACTACATGGATGGATCATCAAATTCAAGGGCTGACAGTGGTAAGCTTGAAGATTCTGATTCTCCTAATTTAAGATCCAATGAAGAGGAAATGGAATACAACGACTACATGGACCGTGTTCCAGATTCGTCTTGGACAGTTCCTCAGATCCCTTCACCACCTACAGCTTCGGGGCTAAACTGGCCGAAAAACCCTCGGTATTCATTCGATAATGCTCTATTTGTTCCGGACATAGGCTTTACAAGCATGCAATACCCTCAGAATAGTAGTAATTTTTCAAGACCGCGGAATCATCACTAA
Protein sequence

>MsaT009552.1

MKIQCNVCEGAEAKVLCCADEAALCWECDEKVHAANKLASKHQRVPLSASSSHMPKCDICQEAFGYFFCLEDRALLCRKCDLAIHTANAFVSGHQRFLLTGVKVGLEATDHGTSSNSLKTDSGEKVSDTKSSSVSRKVSQMPQSSEYNEMLPTEAGGFGDFPPAKVSYGGGSNSGNMSQWTIDEFFGVNDFSQNYNYMDGSSNSRADSGKLEDSDSPNLRSNEEEMEYNDYMDRVPDSSWTVPQIPSPPTASGLNWPKNPRYSFDNALFVPDIGFTSMQYPQNSSNFSRPRNHH*