AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG045382

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG045382 MtrunA17_Chr4g0062741 90.429 303 4 1 1 278 1 303 0.0 553
MsaG045382 MtrunA17_Chr1g0162081 44.918 305 100 10 8 271 12 289 2.29e-64 203
MsaG045382 MtrunA17_Chr3g0104071 39.234 209 66 6 8 186 43 220 2.08e-33 124
MsaG045382 MtrunA17_Chr7g0241761 30.844 308 138 10 3 267 30 305 2.56e-33 123
MsaG045382 MtrunA17_Chr5g0429521 38.235 204 64 5 8 181 29 200 5.87e-33 122
MsaG045382 MtrunA17_Chr1g0210471 35.500 200 74 4 8 182 24 193 8.02e-31 115
MsaG045382 MtrunA17_Chr8g0365011 34.028 288 149 12 8 271 8 278 1.08e-30 116
MsaG045382 MtrunA17_Chr5g0436501 32.857 210 76 6 8 187 27 201 1.65e-26 104
MsaG045382 MtrunA17_Chr8g0364741 38.356 146 50 5 4 146 6 114 2.70e-24 94.7
MsaG045382 MtrunA17_Chr8g0364731 47.541 122 41 7 146 253 34 146 2.73e-18 80.5
MsaG045382 MtrunA17_Chr1g0155181 46.667 75 36 2 1 75 1 71 7.61e-17 73.9
MsaG045382 MtrunA17_Chr3g0141601 46.667 75 37 2 3 77 2 73 2.18e-16 72.8
MsaG045382 MtrunA17_Chr6g0488471 48.611 72 12 1 132 178 91 162 1.31e-14 72.4
MsaG045382 MtrunA17_Chr6g0449111 45.946 74 37 1 2 75 4 74 1.78e-14 67.4
MsaG045382 MtrunA17_Chr4g0055931 44.706 85 22 1 127 186 84 168 1.25e-13 69.7
MsaG045382 MtrunA17_Chr8g0389241 47.887 71 11 2 132 177 99 168 4.95e-13 67.8
MsaG045382 MtrunA17_Chr3g0144631 41.176 68 37 1 6 73 14 78 5.42e-13 63.2
MsaG045382 MtrunA17_Chr2g0331031 40.426 94 24 2 109 177 87 173 1.02e-11 64.3
MsaG045382 MtrunA17_Chr3g0081631 43.421 76 38 3 1 75 4 75 6.62e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG045382 AT1G49010.1 46.866 335 99 12 1 277 1 314 2.16e-68 214
MsaG045382 AT5G08520.1 43.493 292 92 10 3 258 7 261 1.68e-55 181
MsaG045382 AT2G38090.1 36.634 202 85 3 5 181 26 209 3.78e-36 131
MsaG045382 AT5G01200.1 38.235 204 81 4 6 181 28 214 7.00e-33 121
MsaG045382 AT5G23650.1 37.054 224 88 6 3 199 8 205 2.49e-32 122
MsaG045382 AT5G58900.1 37.799 209 74 7 2 181 28 209 7.71e-32 119
MsaG045382 AT5G05790.2 30.741 270 116 9 1 229 24 263 1.32e-27 108
MsaG045382 AT5G05790.1 30.741 270 116 9 1 229 24 263 1.32e-27 108
MsaG045382 AT5G04760.1 33.790 219 83 5 8 201 6 187 9.97e-27 104
MsaG045382 AT3G11280.2 35.176 199 68 4 8 181 33 195 2.16e-26 104
MsaG045382 AT3G11280.1 35.176 199 68 4 8 181 33 195 2.16e-26 104
MsaG045382 AT5G47390.1 41.284 109 36 2 112 192 67 175 1.21e-14 73.6
MsaG045382 AT3G10580.2 31.959 194 108 8 1 194 1 170 1.44e-14 72.0
MsaG045382 AT3G10580.1 31.959 194 108 8 1 194 1 170 1.67e-14 72.4
MsaG045382 AT4G39250.1 40.909 66 36 1 8 73 14 76 3.40e-13 64.7
MsaG045382 AT5G61620.1 30.612 196 79 8 112 273 84 256 6.01e-13 68.2
MsaG045382 AT1G75250.2 39.437 71 40 1 3 73 7 74 1.37e-12 63.2
MsaG045382 AT1G75250.1 39.394 66 37 1 8 73 12 74 3.91e-12 62.8

Find 67 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAAGATCAAGTTGTAATTT+TGG 0.168041 8:+72112975 MsaT045382.1:CDS
TCTAATTCATTAGCATAATT+TGG 0.179151 8:-72112900 None:intergenic
CATCATCCTCCTGGTGGTTT+AGG 0.251182 8:+72113698 MsaT045382.1:CDS
TTACCATGTTGACCTGTTAT+TGG 0.282124 8:-72113617 None:intergenic
TTCAAACAAAGATTCTTCTA+AGG 0.298166 8:+72112935 MsaT045382.1:CDS
CCTTCAAATACAATGGGTTT+AGG 0.313838 8:+72113647 MsaT045382.1:CDS
ATCTGTCCCCAACAAAAGTA+TGG 0.337048 8:+72112806 MsaT045382.1:CDS
TGTTGCTCCTCCTGCTCATA+TGG 0.385813 8:+72113751 MsaT045382.1:CDS
AATCATCAAGCACCAATAAC+AGG 0.394644 8:+72113605 MsaT045382.1:CDS
CCTAAACCCATTGTATTTGA+AGG 0.400664 8:-72113647 None:intergenic
ATCCACCTTTACCACTACTA+TGG 0.406819 8:-72113034 None:intergenic
GGATGATGGGGAAGCATAAC+AGG 0.408632 8:-72113791 None:intergenic
TTCTTCTTCATAGCTCCAAA+TGG 0.430907 8:-72112706 None:intergenic
CCTGGTGGTTTAGGAATGTA+TGG 0.438589 8:+72113707 MsaT045382.1:CDS
TGTCATCAAGTGGAGCCATT+TGG 0.441940 8:+72112691 MsaT045382.1:CDS
GCTCATATGGCATCTGCAGT+TGG 0.444181 8:+72113764 MsaT045382.1:CDS
AGTTGTCATTGGTGCATTGT+TGG 0.444498 8:-72113863 None:intergenic
ATGCACAAAAGTATTTCATA+AGG 0.449793 8:+72113504 MsaT045382.1:CDS
AGAAGATTCAAAAGAACAAT+GGG 0.451020 8:+72112770 MsaT045382.1:CDS
CTATGCTCTTCTTCTGTCCA+TGG 0.458260 8:-72113104 None:intergenic
CTCATATGGCATCTGCAGTT+GGG 0.466530 8:+72113765 MsaT045382.1:CDS
GCATGACTTGCTACTTGTGT+TGG 0.467928 8:-72113485 None:intergenic
ACAATCCCTTCAAATACAAT+GGG 0.480739 8:+72113641 MsaT045382.1:CDS
CACAATCCCTTCAAATACAA+TGG 0.482952 8:+72113640 MsaT045382.1:CDS
TCAGAACAAGAAAGGAGAAA+AGG 0.492641 8:+72113077 MsaT045382.1:CDS
GCAACAACAGGATGTCCAAC+TGG 0.493168 8:-72113734 None:intergenic
TGTTAACACTAGTAATATCA+TGG 0.493710 8:-72113565 None:intergenic
TGAGCAGGAGGAGCAACAAC+AGG 0.495632 8:-72113746 None:intergenic
CTAAACCCATTGTATTTGAA+GGG 0.499951 8:-72113646 None:intergenic
GTGGATGATGATGAGGATGA+TGG 0.500151 8:-72113805 None:intergenic
CATCATCATCAGAACAAGAA+AGG 0.501232 8:+72113069 MsaT045382.1:CDS
GTTCAGCCTCATCATCCTCC+TGG 0.503699 8:+72113689 MsaT045382.1:CDS
TGGATGATGATGAGGATGAT+GGG 0.504027 8:-72113804 None:intergenic
TGTACCTCTTGCTTACCCTA+TGG 0.504295 8:+72113835 MsaT045382.1:CDS
TAAGCAAGAGGTACAACATA+AGG 0.508613 8:-72113827 None:intergenic
TGCATTGTTGGAGGTGCCAT+AGG 0.508759 8:-72113851 None:intergenic
TGTCATTGGTGCATTGTTGG+AGG 0.512443 8:-72113860 None:intergenic
AGAATGCTATAGCCATGCAT+TGG 0.517213 8:+72112739 MsaT045382.1:CDS
CACCTTTACCACTACTATGG+TGG 0.519881 8:-72113031 None:intergenic
ACCCACCATAGTAGTGGTAA+AGG 0.542637 8:+72113029 MsaT045382.1:CDS
AAGAAGATTCAAAAGAACAA+TGG 0.544714 8:+72112769 MsaT045382.1:CDS
AAAGGAGAAAAGGAATTCCA+TGG 0.553013 8:+72113087 MsaT045382.1:CDS
ACTGCAGATGCCATATGAGC+AGG 0.554621 8:-72113761 None:intergenic
GGAATGTATGGAGCACCAGT+TGG 0.557234 8:+72113719 MsaT045382.1:CDS
TAACATCATCTGCCAACACT+TGG 0.564260 8:-72112848 None:intergenic
CAATGAATAGAGATAGAAGA+AGG 0.573297 8:+72113534 MsaT045382.1:CDS
ACCTTTACCACTACTATGGT+GGG 0.587562 8:-72113030 None:intergenic
CAGCCTCATCATCCTCCTGG+TGG 0.590947 8:+72113692 MsaT045382.1:CDS
CACCATAGTAGTGGTAAAGG+TGG 0.591929 8:+72113032 MsaT045382.1:CDS
AGATGATGTTAGTGCAATTG+AGG 0.593055 8:+72112860 MsaT045382.1:CDS
GAAACAACATTACCAAGTGT+TGG 0.597849 8:+72112836 MsaT045382.1:CDS
GGATGATGATGAGGATGATG+GGG 0.600297 8:-72113803 None:intergenic
GCAAGAGGTACAACATAAGG+TGG 0.601447 8:-72113824 None:intergenic
GATGTTAGTGCAATTGAGGA+AGG 0.604039 8:+72112864 MsaT045382.1:CDS
AGGGCCAACATGTCATCAAG+TGG 0.623051 8:+72112681 None:intergenic
CCATACATTCCTAAACCACC+AGG 0.623664 8:-72113707 None:intergenic
GACTCTACCCACCATAGTAG+TGG 0.624946 8:+72113023 MsaT045382.1:CDS
AAACCACCAGGAGGATGATG+AGG 0.627717 8:-72113695 None:intergenic
GTGGTAAAGGTGGATTGTCA+AGG 0.632578 8:+72113042 MsaT045382.1:CDS
GCATTGTTGGAGGTGCCATA+GGG 0.632899 8:-72113850 None:intergenic
CATGGACAGAAGAAGAGCAT+AGG 0.635255 8:+72113105 MsaT045382.1:CDS
GATATTACTAGTGTTAACAA+TGG 0.637555 8:+72113569 MsaT045382.1:CDS
GCACCAATAACAGGTCAACA+TGG 0.640651 8:+72113614 MsaT045382.1:CDS
GCAGATGCCATATGAGCAGG+AGG 0.646062 8:-72113758 None:intergenic
ACATAAGGTGGATGATGATG+AGG 0.659765 8:-72113812 None:intergenic
GGTGCCATAGGGTAAGCAAG+AGG 0.704654 8:-72113839 None:intergenic
TACATTCCTAAACCACCAGG+AGG 0.734599 8:-72113704 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 72112690 72113880 72112690 ID=MsaG045382
Chr8 mRNA 72112690 72113880 72112690 ID=MsaT045382.1;Parent=MsaG045382
Chr8 exon 72112690 72113126 72112690 ID=MsaT045382.1.exon1;Parent=MsaT045382.1
Chr8 CDS 72112690 72113126 72112690 ID=cds.MsaT045382.1;Parent=MsaT045382.1
Chr8 exon 72113481 72113880 72113481 ID=MsaT045382.1.exon2;Parent=MsaT045382.1
Chr8 CDS 72113481 72113880 72113481 ID=cds.MsaT045382.1;Parent=MsaT045382.1
Gene Sequence

>MsaT045382.1

ATGTCATCAAGTGGAGCCATTTGGAGCTATGAAGAAGAAAAAGCATTTGAGAATGCTATAGCCATGCATTGGATTGAAAAAGAAGATTCAAAAGAACAATGGGAAAAGATTGCTTCATCTGTCCCCAACAAAAGTATGGAACAAGTGAAACAACATTACCAAGTGTTGGCAGATGATGTTAGTGCAATTGAGGAAGGTCATGTATCATTGCCAAATTATGCTAATGAATTAGATACTATTAATTCTTCAAACAAAGATTCTTCTAAGGCCACCACAAGTTCAGATAAAAGATCAAGTTGTAATTTTGGAAGTGGGTTTTCTGGTTTAGGACATGACTCTACCCACCATAGTAGTGGTAAAGGTGGATTGTCAAGGTCATCATCATCATCAGAACAAGAAAGGAGAAAAGGAATTCCATGGACAGAAGAAGAGCATAGGACACCAACACAAGTAGCAAGTCATGCACAAAAGTATTTCATAAGGTTGAATTCAATGAATAGAGATAGAAGAAGGTCTAGTATCCATGATATTACTAGTGTTAACAATGGAGATGTAGCTAGTAATCATCAAGCACCAATAACAGGTCAACATGGTAACACAATCCCTTCAAATACAATGGGTTTAGGACAATCAATGAAGCATAGAGTTCAGCCTCATCATCCTCCTGGTGGTTTAGGAATGTATGGAGCACCAGTTGGACATCCTGTTGTTGCTCCTCCTGCTCATATGGCATCTGCAGTTGGGACACCTGTTATGCTTCCCCATCATCCTCATCATCATCCACCTTATGTTGTACCTCTTGCTTACCCTATGGCACCTCCAACAATGCACCAATGA
Protein sequence

>MsaT045382.1

MSSSGAIWSYEEEKAFENAIAMHWIEKEDSKEQWEKIASSVPNKSMEQVKQHYQVLADDVSAIEEGHVSLPNYANELDTINSSNKDSSKATTSSDKRSSCNFGSGFSGLGHDSTHHSSGKGGLSRSSSSSEQERRKGIPWTEEEHRTPTQVASHAQKYFIRLNSMNRDRRRSSIHDITSVNNGDVASNHQAPITGQHGNTIPSNTMGLGQSMKHRVQPHHPPGGLGMYGAPVGHPVVAPPAHMASAVGTPVMLPHHPHHHPPYVVPLAYPMAPPTMHQ*