AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG017601

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017601 MtrunA17_Chr3g0142221 87.764 237 15 4 1 236 1 224 1.72e-150 417
MsaG017601 MtrunA17_Chr1g0155811 46.237 279 85 10 1 232 1 261 5.15e-66 205
MsaG017601 MtrunA17_Chr3g0145061 48.039 204 56 5 1 158 1 200 2.80e-56 179
MsaG017601 MtrunA17_Chr4g0035651 42.157 204 80 5 1 169 1 201 4.77e-49 160
MsaG017601 MtrunA17_Chr2g0329511 34.419 215 115 4 1 203 1 201 6.66e-36 127
MsaG017601 MtrunA17_Chr2g0314671 53.271 107 47 1 1 107 1 104 9.41e-36 128
MsaG017601 MtrunA17_Chr4g0033641 51.402 107 49 1 1 107 1 104 3.41e-32 117
MsaG017601 MtrunA17_Chr5g0405151 32.979 188 105 6 1 186 1 169 1.84e-23 93.2
MsaG017601 MtrunA17_Chr1g0150471 33.113 151 83 2 5 149 6 144 4.80e-18 81.3
MsaG017601 MtrunA17_Chr7g0220721 34.821 112 61 1 5 116 26 125 1.73e-16 77.8
MsaG017601 MtrunA17_Chr3g0136701 38.947 95 46 1 5 99 6 88 4.56e-15 72.8
MsaG017601 MtrunA17_Chr4g0072871 36.842 95 48 1 5 99 22 104 2.36e-14 71.2
MsaG017601 MtrunA17_Chr5g0429341 31.313 99 56 1 1 99 1 87 4.65e-12 64.7
MsaG017601 MtrunA17_Chr3g0120711 33.036 112 59 3 1 112 1 96 1.85e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017601 AT1G75540.1 38.272 324 107 10 1 235 1 320 1.71e-58 188
MsaG017601 AT4G39070.1 59.350 123 47 2 1 122 1 121 1.13e-44 150
MsaG017601 AT1G78600.1 52.336 107 48 1 1 107 1 104 1.56e-35 128
MsaG017601 AT1G78600.2 52.336 107 48 1 1 107 1 104 2.69e-35 128
MsaG017601 AT1G06040.2 53.271 107 47 1 1 107 1 104 3.23e-35 124
MsaG017601 AT2G31380.1 53.271 107 47 1 1 107 1 104 9.99e-35 124
MsaG017601 AT1G06040.1 53.271 107 47 1 1 107 1 104 2.11e-34 124
MsaG017601 AT4G10240.1 49.091 110 49 2 1 107 1 106 3.97e-31 112
MsaG017601 AT2G21320.1 40.496 121 66 2 1 121 1 115 1.97e-23 93.2
MsaG017601 AT4G38960.1 42.105 114 60 2 1 114 1 108 2.55e-23 93.2
MsaG017601 AT4G38960.6 42.105 114 60 2 1 114 1 108 2.55e-23 93.2
MsaG017601 AT2G24790.2 40.000 95 45 1 5 99 8 90 5.07e-17 77.4
MsaG017601 AT2G24790.1 40.000 95 45 1 5 99 8 90 1.47e-16 77.4
MsaG017601 AT5G15850.1 35.398 113 61 1 5 117 12 112 4.87e-16 76.6
MsaG017601 AT4G38960.3 30.573 157 60 3 1 114 1 151 1.87e-15 73.2
MsaG017601 AT5G24930.1 37.895 95 47 1 5 99 6 88 2.69e-15 74.3
MsaG017601 AT3G02380.1 35.088 114 59 2 5 115 16 117 9.53e-15 72.8
MsaG017601 AT2G33500.1 35.922 103 54 1 3 105 10 100 3.14e-13 68.6
MsaG017601 AT5G15840.2 30.435 115 68 1 5 119 20 122 3.17e-13 67.8
MsaG017601 AT2G33500.2 35.922 103 54 1 3 105 10 100 3.35e-13 68.6
MsaG017601 AT1G28050.1 37.500 104 53 1 2 105 6 97 3.60e-13 68.6
MsaG017601 AT5G15840.1 32.632 95 52 1 5 99 20 102 5.57e-13 67.8
MsaG017601 AT2G47890.2 40.476 84 38 2 5 88 13 84 3.85e-11 61.6
MsaG017601 AT2G47890.3 40.476 84 38 2 5 88 13 84 3.92e-11 62.0
MsaG017601 AT2G47890.1 40.476 84 38 2 5 88 13 84 5.89e-11 61.6

Find 59 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAAGATGTGGCAATGTTAAT+TGG 0.169105 3:-111079850 None:intergenic
AAATGGTTGGGAGAATTATT+AGG 0.172908 3:-111079130 None:intergenic
AAGAAACCTATTATGCTTCT+TGG 0.240931 3:-111079427 None:intergenic
ACCAATTTCAGCAGCAGTTT+GGG 0.246710 3:+111079795 MsaT017601.1:CDS
CCCCAAACTGCTGCTGAAAT+TGG 0.248979 3:-111079796 None:intergenic
TATTCATGAGGAAAATATTC+TGG 0.282344 3:+111079671 MsaT017601.1:CDS
CCAACTCTTCATGAAGAAAA+TGG 0.301498 3:+111079486 MsaT017601.1:CDS
CACCAATTTCAGCAGCAGTT+TGG 0.303898 3:+111079794 MsaT017601.1:CDS
GAGAGAGAAGCGACGGTGTT+TGG 0.360255 3:-111079101 None:intergenic
AACACACCAAGAAGCATAAT+AGG 0.390006 3:+111079421 MsaT017601.1:CDS
CATAATAGGTTTCTTCTAAG+TGG 0.399657 3:+111079435 MsaT017601.1:CDS
AAGATGTGGCAATGTTAATT+GGG 0.407815 3:-111079849 None:intergenic
GAGTGTGATTTGAAGATTCA+TGG 0.427331 3:+111079390 MsaT017601.1:CDS
TGAAGAGTTGGAGGAGGAGC+AGG 0.431012 3:-111079474 None:intergenic
CTACAACAGCAGAATCATAT+TGG 0.434122 3:+111079603 MsaT017601.1:CDS
AATGGTTGGGAGAATTATTA+GGG 0.446787 3:-111079129 None:intergenic
TCATGAGAGGGAACAGAAGA+AGG 0.454520 3:-111079579 None:intergenic
GAACAGAAGAAGGGGATTCA+AGG 0.477624 3:-111079569 None:intergenic
ATAATAGGTTTCTTCTAAGT+GGG 0.482873 3:+111079436 MsaT017601.1:CDS
TTCTCTAGCGAGAGCATGTG+TGG 0.496184 3:+111079699 MsaT017601.1:CDS
TCACAGAGAGGGAAATGGTT+GGG 0.504950 3:-111079142 None:intergenic
AAATATCACAGAGAGGGAAA+TGG 0.517933 3:-111079147 None:intergenic
AGAGAAGCGACGGTGTTTGG+AGG 0.521730 3:-111079098 None:intergenic
ATGGTGGACACGGTGGTCGC+AGG 0.523492 3:-111079062 None:intergenic
CAAACTGCTGCTGAAATTGG+TGG 0.525028 3:-111079793 None:intergenic
GTGGACACGGTGGTCGCAGG+TGG 0.531543 3:-111079059 None:intergenic
AAATCTTCAAACTTCCAACC+TGG 0.533797 3:-111079546 None:intergenic
GGTTGGGAGAATTATTAGGG+TGG 0.538692 3:-111079126 None:intergenic
TGGAGGCGAGTTTGTTAGCA+TGG 0.539793 3:-111079081 None:intergenic
TGTGGCAATGTTAATTGGGA+GGG 0.543395 3:-111079845 None:intergenic
CATGAGAGGGAACAGAAGAA+GGG 0.544618 3:-111079578 None:intergenic
TGCTGTTGTAGTTCATGAGA+GGG 0.552947 3:-111079591 None:intergenic
GTTTGTTAGCATGGTGGACA+CGG 0.562165 3:-111079072 None:intergenic
TCTTCATGAAGAGTTGGAGG+AGG 0.568381 3:-111079480 None:intergenic
CTTTGTTTGTAGGAAAGAAG+AGG 0.568458 3:+111079327 MsaT017601.1:intron
CTGCTGTTGTAGTTCATGAG+AGG 0.569968 3:-111079592 None:intergenic
GTCGCAGGTGGAGCATAAGA+CGG 0.576267 3:-111079047 None:intergenic
AGTGCGACATCTGTAACAAA+CGG 0.576581 3:+111078993 MsaT017601.1:CDS
TACTTGATAAACACTATCCC+AGG 0.579028 3:+111079528 MsaT017601.1:CDS
CCAATTTCAGCAGCAGTTTG+GGG 0.580053 3:+111079796 MsaT017601.1:CDS
AATCTTCAAACTTCCAACCT+GGG 0.582408 3:-111079545 None:intergenic
GAATAATACAGTGGTGCTTG+AGG 0.582637 3:-111079732 None:intergenic
TTGGGAGGGATTGTTATCTG+TGG 0.583370 3:-111079831 None:intergenic
CGACATCTGTAACAAACGGC+AGG 0.587499 3:+111078997 MsaT017601.1:CDS
ATCACAGAGAGGGAAATGGT+TGG 0.589033 3:-111079143 None:intergenic
GTTTGTTACAGATGTCGCAC+TGG 0.600679 3:-111078991 None:intergenic
TCTCTAGCGAGAGCATGTGT+GGG 0.602430 3:+111079700 MsaT017601.1:CDS
ATGTGGCAATGTTAATTGGG+AGG 0.602797 3:-111079846 None:intergenic
CGAGGCAAATATCACAGAGA+GGG 0.613147 3:-111079153 None:intergenic
ATGAGAGGGAACAGAAGAAG+GGG 0.616850 3:-111079577 None:intergenic
GCATAAGACGGCTTCATCCG+CGG 0.622218 3:-111079035 None:intergenic
CAATTTCAGCAGCAGTTTGG+GGG 0.628510 3:+111079797 MsaT017601.1:CDS
TGATAAACACTATCCCAGGT+TGG 0.630031 3:+111079532 MsaT017601.1:CDS
GGTGGTTGAGAGAGAAGCGA+CGG 0.648653 3:-111079108 None:intergenic
TGTTAATTATCATATTCATG+AGG 0.653612 3:+111079659 MsaT017601.1:CDS
AGGCGAGTTTGTTAGCATGG+TGG 0.655308 3:-111079078 None:intergenic
TGTTAGCATGGTGGACACGG+TGG 0.691209 3:-111079069 None:intergenic
ACGAGGCAAATATCACAGAG+AGG 0.701262 3:-111079154 None:intergenic
GGCTTCTTTATTCTGCACCG+CGG 0.708284 3:+111079018 MsaT017601.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 111078983 111079857 111078983 ID=MsaG017601
Chr3 mRNA 111078983 111079857 111078983 ID=MsaT017601.1;Parent=MsaG017601
Chr3 exon 111078983 111079174 111078983 ID=MsaT017601.1.exon1;Parent=MsaT017601.1
Chr3 CDS 111078983 111079174 111078983 ID=cds.MsaT017601.1;Parent=MsaT017601.1
Chr3 exon 111079339 111079857 111079339 ID=MsaT017601.1.exon2;Parent=MsaT017601.1
Chr3 CDS 111079339 111079857 111079339 ID=cds.MsaT017601.1;Parent=MsaT017601.1
Gene Sequence

>MsaT017601.1

ATGAAGATCCAGTGCGACATCTGTAACAAACGGCAGGCTTCTTTATTCTGCACCGCGGATGAAGCCGTCTTATGCTCCACCTGCGACCACCGTGTCCACCATGCTAACAAACTCGCCTCCAAACACCGTCGCTTCTCTCTCAACCACCCTAATAATTCTCCCAACCATTTCCCTCTCTGTGATATTTGCCTCGAAAGAAGAGGTTTTGTTTTTTGTCAGGAAGATAGAGCAATTGTGTGCAAAGAGTGTGATTTGAAGATTCATGGTGTCAACGAACACACCAAGAAGCATAATAGGTTTCTTCTAAGTGGGATCAAGTTGTACTCTCCTGCTCCTCCTCCAACTCTTCATGAAGAAAATGGTAGTTTTACTATATCTGAGTACTTGATAAACACTATCCCAGGTTGGAAGTTTGAAGATTTCCTTGAATCCCCTTCTTCTGTTCCCTCTCATGAACTACAACAGCAGAATCATATTGGTAAAGATACTACATTGTCAACAGTGCATGATGATGTTAATTATCATATTCATGAGGAAAATATTCTGGTTTCTTTCTCTAGCGAGAGCATGTGTGGGATCTGTGTTCCTCAAGCACCACTGTATTATTCTGAAAAAATGGATAACAAATCAGACACAATTAATGAAGCCACCAATTTCAGCAGCAGTTTGGGGGATTTCACAGTTCCACAGATAACAATCCCTCCCAATTAA
Protein sequence

>MsaT017601.1

MKIQCDICNKRQASLFCTADEAVLCSTCDHRVHHANKLASKHRRFSLNHPNNSPNHFPLCDICLERRGFVFCQEDRAIVCKECDLKIHGVNEHTKKHNRFLLSGIKLYSPAPPPTLHEENGSFTISEYLINTIPGWKFEDFLESPSSVPSHELQQQNHIGKDTTLSTVHDDVNYHIHEENILVSFSSESMCGICVPQAPLYYSEKMDNKSDTINEATNFSSSLGDFTVPQITIPPN*