AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016435

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016435 MtrunA17_Chr3g0128691 91.720 157 10 2 1 155 1 156 1.66e-102 290
MsaG016435 MtrunA17_Chr3g0118211 60.769 130 50 1 19 148 24 152 9.18e-55 171
MsaG016435 MtrunA17_Chr1g0170741 59.259 135 53 1 14 146 4 138 2.71e-53 167
MsaG016435 MtrunA17_Chr4g0059571 60.000 130 51 1 19 148 27 155 6.65e-53 167
MsaG016435 MtrunA17_Chr5g0414931 58.779 131 51 1 19 146 17 147 4.99e-52 165
MsaG016435 MtrunA17_Chr3g0082861 55.714 140 48 2 19 147 5 141 7.88e-52 162
MsaG016435 MtrunA17_Chr8g0352871 57.353 136 51 1 19 147 10 145 1.08e-51 162
MsaG016435 MtrunA17_Chr7g0256551 59.091 132 46 2 19 142 10 141 1.38e-50 161
MsaG016435 MtrunA17_Chr3g0124861 53.191 141 48 2 19 142 23 162 6.25e-46 149
MsaG016435 MtrunA17_Chr4g0021731 60.256 78 30 1 19 96 12 88 1.34e-27 98.6
MsaG016435 MtrunA17_Chr4g0030271 34.959 123 70 1 20 142 91 203 7.04e-16 73.9
MsaG016435 MtrunA17_Chr1g0181811 34.959 123 70 1 20 142 87 199 6.79e-15 70.9
MsaG016435 MtrunA17_Chr3g0127941 30.147 136 77 3 8 142 52 170 5.91e-14 68.2
MsaG016435 MtrunA17_Chr8g0345901 30.894 123 75 1 20 142 38 150 2.73e-13 66.2
MsaG016435 MtrunA17_Chr7g0276361 30.894 123 75 1 20 142 16 128 3.81e-13 65.9
MsaG016435 MtrunA17_Chr8g0376881 28.906 128 78 2 20 147 31 145 7.83e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016435 AT3G56380.1 72.308 130 36 0 19 148 21 150 3.20e-64 194
MsaG016435 AT3G56380.2 72.519 131 35 1 19 148 21 151 6.93e-63 190
MsaG016435 AT2G40670.1 70.896 134 33 2 19 148 30 161 9.25e-63 190
MsaG016435 AT2G40670.2 71.111 135 32 3 19 148 30 162 1.87e-61 187
MsaG016435 AT1G10470.3 61.719 128 48 1 19 146 21 147 4.36e-53 168
MsaG016435 AT1G59940.1 58.647 133 54 1 14 146 29 160 5.82e-53 167
MsaG016435 AT1G10470.1 61.719 128 48 1 19 146 35 161 7.41e-53 168
MsaG016435 AT1G59940.2 58.647 133 54 1 14 146 121 252 8.48e-52 167
MsaG016435 AT3G48100.1 54.225 142 58 1 6 147 20 154 1.16e-51 163
MsaG016435 AT5G62920.1 58.955 134 54 1 19 152 26 158 4.28e-51 161
MsaG016435 AT3G57040.2 53.623 138 55 1 19 147 10 147 1.02e-50 162
MsaG016435 AT3G57040.1 53.623 138 55 1 19 147 10 147 1.02e-50 162
MsaG016435 AT2G41310.1 51.724 145 63 2 10 147 1 145 3.13e-50 160
MsaG016435 AT1G74890.1 59.091 132 53 1 19 150 19 149 6.40e-50 159
MsaG016435 AT1G19050.1 58.015 131 52 2 19 148 25 153 3.86e-49 157
MsaG016435 AT1G10470.2 50.000 74 33 3 75 146 14 85 3.51e-15 69.3
MsaG016435 AT5G24470.1 31.452 124 73 2 20 142 52 164 7.14e-14 68.2
MsaG016435 AT5G02810.1 31.707 123 74 1 20 142 80 192 1.93e-12 64.3
MsaG016435 AT5G60100.7 33.333 123 72 1 20 142 66 178 2.69e-12 63.5
MsaG016435 AT5G60100.6 33.333 123 72 1 20 142 66 178 2.69e-12 63.5
MsaG016435 AT5G60100.4 33.333 123 72 1 20 142 66 178 2.69e-12 63.5
MsaG016435 AT5G60100.2 33.333 123 72 1 20 142 66 178 2.84e-12 63.5
MsaG016435 AT5G60100.5 33.333 123 72 1 20 142 66 178 5.61e-12 62.8
MsaG016435 AT5G60100.3 33.333 123 72 1 20 142 66 178 5.61e-12 62.8
MsaG016435 AT5G60100.1 33.333 123 72 1 20 142 66 178 5.61e-12 62.8
MsaG016435 AT2G46790.3 28.226 124 79 1 19 142 38 151 2.11e-11 61.2
MsaG016435 AT2G46790.1 27.419 124 80 1 19 142 38 151 2.34e-11 60.8
MsaG016435 AT5G07210.2 30.081 123 72 3 20 142 18 126 3.96e-11 60.5

Find 39 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTGAAGGCATTGGAGTATT+TGG 0.158019 3:-97840506 MsaT016435.1:CDS
GACAGGCCAGCTGATGAATT+TGG 0.201243 3:-97839885 MsaT016435.1:CDS
ACAGTGACAACTGCTGAAAA+TGG 0.248549 3:-97840529 MsaT016435.1:intron
CTGAAGGCATTGGAGTATTT+GGG 0.249714 3:-97840505 MsaT016435.1:CDS
GTAGGGACCCAAAGTGAATT+TGG 0.331645 3:-97840309 MsaT016435.1:intron
CCAAAGTGGGTGATGGAAAA+TGG 0.342509 3:-97840827 MsaT016435.1:CDS
AATTACTTGTTGATCCTTGT+TGG 0.359191 3:+97840061 None:intergenic
TGAGTTGCTTAAGAAAATTA+AGG 0.374516 3:-97840249 MsaT016435.1:intron
ACAGGCCAGCTGATGAATTT+GGG 0.393986 3:-97839884 MsaT016435.1:CDS
TACTGCATGCCAGGGATGAC+TGG 0.411671 3:-97840275 MsaT016435.1:CDS
GTGATGACCAAATTCACTTT+GGG 0.424646 3:+97840302 None:intergenic
ATCACAGACTACTGCATGCC+AGG 0.428078 3:-97840284 MsaT016435.1:CDS
TTCTTCTCCAAAGTGGGTGA+TGG 0.468274 3:-97840834 MsaT016435.1:CDS
TGATTCTTCTTCTCCAAAGT+GGG 0.475879 3:-97840840 MsaT016435.1:CDS
ACCTTCCCAAATTCATCAGC+TGG 0.476038 3:+97839879 None:intergenic
TCAGATGACATGATCACAAC+AGG 0.480037 3:+97840091 None:intergenic
TCAGCAATCATCTGTGATGA+AGG 0.481432 3:-97840119 MsaT016435.1:intron
CTGATTCTTCTTCTCCAAAG+TGG 0.483332 3:-97840841 MsaT016435.1:CDS
TGTGATGACCAAATTCACTT+TGG 0.486577 3:+97840301 None:intergenic
GAACAGAACACTTTGGAGAA+TGG 0.490659 3:-97840469 MsaT016435.1:CDS
CAGTGACAACTGCTGAAAAT+GGG 0.502968 3:-97840528 MsaT016435.1:CDS
TTTACATCAGATTGTTTGAG+AGG 0.513388 3:+97839914 None:intergenic
TGAAAATGGGCTGAAGGCAT+TGG 0.515465 3:-97840515 MsaT016435.1:CDS
AACTCATAGCCAGTCATCCC+TGG 0.516855 3:+97840266 None:intergenic
AAAAGCAGGTGTATGGAAGA+AGG 0.535716 3:-97839959 MsaT016435.1:intron
AAAGCAGGTGTATGGAAGAA+GGG 0.542181 3:-97839958 MsaT016435.1:intron
AACTGCTGAAAATGGGCTGA+AGG 0.568007 3:-97840521 MsaT016435.1:CDS
CTCAAGAATTCCTCTTGCAA+AGG 0.589496 3:-97840740 MsaT016435.1:intron
GCCAGCTGATGAATTTGGGA+AGG 0.598518 3:-97839880 MsaT016435.1:CDS
AAGCAGGTGTATGGAAGAAG+GGG 0.612241 3:-97839957 MsaT016435.1:intron
TCACAGACTACTGCATGCCA+GGG 0.612620 3:-97840283 MsaT016435.1:CDS
CTTTGCAAGAGGAATTCTTG+AGG 0.621330 3:+97840741 None:intergenic
TCTGATGTAAAACAACTGAC+AGG 0.621647 3:-97839902 MsaT016435.1:CDS
TCATCAACAGCAAGAACATG+AGG 0.625979 3:+97840797 None:intergenic
AAGTGGTGAACAGAACACTT+TGG 0.626039 3:-97840476 MsaT016435.1:CDS
GAGTATTTGGGCTTGTCAAG+TGG 0.627865 3:-97840493 MsaT016435.1:CDS
GGTGTACGTACCTTTGCAAG+AGG 0.636893 3:+97840730 None:intergenic
GCAATCATCTGTGATGAAGG+AGG 0.667691 3:-97840116 MsaT016435.1:CDS
CATCTGAGAATATACCAACA+AGG 0.683899 3:-97840075 MsaT016435.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 97839865 97840870 97839865 ID=MsaG016435
Chr3 mRNA 97839865 97840870 97839865 ID=MsaT016435.1;Parent=MsaG016435
Chr3 exon 97839865 97839973 97839865 ID=MsaT016435.1.exon5;Parent=MsaT016435.1
Chr3 CDS 97839865 97839973 97839865 ID=cds.MsaT016435.1;Parent=MsaT016435.1
Chr3 exon 97840067 97840137 97840067 ID=MsaT016435.1.exon4;Parent=MsaT016435.1
Chr3 CDS 97840067 97840137 97840067 ID=cds.MsaT016435.1;Parent=MsaT016435.1
Chr3 exon 97840250 97840327 97840250 ID=MsaT016435.1.exon3;Parent=MsaT016435.1
Chr3 CDS 97840250 97840327 97840250 ID=cds.MsaT016435.1;Parent=MsaT016435.1
Chr3 exon 97840468 97840547 97840468 ID=MsaT016435.1.exon2;Parent=MsaT016435.1
Chr3 CDS 97840468 97840547 97840468 ID=cds.MsaT016435.1;Parent=MsaT016435.1
Chr3 exon 97840741 97840870 97840741 ID=MsaT016435.1.exon1;Parent=MsaT016435.1
Chr3 CDS 97840741 97840870 97840741 ID=cds.MsaT016435.1;Parent=MsaT016435.1
Gene Sequence

>MsaT016435.1

ATGGCTTCTGATTCTTCTTCTCCAAAGTGGGTGATGGAAAATGGTGACATTCCTCATGTTCTTGCTGTTGATGACAATATCATTGATCGCACACTTGTTGAGAAACTCCTCAAGAATTCCTCTTGCAAAGTGACAACTGCTGAAAATGGGCTGAAGGCATTGGAGTATTTGGGCTTGTCAAGTGGTGAACAGAACACTTTGGAGAATGGAGGACCCAAAGTGAATTTGGTCATCACAGACTACTGCATGCCAGGGATGACTGGCTATGAGTTGCTTAAGAAAATTAAGCAATCATCTGTGATGAAGGAGGTTCCTGTTGTGATCATGTCATCTGAGAATATACCAACAAGGATCAACAAGTGTATGGAAGAAGGGGCTCAGATGTTCATACAAAAGCCTCTCAAACAATCTGATGTAAAACAACTGACAGGCCAGCTGATGAATTTGGGAAGGTTGCAAAAGAATTGA
Protein sequence

>MsaT016435.1

MASDSSSPKWVMENGDIPHVLAVDDNIIDRTLVEKLLKNSSCKVTTAENGLKALEYLGLSSGEQNTLENGGPKVNLVITDYCMPGMTGYELLKKIKQSSVMKEVPVVIMSSENIPTRINKCMEEGAQMFIQKPLKQSDVKQLTGQLMNLGRLQKN*