AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG017943

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017943 MtrunA17_Chr4g0001081 96.889 225 6 1 1 225 1 224 8.37e-161 443
MsaG017943 MtrunA17_Chr2g0333741 52.083 240 81 11 9 225 19 247 9.23e-60 188
MsaG017943 MtrunA17_Chr1g0149811 38.136 236 96 10 21 225 46 262 4.48e-34 122
MsaG017943 MtrunA17_Chr3g0137111 34.615 208 97 6 24 198 25 226 9.78e-27 102
MsaG017943 MtrunA17_Chr8g0376021 39.416 137 66 3 6 131 2 132 1.54e-23 94.0
MsaG017943 MtrunA17_Chr5g0434121 48.739 119 51 3 16 127 38 153 4.92e-21 87.8
MsaG017943 MtrunA17_Chr1g0207691 56.522 69 27 1 67 132 64 132 2.90e-19 82.0
MsaG017943 MtrunA17_Chr1g0161901 56.944 72 24 2 67 131 97 168 5.02e-19 82.8
MsaG017943 MtrunA17_Chr3g0110091 60.274 73 21 3 62 127 80 151 2.12e-18 80.9
MsaG017943 MtrunA17_Chr4g0053691 44.545 110 42 4 67 174 67 159 1.17e-17 77.4
MsaG017943 MtrunA17_Chr4g0072571 65.385 52 16 1 64 115 42 91 3.60e-16 73.2
MsaG017943 MtrunA17_Chr5g0396031 40.909 110 41 3 46 137 25 128 1.36e-15 74.7
MsaG017943 MtrunA17_Chr3g0081131 46.512 86 37 2 61 137 92 177 9.87e-14 68.9
MsaG017943 MtrunA17_Chr7g0254221 57.407 54 20 1 50 100 13 66 7.01e-13 64.3
MsaG017943 MtrunA17_Chr3g0081141 42.105 95 34 2 61 137 92 183 7.01e-13 66.6
MsaG017943 MtrunA17_Chr7g0251581 75.758 33 8 0 67 99 39 71 3.16e-12 63.2
MsaG017943 MtrunA17_Chr3g0081121 40.909 88 37 2 65 137 96 183 9.10e-12 63.2
MsaG017943 MtrunA17_Chr7g0239711 48.214 56 29 0 67 122 57 112 7.11e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017943 AT1G80730.1 37.991 229 93 7 24 225 22 228 6.67e-33 119
MsaG017943 AT5G25160.1 41.743 218 86 10 36 225 31 235 1.09e-31 116
MsaG017943 AT5G10970.1 39.726 219 113 8 22 225 58 272 1.15e-31 117
MsaG017943 AT1G24625.1 62.121 66 24 1 63 127 53 118 3.62e-20 85.5
MsaG017943 AT1G66140.1 48.485 99 23 3 67 137 83 181 1.93e-17 79.0
MsaG017943 AT5G57520.1 70.833 48 14 0 66 113 49 96 2.58e-16 73.6
MsaG017943 AT5G14010.1 79.412 34 7 0 67 100 36 69 2.29e-13 65.9
MsaG017943 AT5G01860.1 62.222 45 17 0 56 100 54 98 7.94e-13 65.5
MsaG017943 AT1G67030.1 41.667 84 39 2 39 114 3 84 3.13e-11 60.8

Find 34 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGTTTCCATGCAAATTTAT+TGG 0.191144 4:-1170042 MsaT017943.1:CDS
TCTTCTTCACTACCTTCTTA+TGG 0.229495 4:-1169855 MsaT017943.1:CDS
GGGTAGCCATGTTTCCTAAA+AGG 0.278959 4:-1169626 MsaT017943.1:CDS
TTTCGCGCTTGTGTGCATTC+TGG 0.297005 4:+1169916 None:intergenic
GAGAACTATAAAACTTTCTT+TGG 0.300653 4:+1169955 None:intergenic
AGGACTTGGAGGTTACTTAT+TGG 0.313639 4:-1169592 MsaT017943.1:CDS
TCAATGCCTAAAACCTTCTA+TGG 0.314982 4:-1170168 MsaT017943.1:CDS
AATGGAAGCTTTCCAATTGC+TGG 0.351292 4:+1169705 None:intergenic
TTTGATTCACAGCCAGCAAT+TGG 0.385219 4:-1169717 MsaT017943.1:CDS
AAAACGGGTGTTTGATAAGA+AGG 0.401545 4:+1169783 None:intergenic
CTCACATGAAAATTTCCTAA+TGG 0.404461 4:+1169687 None:intergenic
GCAATTGGAAAGCTTCCATT+AGG 0.416438 4:-1169702 MsaT017943.1:CDS
CCTTTGGTGGTAGCATTTCA+AGG 0.427189 4:-1169647 MsaT017943.1:CDS
CCTAAAAGGCTTGCAAATGA+AGG 0.436826 4:-1169612 MsaT017943.1:CDS
GATGAAGTTGAATCATCCTT+TGG 0.437021 4:-1169663 MsaT017943.1:CDS
AGGCTTGCAAATGAAGGACT+TGG 0.478799 4:-1169606 MsaT017943.1:CDS
GTTCAAATGGACAAAATGGA+TGG 0.492994 4:-1169752 MsaT017943.1:CDS
TTGTTACACAAGCCATAAGA+AGG 0.503153 4:+1169843 None:intergenic
CTTGCAAATGAAGGACTTGG+AGG 0.517674 4:-1169603 MsaT017943.1:CDS
AGCTTTCCAATAAATTTGCA+TGG 0.524884 4:+1170036 None:intergenic
AATTTGCATGGAAACAATTG+AGG 0.530917 4:+1170048 None:intergenic
GGCTTGTGTAACAAATCACT+TGG 0.540135 4:-1169834 MsaT017943.1:CDS
ACACAAGCGCGAAAGAACTT+TGG 0.541231 4:-1169907 MsaT017943.1:CDS
CCTTGAAATGCTACCACCAA+AGG 0.566032 4:+1169647 None:intergenic
AAATTTATTGGAAAGCTCCT+CGG 0.572514 4:-1170030 MsaT017943.1:CDS
TCTGACTTTGAATCACTACA+TGG 0.579513 4:+1170080 None:intergenic
TTGCATGGAAACAATTGAGG+AGG 0.582251 4:+1170051 None:intergenic
GAAAGAACTTTGGCGAGAAG+AGG 0.587899 4:-1169897 MsaT017943.1:CDS
TGATCTAAGTCTCTCTAGCA+AGG 0.597107 4:-1170105 MsaT017943.1:CDS
CTTTGGTGGTAGCATTTCAA+GGG 0.599828 4:-1169646 MsaT017943.1:CDS
GAAGTTGAATCATCCTTTGG+TGG 0.613485 4:-1169660 MsaT017943.1:CDS
AAGAGGCTATACAACTAGCA+TGG 0.636438 4:-1169880 MsaT017943.1:CDS
ATTCTCATGACTAGATTCCG+AGG 0.661115 4:+1170013 None:intergenic
TATAGTTCTCAAGCACTCGG+AGG 0.694468 4:-1169942 MsaT017943.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 1169521 1170198 1169521 ID=MsaG017943
Chr4 mRNA 1169521 1170198 1169521 ID=MsaT017943.1;Parent=MsaG017943
Chr4 exon 1169521 1170198 1169521 ID=MsaT017943.1.exon1;Parent=MsaT017943.1
Chr4 CDS 1169521 1170198 1169521 ID=cds.MsaT017943.1;Parent=MsaT017943.1
Gene Sequence

>MsaT017943.1

ATGAATCTTCAATGCCTAAAACCTTCTATGGATAGAAAACACAAAAATGATTCATCTTCTCAACTTGTACTTGATCTAAGTCTCTCTAGCAAGGATCCATGTAGTGATTCAAAGTCAGAACTTAACCTCCTCAATTGTTTCCATGCAAATTTATTGGAAAGCTCCTCGGAATCTAGTCATGAGAATGAACTTGATCCGAGAGTTTTTTCATGCAACTACTGCCAAAGAAAGTTTTATAGTTCTCAAGCACTCGGAGGACACCAGAATGCACACAAGCGCGAAAGAACTTTGGCGAGAAGAGGCTATACAACTAGCATGGCTTCTTCTTCACTACCTTCTTATGGCTTGTGTAACAAATCACTTGGCATTCAAGTGCATTCTATGATTAACAAACCTTCTTATCAAACACCCGTTTTTGGATTTTGTTCAAATGGACAAAATGGATGGAGAAGACAAAACTTTGATTCACAGCCAGCAATTGGAAAGCTTCCATTAGGAAATTTTCATGTGAGGGATGAAGTTGAATCATCCTTTGGTGGTAGCATTTCAAGGGTAGCCATGTTTCCTAAAAGGCTTGCAAATGAAGGACTTGGAGGTTACTTATTGGATAGTAACACTTCTCATTTGCAGTCTAAACAAGAGAAGTTGCAAAAACTTGACTTATCTCTTAAGCTCTAA
Protein sequence

>MsaT017943.1

MNLQCLKPSMDRKHKNDSSSQLVLDLSLSSKDPCSDSKSELNLLNCFHANLLESSSESSHENELDPRVFSCNYCQRKFYSSQALGGHQNAHKRERTLARRGYTTSMASSSLPSYGLCNKSLGIQVHSMINKPSYQTPVFGFCSNGQNGWRRQNFDSQPAIGKLPLGNFHVRDEVESSFGGSISRVAMFPKRLANEGLGGYLLDSNTSHLQSKQEKLQKLDLSLKL*