AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene88668

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene88668.t1 MTR_4g128340 97.656 128 3 0 1 128 42 169 1.26e-90 259
MS.gene88668.t1 MTR_2g104900 35.632 174 62 6 1 128 78 247 1.46e-18 78.6
MS.gene88668.t1 MTR_1g033340 35.443 158 66 6 4 128 97 251 2.70e-18 77.8
MS.gene88668.t1 MTR_5g077370 67.273 55 15 1 4 55 87 141 7.45e-18 76.6
MS.gene88668.t1 MTR_3g065020 64.286 56 19 1 3 58 85 139 4.77e-17 74.3
MS.gene88668.t1 MTR_4g006575 67.347 49 14 1 1 47 64 112 1.33e-16 73.2
MS.gene88668.t1 MTR_4g006600 67.347 49 14 1 1 47 64 112 1.33e-16 73.2
MS.gene88668.t1 MTR_1g013130 64.583 48 17 0 1 48 91 138 2.30e-16 73.2
MS.gene88668.t1 MTR_3g106230 73.684 38 10 0 2 39 70 107 8.16e-15 68.2
MS.gene88668.t1 MTR_7g086860 74.286 35 9 0 4 38 30 64 4.09e-13 62.4
MS.gene88668.t1 MTR_1g107055 70.588 34 10 0 4 37 64 97 4.49e-12 60.5
MS.gene88668.t1 MTR_7g083210 75.758 33 8 0 4 36 39 71 5.93e-12 60.1
MS.gene88668.t1 MTR_7g022250 29.936 157 78 5 3 128 84 239 1.84e-11 59.3
MS.gene88668.t1 MTR_8g466760 61.538 39 15 0 2 40 96 134 3.43e-11 59.3
MS.gene88668.t1 MTR_7g028915 31.159 138 78 3 3 128 80 212 4.57e-11 58.2
MS.gene88668.t1 MTR_5g008390 57.500 40 17 0 1 40 11 50 8.42e-11 55.1
MS.gene88668.t1 MTR_3g009410 61.538 39 15 0 2 40 96 134 9.02e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene88668.t1 AT5G57520 47.287 129 43 6 1 128 46 150 1.89e-22 86.7
MS.gene88668.t1 AT5G10970 45.714 105 46 4 2 106 100 193 2.14e-19 81.3
MS.gene88668.t1 AT5G25160 54.545 88 25 5 2 85 57 133 9.75e-19 79.0
MS.gene88668.t1 AT1G66140 75.000 44 11 0 1 44 80 123 2.20e-17 75.9
MS.gene88668.t1 AT1G80730 54.054 74 30 1 2 71 64 137 4.82e-17 74.3
MS.gene88668.t1 AT1G24625 78.947 38 8 0 4 41 57 94 3.54e-16 71.6
MS.gene88668.t1 AT5G14010 31.783 129 81 2 4 128 36 161 5.43e-13 62.4
MS.gene88668.t1 AT5G01860 53.061 49 19 1 4 52 65 109 2.92e-12 61.2

Find 32 sgRNAs with CRISPR-Local

Find 32 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTAAGGAAGGTGTGGCTTCT+TGG 0.263748 8.1:-4450911 MS.gene88668:CDS
TTTCAAGCTTGTGAGCATTT+TGG 0.263848 8.1:+4451129 None:intergenic
GAGAAGTTTGAAGGGTGTTC+TGG 0.318303 8.1:+4451044 None:intergenic
GTTTAGTTATGGAAATTCTA+AGG 0.345981 8.1:-4450928 MS.gene88668:CDS
TTCTCTACTAATTACCATCT+TGG 0.347245 8.1:-4451026 MS.gene88668:CDS
AGAAAAGATCAGTTTAGTTA+TGG 0.369153 8.1:-4450939 MS.gene88668:CDS
TCATCACATGACCTTGTCTA+TGG 0.389808 8.1:+4450973 None:intergenic
GCCAACTTGATTTGTCCTTA+AGG 0.395324 8.1:-4450842 MS.gene88668:CDS
CATTTATAATCAGAGCCTTA+AGG 0.403759 8.1:+4450827 None:intergenic
TAGTACTTCTGAAAATGTTC+AGG 0.411786 8.1:-4450874 MS.gene88668:CDS
AGGTGTGGCTTCTTGGTCAA+GGG 0.430940 8.1:-4450904 MS.gene88668:CDS
TAATTAGTAGAGAAGTTTGA+AGG 0.473837 8.1:+4451035 None:intergenic
AAGGTGTGGCTTCTTGGTCA+AGG 0.476344 8.1:-4450905 MS.gene88668:CDS
AGTTATGGAAATTCTAAGGA+AGG 0.495820 8.1:-4450924 MS.gene88668:CDS
GGACACTTGCAAAGAAGAGT+AGG 0.507806 8.1:-4451106 MS.gene88668:CDS
AAAATGCTCACAAGCTTGAA+AGG 0.509103 8.1:-4451127 MS.gene88668:CDS
AATTACCATCTTGGAAGTCA+TGG 0.516260 8.1:-4451017 MS.gene88668:CDS
CATTTCCATGACTTCCAAGA+TGG 0.523980 8.1:+4451012 None:intergenic
AATTAGTAGAGAAGTTTGAA+GGG 0.551396 8.1:+4451036 None:intergenic
TGGAAATTCTAAGGAAGGTG+TGG 0.568793 8.1:-4450919 MS.gene88668:CDS
GCCTTAAGGACAAATCAAGT+TGG 0.573380 8.1:+4450841 None:intergenic
GACACTTGCAAAGAAGAGTA+GGG 0.576451 8.1:-4451105 MS.gene88668:CDS
CATCTTCATCTATGGAGCAA+AGG 0.583885 8.1:-4451211 None:intergenic
GGTGTGGCTTCTTGGTCAAG+GGG 0.586234 8.1:-4450903 MS.gene88668:CDS
TATAGCTCTCAAGCTTTGGG+AGG 0.587863 8.1:-4451155 MS.gene88668:CDS
TACTTCTGAAAATGTTCAGG+AGG 0.608835 8.1:-4450871 MS.gene88668:CDS
TTCAGCATAAGAAGATTGCA+TGG 0.617834 8.1:+4451070 None:intergenic
ATAGACAAGGTCATGTGATG+AGG 0.622400 8.1:-4450971 MS.gene88668:CDS
CTTGACAACAACCATAGACA+AGG 0.646735 8.1:-4450984 MS.gene88668:CDS
CAAGGTCATGTGATGAGGCA+TGG 0.652675 8.1:-4450966 MS.gene88668:CDS
GGTCATGTGATGAGGCATGG+TGG 0.708373 8.1:-4450963 MS.gene88668:CDS
AGCATAAGAAGATTGCATGG+CGG 0.769594 8.1:+4451073 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AATTAGTAGAGAAGTTTGAA+GGG + chr8.1:4451003-4451022 None:intergenic 25.0%
! AGAAAAGATCAGTTTAGTTA+TGG - chr8.1:4451097-4451116 MS.gene88668:CDS 25.0%
! GTTTAGTTATGGAAATTCTA+AGG - chr8.1:4451108-4451127 MS.gene88668:CDS 25.0%
! TAATTAGTAGAGAAGTTTGA+AGG + chr8.1:4451004-4451023 None:intergenic 25.0%
TTCTCTACTAATTACCATCT+TGG - chr8.1:4451010-4451029 MS.gene88668:CDS 30.0%
! AGTTATGGAAATTCTAAGGA+AGG - chr8.1:4451112-4451131 MS.gene88668:CDS 30.0%
! TAGTACTTCTGAAAATGTTC+AGG - chr8.1:4451162-4451181 MS.gene88668:CDS 30.0%
! TTTTATAGCTCTCAAGCTTT+GGG - chr8.1:4450878-4450897 MS.gene88668:CDS 30.0%
AAAATGCTCACAAGCTTGAA+AGG - chr8.1:4450909-4450928 MS.gene88668:CDS 35.0%
AATTACCATCTTGGAAGTCA+TGG - chr8.1:4451019-4451038 MS.gene88668:CDS 35.0%
TTCAGCATAAGAAGATTGCA+TGG + chr8.1:4450969-4450988 None:intergenic 35.0%
! GTTTTATAGCTCTCAAGCTT+TGG - chr8.1:4450877-4450896 MS.gene88668:CDS 35.0%
! TACTTCTGAAAATGTTCAGG+AGG - chr8.1:4451165-4451184 MS.gene88668:CDS 35.0%
! TTTCAAGCTTGTGAGCATTT+TGG + chr8.1:4450910-4450929 None:intergenic 35.0%
AGCATAAGAAGATTGCATGG+CGG + chr8.1:4450966-4450985 None:intergenic 40.0%
ATAGACAAGGTCATGTGATG+AGG - chr8.1:4451065-4451084 MS.gene88668:CDS 40.0%
CATTTCCATGACTTCCAAGA+TGG + chr8.1:4451027-4451046 None:intergenic 40.0%
CTTGACAACAACCATAGACA+AGG - chr8.1:4451052-4451071 MS.gene88668:CDS 40.0%
GACACTTGCAAAGAAGAGTA+GGG - chr8.1:4450931-4450950 MS.gene88668:CDS 40.0%
GCCTTAAGGACAAATCAAGT+TGG + chr8.1:4451198-4451217 None:intergenic 40.0%
TCATCACATGACCTTGTCTA+TGG + chr8.1:4451066-4451085 None:intergenic 40.0%
! TGGAAATTCTAAGGAAGGTG+TGG - chr8.1:4451117-4451136 MS.gene88668:CDS 40.0%
!! GCCAACTTGATTTGTCCTTA+AGG - chr8.1:4451194-4451213 MS.gene88668:CDS 40.0%
GGACACTTGCAAAGAAGAGT+AGG - chr8.1:4450930-4450949 MS.gene88668:CDS 45.0%
!! GAGAAGTTTGAAGGGTGTTC+TGG + chr8.1:4450995-4451014 None:intergenic 45.0%
!! TATAGCTCTCAAGCTTTGGG+AGG - chr8.1:4450881-4450900 MS.gene88668:CDS 45.0%
AAGGTGTGGCTTCTTGGTCA+AGG - chr8.1:4451131-4451150 MS.gene88668:CDS 50.0%
AGGTGTGGCTTCTTGGTCAA+GGG - chr8.1:4451132-4451151 MS.gene88668:CDS 50.0%
CAAGGTCATGTGATGAGGCA+TGG - chr8.1:4451070-4451089 MS.gene88668:CDS 50.0%
! CTAAGGAAGGTGTGGCTTCT+TGG - chr8.1:4451125-4451144 MS.gene88668:CDS 50.0%
GGTCATGTGATGAGGCATGG+TGG - chr8.1:4451073-4451092 MS.gene88668:CDS 55.0%
GGTGTGGCTTCTTGGTCAAG+GGG - chr8.1:4451133-4451152 MS.gene88668:CDS 55.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 4450836 4451222 4450836 ID=MS.gene88668
chr8.1 mRNA 4450836 4451222 4450836 ID=MS.gene88668.t1;Parent=MS.gene88668
chr8.1 exon 4450836 4451222 4450836 ID=MS.gene88668.t1.exon1;Parent=MS.gene88668.t1
chr8.1 CDS 4450836 4451222 4450836 ID=cds.MS.gene88668.t1;Parent=MS.gene88668.t1
Gene Sequence

>MS.gene88668

ATGGAGCAAAGGATATTCTCATGCAATTATTGTCAGAGAAAGTTTTATAGCTCTCAAGCTTTGGGAGGACACCAAAATGCTCACAAGCTTGAAAGGACACTTGCAAAGAAGAGTAGGGAGATGAGTTCCGCCATGCAATCTTCTTATGCTGAATTACCAGAACACCCTTCAAACTTCTCTACTAATTACCATCTTGGAAGTCATGGAAATGCTCATCTTGACAACAACCATAGACAAGGTCATGTGATGAGGCATGGTGGAAGAAAAGATCAGTTTAGTTATGGAAATTCTAAGGAAGGTGTGGCTTCTTGGTCAAGGGGTTATAATAGTACTTCTGAAAATGTTCAGGAGGATATTAGCCAACTTGATTTGTCCTTAAGGCTCTGA
Protein sequence

>MS.gene88668.t1

MEQRIFSCNYCQRKFYSSQALGGHQNAHKLERTLAKKSREMSSAMQSSYAELPEHPSNFSTNYHLGSHGNAHLDNNHRQGHVMRHGGRKDQFSYGNSKEGVASWSRGYNSTSENVQEDISQLDLSLRL