AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene73826

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene73826.t1 MTR_4g078660 97.203 143 4 0 1 143 1 143 5.96e-103 297
MS.gene73826.t1 MTR_2g090605 59.259 162 45 5 1 143 1 160 5.09e-60 191
MS.gene73826.t1 MTR_8g102100 75.556 90 22 0 54 143 75 164 1.11e-50 166
MS.gene73826.t1 MTR_6g090380 71.287 101 27 1 43 143 88 186 1.18e-50 165
MS.gene73826.t1 MTR_3g103960 68.539 89 27 1 56 143 49 137 1.01e-45 150
MS.gene73826.t1 MTR_7g092070 67.045 88 29 0 56 143 260 347 1.04e-41 147
MS.gene73826.t1 MTR_5g071070 60.227 88 35 0 56 143 144 231 3.60e-40 142
MS.gene73826.t1 MTR_5g071070 60.227 88 35 0 56 143 226 313 7.56e-40 141
MS.gene73826.t1 MTR_3g029590 63.636 88 32 0 56 143 260 347 7.95e-40 141
MS.gene73826.t1 MTR_5g082830 62.500 88 33 0 56 143 213 300 1.62e-39 140
MS.gene73826.t1 MTR_1g050438 62.500 88 33 0 56 143 224 311 1.62e-39 140
MS.gene73826.t1 MTR_0728s0020 62.500 88 33 0 56 143 240 327 1.93e-39 140
MS.gene73826.t1 MTR_3g070880 42.254 142 76 2 8 143 105 246 1.42e-36 131
MS.gene73826.t1 MTR_1g075890 57.955 88 37 0 56 143 225 312 1.62e-36 132
MS.gene73826.t1 MTR_3g435680 59.091 88 36 0 56 143 147 234 1.08e-35 127
MS.gene73826.t1 MTR_3g435590 44.262 122 62 2 22 143 206 321 1.16e-32 120
MS.gene73826.t1 MTR_3g464290 51.163 86 41 1 56 140 96 181 4.48e-28 107
MS.gene73826.t1 MTR_3g464270 50.000 86 42 1 59 143 8 93 3.20e-26 101
MS.gene73826.t1 MTR_3g464260 55.556 54 24 0 90 143 211 264 3.98e-18 80.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene73826.t1 AT1G03790 84.783 92 13 1 53 143 75 166 6.40e-55 177
MS.gene73826.t1 AT5G44260 64.844 128 32 2 29 143 17 144 4.84e-53 172
MS.gene73826.t1 AT4G29190 60.526 114 42 1 33 143 49 162 5.35e-50 163
MS.gene73826.t1 AT2G25900 75.556 90 22 0 54 143 84 173 7.57e-50 162
MS.gene73826.t1 AT2G25900 75.556 90 22 0 54 143 84 173 7.57e-50 162
MS.gene73826.t1 AT2G19810 74.444 90 23 0 54 143 72 161 5.84e-49 160
MS.gene73826.t1 AT2G41900 64.773 88 31 0 56 143 257 344 5.06e-41 145
MS.gene73826.t1 AT5G58620 63.636 88 32 0 56 143 205 292 8.54e-41 143
MS.gene73826.t1 AT5G12850 63.636 88 32 0 56 143 253 340 9.74e-41 144
MS.gene73826.t1 AT5G07500 64.835 91 32 0 52 142 44 134 3.85e-40 135
MS.gene73826.t1 AT2G40140 50.909 110 52 1 34 143 190 297 6.21e-39 138
MS.gene73826.t1 AT2G40140 50.909 110 52 1 34 143 190 297 6.21e-39 138
MS.gene73826.t1 AT3G55980 50.926 108 51 1 36 143 189 294 1.61e-38 137
MS.gene73826.t1 AT3G55980 50.926 108 51 1 36 143 256 361 2.11e-38 137

Find 48 sgRNAs with CRISPR-Local

Find 63 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTCAGTGACGGCGGTGGAGG+TGG 0.303772 4.2:-31370979 None:intergenic
CGGAAATGGTCCGAGGAATA+AGG 0.321371 4.2:-31371020 None:intergenic
TCCAGTCGTGGCTCCGGCTA+CGG 0.353618 4.2:-31371073 None:intergenic
CGGTGGAGGTGGGTGAGCGG+CGG 0.371274 4.2:-31370968 None:intergenic
CAGTTTCCACGGCGGTAATC+AGG 0.380359 4.2:-31371176 None:intergenic
TGAACTCGTACATTCGGAAA+TGG 0.412475 4.2:-31371034 None:intergenic
CCAGTCGTGGCTCCGGCTAC+GGG 0.415412 4.2:-31371072 None:intergenic
AGTGCTGGTTGCACCCTTCA+AGG 0.423216 4.2:+31371240 MS.gene73826:CDS
CGCCGTGGAAACTGCGACCG+CGG 0.439207 4.2:+31371185 MS.gene73826:CDS
GCTTCAGTTCTATACCTTGA+AGG 0.441697 4.2:-31371254 None:intergenic
GGTGGAGGTGGGTGAGCGGC+GGG 0.446091 4.2:-31370967 None:intergenic
GACTGCCCTTTCGCCCATCC+AGG 0.447522 4.2:+31371098 MS.gene73826:CDS
TCCGGCTACGGGTGCATCGC+CGG 0.451200 4.2:-31371061 None:intergenic
CCCGTAGCCGGAGCCACGAC+TGG 0.463023 4.2:+31371072 MS.gene73826:CDS
CGATGAGGATCCTTATTCCT+CGG 0.469526 4.2:+31371010 MS.gene73826:CDS
CGGCGGGTGAGTAGCTTCCT+AGG 0.471531 4.2:-31370951 None:intergenic
CATGTCAGTGACGGCGGTGG+AGG 0.473061 4.2:-31370982 None:intergenic
TTTCGCCCATCCAGGCGAAA+AGG 0.492467 4.2:+31371106 MS.gene73826:CDS
AGTCAGTCCAGTCGTGGCTC+CGG 0.493879 4.2:-31371079 None:intergenic
AGAACTGAAGCTTGTAAAGA+TGG 0.494694 4.2:+31371266 MS.gene73826:CDS
CACCGCGGTCGCAGTTTCCA+CGG 0.495031 4.2:-31371187 None:intergenic
CACTCTAAGGGACACTATCA+TGG 0.497717 4.2:+31370917 MS.gene73826:CDS
TCAGTGACGGCGGTGGAGGT+GGG 0.503377 4.2:-31370978 None:intergenic
TCCGGCGATGCACCCGTAGC+CGG 0.506464 4.2:+31371060 MS.gene73826:CDS
CTTCAGTTCTATACCTTGAA+GGG 0.525702 4.2:-31371253 None:intergenic
TTTCGCCTGGATGGGCGAAA+GGG 0.529164 4.2:-31371103 None:intergenic
CGGCGGTGGAGGTGGGTGAG+CGG 0.570782 4.2:-31370971 None:intergenic
GAATGTACGAGTTCAAAATC+CGG 0.577680 4.2:+31371042 MS.gene73826:CDS
AAACATGTCAGTGACGGCGG+TGG 0.580438 4.2:-31370985 None:intergenic
GGGTGAGTAGCTTCCTAGGT+GGG 0.590238 4.2:-31370947 None:intergenic
CGGGTGAGTAGCTTCCTAGG+TGG 0.603813 4.2:-31370948 None:intergenic
ACCGGAGTACTGATACCTGA+GGG 0.606467 4.2:-31371144 None:intergenic
CCCCTCAGGTATCAGTACTC+CGG 0.607988 4.2:+31371143 MS.gene73826:CDS
AAGGGCAGTCAGTCCAGTCG+TGG 0.612908 4.2:-31371085 None:intergenic
ATCGGAAAACATGTCAGTGA+CGG 0.625042 4.2:-31370991 None:intergenic
GTAATCAGGACACACCTCAC+CGG 0.640259 4.2:-31371162 None:intergenic
CGAGGAATAAGGATCCTCAT+CGG 0.647314 4.2:-31371009 None:intergenic
GAAGCGTGTGAATTCTCCCA+CGG 0.655675 4.2:+31371209 MS.gene73826:CDS
GTGTGTCCTGATTACCGCCG+TGG 0.679034 4.2:+31371170 MS.gene73826:CDS
TCATGGACAACATCCCACCT+AGG 0.683628 4.2:+31370934 MS.gene73826:CDS
GGAAAACATGTCAGTGACGG+CGG 0.684057 4.2:-31370988 None:intergenic
CACCGGAGTACTGATACCTG+AGG 0.684435 4.2:-31371145 None:intergenic
GTACATTCGGAAATGGTCCG+AGG 0.686670 4.2:-31371027 None:intergenic
CAGGTATCAGTACTCCGGTG+AGG 0.694360 4.2:+31371148 MS.gene73826:CDS
CGGAGTACTGATACCTGAGG+GGG 0.701089 4.2:-31371142 None:intergenic
CCGGAGTACTGATACCTGAG+GGG 0.737115 4.2:-31371143 None:intergenic
CGCGGTCGCAGTTTCCACGG+CGG 0.739171 4.2:-31371184 None:intergenic
AGAATTCACACGCTTCACCG+CGG 0.764375 4.2:-31371202 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CTTCAGTTCTATACCTTGAA+GGG - chr4.2:31371256-31371275 None:intergenic 35.0%
GAAAAAGTCTCTCACTCTAA+GGG + chr4.2:31370905-31370924 MS.gene73826:CDS 35.0%
GAATGTACGAGTTCAAAATC+CGG + chr4.2:31371042-31371061 MS.gene73826:CDS 35.0%
TGAAAAAGTCTCTCACTCTA+AGG + chr4.2:31370904-31370923 MS.gene73826:CDS 35.0%
! GGATTTTGAACTCGTACATT+CGG - chr4.2:31371043-31371062 None:intergenic 35.0%
!! TTAGAGTGAGAGACTTTTTC+AGG - chr4.2:31370905-31370924 None:intergenic 35.0%
!!! TAGAGTGAGAGACTTTTTCA+GGG - chr4.2:31370904-31370923 None:intergenic 35.0%
ATCGGAAAACATGTCAGTGA+CGG - chr4.2:31370994-31371013 None:intergenic 40.0%
GCTTCAGTTCTATACCTTGA+AGG - chr4.2:31371257-31371276 None:intergenic 40.0%
TGAACTCGTACATTCGGAAA+TGG - chr4.2:31371037-31371056 None:intergenic 40.0%
!!! TGAGAGACTTTTTCAGGGAA+AGG - chr4.2:31370899-31370918 None:intergenic 40.0%
CGAGGAATAAGGATCCTCAT+CGG - chr4.2:31371012-31371031 None:intergenic 45.0%
CGATGAGGATCCTTATTCCT+CGG + chr4.2:31371010-31371029 MS.gene73826:CDS 45.0%
! CACTCTAAGGGACACTATCA+TGG + chr4.2:31370917-31370936 MS.gene73826:CDS 45.0%
! CACTGACATGTTTTCCGATG+AGG + chr4.2:31370995-31371014 MS.gene73826:CDS 45.0%
ACCAGCACTCAAAAACTCCG+TGG - chr4.2:31371229-31371248 None:intergenic 50.0%
AGAATTCACACGCTTCACCG+CGG - chr4.2:31371205-31371224 None:intergenic 50.0%
CCAGCACTCAAAAACTCCGT+GGG - chr4.2:31371228-31371247 None:intergenic 50.0%
CGGAAATGGTCCGAGGAATA+AGG - chr4.2:31371023-31371042 None:intergenic 50.0%
GAAGCGTGTGAATTCTCCCA+CGG + chr4.2:31371209-31371228 MS.gene73826:CDS 50.0%
GGAAAACATGTCAGTGACGG+CGG - chr4.2:31370991-31371010 None:intergenic 50.0%
GTAATCAGGACACACCTCAC+CGG - chr4.2:31371165-31371184 None:intergenic 50.0%
GTACATTCGGAAATGGTCCG+AGG - chr4.2:31371030-31371049 None:intergenic 50.0%
TCATGGACAACATCCCACCT+AGG + chr4.2:31370934-31370953 MS.gene73826:CDS 50.0%
!! ACCGGAGTACTGATACCTGA+GGG - chr4.2:31371147-31371166 None:intergenic 50.0%
AAACATGTCAGTGACGGCGG+TGG - chr4.2:31370988-31371007 None:intergenic 55.0%
CAGGTATCAGTACTCCGGTG+AGG + chr4.2:31371148-31371167 MS.gene73826:CDS 55.0%
CAGTTTCCACGGCGGTAATC+AGG - chr4.2:31371179-31371198 None:intergenic 55.0%
CCCCTCAGGTATCAGTACTC+CGG + chr4.2:31371143-31371162 MS.gene73826:CDS 55.0%
GGGTGAGTAGCTTCCTAGGT+GGG - chr4.2:31370950-31370969 None:intergenic 55.0%
TTTCGCCCATCCAGGCGAAA+AGG + chr4.2:31371106-31371125 MS.gene73826:CDS 55.0%
TTTCGCCTGGATGGGCGAAA+GGG - chr4.2:31371106-31371125 None:intergenic 55.0%
! TTTTCGCCTGGATGGGCGAA+AGG - chr4.2:31371107-31371126 None:intergenic 55.0%
!! AGTGCTGGTTGCACCCTTCA+AGG + chr4.2:31371240-31371259 MS.gene73826:CDS 55.0%
!! CACCGGAGTACTGATACCTG+AGG - chr4.2:31371148-31371167 None:intergenic 55.0%
!! CCGGAGTACTGATACCTGAG+GGG - chr4.2:31371146-31371165 None:intergenic 55.0%
!! CGGAGTACTGATACCTGAGG+GGG - chr4.2:31371145-31371164 None:intergenic 55.0%
!!! CCCACGGAGTTTTTGAGTGC+TGG + chr4.2:31371225-31371244 MS.gene73826:CDS 55.0%
AAGGGCAGTCAGTCCAGTCG+TGG - chr4.2:31371088-31371107 None:intergenic 60.0%
AGTCAGTCCAGTCGTGGCTC+CGG - chr4.2:31371082-31371101 None:intergenic 60.0%
CGGGTGAGTAGCTTCCTAGG+TGG - chr4.2:31370951-31370970 None:intergenic 60.0%
GATACCTGAGGGGGTCACGA+CGG - chr4.2:31371136-31371155 None:intergenic 60.0%
GTGTGTCCTGATTACCGCCG+TGG + chr4.2:31371170-31371189 MS.gene73826:CDS 60.0%
! GCGAGCCTTTTCGCCTGGAT+GGG - chr4.2:31371114-31371133 None:intergenic 60.0%
CACCGCGGTCGCAGTTTCCA+CGG - chr4.2:31371190-31371209 None:intergenic 65.0%
CATGTCAGTGACGGCGGTGG+AGG - chr4.2:31370985-31371004 None:intergenic 65.0%
CGGCGGGTGAGTAGCTTCCT+AGG - chr4.2:31370954-31370973 None:intergenic 65.0%
GACTGCCCTTTCGCCCATCC+AGG + chr4.2:31371098-31371117 MS.gene73826:CDS 65.0%
TCAGTGACGGCGGTGGAGGT+GGG - chr4.2:31370981-31371000 None:intergenic 65.0%
TCCAGTCGTGGCTCCGGCTA+CGG - chr4.2:31371076-31371095 None:intergenic 65.0%
! GGCGAGCCTTTTCGCCTGGA+TGG - chr4.2:31371115-31371134 None:intergenic 65.0%
CCAGTCGTGGCTCCGGCTAC+GGG - chr4.2:31371075-31371094 None:intergenic 70.0%
CGCCGTGGAAACTGCGACCG+CGG + chr4.2:31371185-31371204 MS.gene73826:CDS 70.0%
CGCGGTCGCAGTTTCCACGG+CGG - chr4.2:31371187-31371206 None:intergenic 70.0%
GTCAGTGACGGCGGTGGAGG+TGG - chr4.2:31370982-31371001 None:intergenic 70.0%
TCCGGCGATGCACCCGTAGC+CGG + chr4.2:31371060-31371079 MS.gene73826:CDS 70.0%
TCCGGCTACGGGTGCATCGC+CGG - chr4.2:31371064-31371083 None:intergenic 70.0%
! CGACGGCGAGCCTTTTCGCC+TGG - chr4.2:31371119-31371138 None:intergenic 70.0%
CCCGTAGCCGGAGCCACGAC+TGG + chr4.2:31371072-31371091 MS.gene73826:CDS 75.0%
CGGCGGTGGAGGTGGGTGAG+CGG - chr4.2:31370974-31370993 None:intergenic 75.0%
CGGTGGAGGTGGGTGAGCGG+CGG - chr4.2:31370971-31370990 None:intergenic 75.0%
CTCGCCGTCGTGACCCCCTC+AGG + chr4.2:31371129-31371148 MS.gene73826:CDS 75.0%
GGTGGAGGTGGGTGAGCGGC+GGG - chr4.2:31370970-31370989 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 31370858 31371287 31370858 ID=MS.gene73826
chr4.2 mRNA 31370858 31371287 31370858 ID=MS.gene73826.t1;Parent=MS.gene73826
chr4.2 exon 31370858 31371287 31370858 ID=MS.gene73826.t1.exon1;Parent=MS.gene73826.t1
chr4.2 CDS 31370858 31371287 31370858 ID=cds.MS.gene73826.t1;Parent=MS.gene73826.t1
Gene Sequence

>MS.gene73826

ATGAGTAGTGTACTTTGTGAAGAGCAACAAAAACTTCTCCTTTCCCTGAAAAAGTCTCTCACTCTAAGGGACACTATCATGGACAACATCCCACCTAGGAAGCTACTCACCCGCCGCTCACCCACCTCCACCGCCGTCACTGACATGTTTTCCGATGAGGATCCTTATTCCTCGGACCATTTCCGAATGTACGAGTTCAAAATCCGGCGATGCACCCGTAGCCGGAGCCACGACTGGACTGACTGCCCTTTCGCCCATCCAGGCGAAAAGGCTCGCCGTCGTGACCCCCTCAGGTATCAGTACTCCGGTGAGGTGTGTCCTGATTACCGCCGTGGAAACTGCGACCGCGGTGAAGCGTGTGAATTCTCCCACGGAGTTTTTGAGTGCTGGTTGCACCCTTCAAGGTATAGAACTGAAGCTTGTAAAGATG
Protein sequence

>MS.gene73826.t1

MSSVLCEEQQKLLLSLKKSLTLRDTIMDNIPPRKLLTRRSPTSTAVTDMFSDEDPYSSDHFRMYEFKIRRCTRSRSHDWTDCPFAHPGEKARRRDPLRYQYSGEVCPDYRRGNCDRGEACEFSHGVFECWLHPSRYRTEACKD