AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene62864

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene62864.t1 MTR_4g101760 92.647 204 14 1 1 204 1 203 1.83e-139 388
MS.gene62864.t1 MTR_5g012000 61.340 194 64 2 11 204 30 212 7.23e-80 238
MS.gene62864.t1 MTR_3g008840 50.610 164 80 1 40 203 25 187 4.72e-57 178
MS.gene62864.t1 MTR_3g008820 48.171 164 84 1 40 203 24 186 8.49e-54 170
MS.gene62864.t1 MTR_4g035870 40.237 169 98 1 35 203 31 196 6.11e-40 135
MS.gene62864.t1 MTR_4g025610 38.500 200 114 4 12 204 5 202 6.54e-40 135
MS.gene62864.t1 MTR_4g035905 38.636 176 105 1 29 204 25 197 1.43e-39 134
MS.gene62864.t1 MTR_4g025550 37.500 200 116 4 12 204 5 202 1.88e-39 134
MS.gene62864.t1 MTR_4g025620 38.000 200 115 4 12 204 5 202 1.98e-39 134
MS.gene62864.t1 MTR_4g035880 40.237 169 98 1 35 203 31 196 2.12e-39 134
MS.gene62864.t1 MTR_4g025590 37.931 174 100 3 38 204 1 173 6.73e-35 122
MS.gene62864.t1 MTR_8g104765 36.019 211 109 6 12 202 9 213 4.82e-34 120
MS.gene62864.t1 MTR_4g120825 36.364 198 106 5 18 202 14 204 1.95e-33 119
MS.gene62864.t1 MTR_4g120830 36.364 198 106 5 18 202 14 204 2.88e-33 118
MS.gene62864.t1 MTR_7g108790 34.884 172 104 4 30 201 26 189 1.16e-25 98.6
MS.gene62864.t1 MTR_4g035855 28.571 196 133 2 11 200 8 202 8.42e-25 96.7
MS.gene62864.t1 MTR_3g008760 32.275 189 112 5 16 198 46 224 9.74e-23 91.7
MS.gene62864.t1 MTR_4g124855 32.979 188 111 6 17 197 15 194 2.69e-22 90.1
MS.gene62864.t1 MTR_2g043560 33.742 163 91 5 40 197 34 184 2.00e-20 85.1
MS.gene62864.t1 MTR_8g023310 25.904 166 119 2 39 202 66 229 1.13e-15 75.1
MS.gene62864.t1 MTR_1g008140 27.230 213 123 7 8 195 37 242 1.17e-13 69.3
MS.gene62864.t1 MTR_1g088540 27.211 147 102 3 55 201 1 142 8.38e-13 63.5
MS.gene62864.t1 MTR_7g112580 35.537 121 71 4 76 195 76 190 2.42e-12 65.5
MS.gene62864.t1 MTR_3g091380 26.829 164 115 2 35 195 72 233 2.95e-12 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene62864.t1 AT5G62350 45.665 173 93 1 32 203 30 202 7.87e-52 166
MS.gene62864.t1 AT4G25260 43.878 196 105 3 12 203 7 201 2.73e-50 162
MS.gene62864.t1 AT1G62770 47.179 195 95 4 11 202 9 198 2.16e-49 159
MS.gene62864.t1 AT3G47380 40.196 204 119 2 1 203 1 202 5.11e-49 159
MS.gene62864.t1 AT4G12390 46.774 186 91 3 26 204 21 205 2.15e-46 152
MS.gene62864.t1 AT1G14890 37.129 202 119 3 3 201 20 216 1.35e-38 132
MS.gene62864.t1 AT5G62360 37.195 164 99 2 40 203 43 202 5.88e-36 125
MS.gene62864.t1 AT2G01610 38.764 178 96 3 36 200 40 217 1.20e-34 122
MS.gene62864.t1 AT4G00080 35.714 196 110 6 11 198 11 198 2.16e-33 119
MS.gene62864.t1 AT1G62760 38.953 172 103 1 33 204 140 309 5.18e-33 120
MS.gene62864.t1 AT1G70720 35.503 169 103 2 36 202 32 196 1.73e-28 106
MS.gene62864.t1 AT1G70720 35.503 169 103 2 36 202 44 208 2.61e-28 105
MS.gene62864.t1 AT4G25250 28.788 198 136 3 5 201 5 198 7.71e-28 104
MS.gene62864.t1 AT5G20740 33.505 194 119 4 9 199 7 193 1.05e-26 101
MS.gene62864.t1 AT1G23205 32.353 204 128 4 7 202 1 202 1.26e-26 101
MS.gene62864.t1 AT5G51520 30.846 201 123 3 13 199 4 202 1.29e-26 101
MS.gene62864.t1 AT5G20740 34.518 197 113 6 9 199 41 227 3.21e-26 101
MS.gene62864.t1 AT3G14310 33.537 164 104 3 37 198 55 215 3.05e-23 97.1
MS.gene62864.t1 AT1G53830 33.537 164 104 3 37 198 58 218 3.82e-20 88.2
MS.gene62864.t1 AT3G62820 29.268 164 111 3 39 201 32 191 6.99e-19 80.9
MS.gene62864.t1 AT2G47670 29.348 184 119 3 24 200 25 204 1.92e-17 77.4
MS.gene62864.t1 AT5G62340 25.592 211 133 6 5 203 8 206 2.16e-13 66.6
MS.gene62864.t1 AT5G53370 26.994 163 108 5 41 202 111 263 5.61e-11 61.6
MS.gene62864.t1 AT5G53370 26.994 163 108 5 41 202 75 227 6.48e-11 61.2

Find 43 sgRNAs with CRISPR-Local

Find 54 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGATAAAGCTTATTGAATTT+TGG 0.156978 8.1:-21941568 None:intergenic
GGTTAAGGAGCTTGGACTTT+TGG 0.250249 8.1:+21941841 MS.gene62864:CDS
TAAGGCTAAGGGAGGGGATT+TGG 0.255564 8.1:+21941865 MS.gene62864:CDS
ATTACTCAAACTTTCTTTGC+TGG 0.326372 8.1:+21941481 MS.gene62864:CDS
TTTCCAAGGTAAAAGGGATT+AGG 0.330325 8.1:+21941747 MS.gene62864:CDS
TACTAGTAATGCACTTGCTT+TGG 0.350334 8.1:+21942030 MS.gene62864:CDS
CTAAGGGAGGGGATTTGGTT+TGG 0.358078 8.1:+21941870 MS.gene62864:CDS
CGAAATTTGAAGGCTGCAAT+TGG 0.381460 8.1:+21941980 MS.gene62864:CDS
AACAAATCGGTTAAGGAGCT+TGG 0.412049 8.1:+21941833 MS.gene62864:CDS
TTTGCAATTGTTGATTCAGC+AGG 0.417405 8.1:-21941536 None:intergenic
TTCAAATTTCGATCCATATG+AGG 0.417455 8.1:-21941968 None:intergenic
GCAATTGGTGCTAAGGTTGT+TGG 0.422661 8.1:+21941995 MS.gene62864:CDS
CCGTCTTAACAAATCGGTTA+AGG 0.453097 8.1:+21941826 MS.gene62864:CDS
TTTGGGTAAGGCTAAGGGAG+GGG 0.464272 8.1:+21941859 MS.gene62864:CDS
GATGAACCTTGTTCTTTACA+TGG 0.472826 8.1:+21941508 MS.gene62864:CDS
AGAGTTTGAACACATACATC+AGG 0.473143 8.1:-21941617 None:intergenic
TGTAAAGAACAAGGTTCATC+AGG 0.473538 8.1:-21941505 None:intergenic
AGGTAAAAGGGATTAGGCCT+AGG 0.475626 8.1:+21941753 MS.gene62864:CDS
TCATATGGATCGAAATTTGA+AGG 0.481658 8.1:+21941970 MS.gene62864:CDS
GCTGAATCAACAATTGCAAA+AGG 0.504243 8.1:+21941539 MS.gene62864:CDS
TGTACATAGTTAACGATGCT+TGG 0.512714 8.1:-21942068 None:intergenic
ACACAAGTAATGTTCAGACT+TGG 0.512861 8.1:+21941894 MS.gene62864:CDS
CGTGGACCGTCTTAACAAAT+CGG 0.527458 8.1:+21941820 MS.gene62864:CDS
GCAAGATTGCAAAGCGAACA+TGG 0.533705 8.1:+21941790 MS.gene62864:CDS
CCTTGACAGTGAGCATATCA+AGG 0.544280 8.1:+21941693 MS.gene62864:CDS
GAAGGCTGCAATTGGTGCTA+AGG 0.550533 8.1:+21941988 MS.gene62864:CDS
CCTTGATATGCTCACTGTCA+AGG 0.554205 8.1:-21941693 None:intergenic
CACAAGTAATGTTCAGACTT+GGG 0.555317 8.1:+21941895 MS.gene62864:CDS
TTGCAATTGTTGATTCAGCA+GGG 0.589678 8.1:-21941535 None:intergenic
GGTAAAAGGGATTAGGCCTA+GGG 0.590166 8.1:+21941754 MS.gene62864:CDS
TGTATGTGTTCAAACTCTCG+TGG 0.592434 8.1:+21941622 MS.gene62864:CDS
CCTTAACCGATTTGTTAAGA+CGG 0.600356 8.1:-21941826 None:intergenic
GTCAATACAAGTGTTCTGAT+CGG 0.601092 8.1:-21941933 None:intergenic
ACATAGTTAACGATGCTTGG+AGG 0.601769 8.1:-21942065 None:intergenic
TCATAGCTAAGGCTCATGAA+AGG 0.604127 8.1:+21941452 None:intergenic
TGCACAGCACTATATTCCCT+AGG 0.629333 8.1:-21941770 None:intergenic
GTAACGAGTGGCTCTACATG+AGG 0.631115 8.1:-21941594 None:intergenic
GGCTAGCCATGTAAAGAACA+AGG 0.639566 8.1:-21941514 None:intergenic
GCTCACTGTCAAGGCAACGA+TGG 0.645324 8.1:-21941684 None:intergenic
GTATGTGTTCAAACTCTCGT+GGG 0.646450 8.1:+21941623 MS.gene62864:CDS
GAGTTTGAACACATACATCA+GGG 0.661515 8.1:-21941616 None:intergenic
AGCGAACATGGATAGTAGCG+TGG 0.675590 8.1:+21941802 MS.gene62864:CDS
ACATACATCAGGGTAACGAG+TGG 0.715049 8.1:-21941606 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TGATAAAGCTTATTGAATTT+TGG - chr8.1:21941571-21941590 None:intergenic 20.0%
!! AAGAAATTTTCCAAGGTAAA+AGG + chr8.1:21941740-21941759 MS.gene62864:CDS 25.0%
!! AGAAATTTTCCAAGGTAAAA+GGG + chr8.1:21941741-21941760 MS.gene62864:CDS 25.0%
!! ATTCATGAAGAAATTTTCCA+AGG + chr8.1:21941733-21941752 MS.gene62864:CDS 25.0%
!!! AAAGCTTATTGAATTTTGGT+TGG - chr8.1:21941567-21941586 None:intergenic 25.0%
ATTACTCAAACTTTCTTTGC+TGG + chr8.1:21941481-21941500 MS.gene62864:CDS 30.0%
TCATATGGATCGAAATTTGA+AGG + chr8.1:21941970-21941989 MS.gene62864:CDS 30.0%
TTCAAATTTCGATCCATATG+AGG - chr8.1:21941971-21941990 None:intergenic 30.0%
ACACAAGTAATGTTCAGACT+TGG + chr8.1:21941894-21941913 MS.gene62864:CDS 35.0%
AGAGTTTGAACACATACATC+AGG - chr8.1:21941620-21941639 None:intergenic 35.0%
CACAAGTAATGTTCAGACTT+GGG + chr8.1:21941895-21941914 MS.gene62864:CDS 35.0%
GAGTTTGAACACATACATCA+GGG - chr8.1:21941619-21941638 None:intergenic 35.0%
GATGAACCTTGTTCTTTACA+TGG + chr8.1:21941508-21941527 MS.gene62864:CDS 35.0%
GCTGAATCAACAATTGCAAA+AGG + chr8.1:21941539-21941558 MS.gene62864:CDS 35.0%
GTCAATACAAGTGTTCTGAT+CGG - chr8.1:21941936-21941955 None:intergenic 35.0%
TACTAGTAATGCACTTGCTT+TGG + chr8.1:21942030-21942049 MS.gene62864:CDS 35.0%
TGTAAAGAACAAGGTTCATC+AGG - chr8.1:21941508-21941527 None:intergenic 35.0%
TTTCCAAGGTAAAAGGGATT+AGG + chr8.1:21941747-21941766 MS.gene62864:CDS 35.0%
!! CAACTTTTCTAGTCCTCATA+TGG + chr8.1:21941955-21941974 MS.gene62864:CDS 35.0%
!! CCTTAACCGATTTGTTAAGA+CGG - chr8.1:21941829-21941848 None:intergenic 35.0%
!! TTGCAATTGTTGATTCAGCA+GGG - chr8.1:21941538-21941557 None:intergenic 35.0%
!! TTTGCAATTGTTGATTCAGC+AGG - chr8.1:21941539-21941558 None:intergenic 35.0%
!!! TTGCTCGTTTTGGTTAATCA+AGG - chr8.1:21941657-21941676 None:intergenic 35.0%
AACAAATCGGTTAAGGAGCT+TGG + chr8.1:21941833-21941852 MS.gene62864:CDS 40.0%
CCGTCTTAACAAATCGGTTA+AGG + chr8.1:21941826-21941845 MS.gene62864:CDS 40.0%
CGAAATTTGAAGGCTGCAAT+TGG + chr8.1:21941980-21941999 MS.gene62864:CDS 40.0%
GTATGTGTTCAAACTCTCGT+GGG + chr8.1:21941623-21941642 MS.gene62864:CDS 40.0%
TGTATGTGTTCAAACTCTCG+TGG + chr8.1:21941622-21941641 MS.gene62864:CDS 40.0%
! GTTAAGGAGCTTGGACTTTT+GGG + chr8.1:21941842-21941861 MS.gene62864:CDS 40.0%
!!! TGGCTAGTTTTTGCTCGTTT+TGG - chr8.1:21941667-21941686 None:intergenic 40.0%
ACATACATCAGGGTAACGAG+TGG - chr8.1:21941609-21941628 None:intergenic 45.0%
AGGTAAAAGGGATTAGGCCT+AGG + chr8.1:21941753-21941772 MS.gene62864:CDS 45.0%
CCTTGACAGTGAGCATATCA+AGG + chr8.1:21941693-21941712 MS.gene62864:CDS 45.0%
CCTTGATATGCTCACTGTCA+AGG - chr8.1:21941696-21941715 None:intergenic 45.0%
CGTGGACCGTCTTAACAAAT+CGG + chr8.1:21941820-21941839 MS.gene62864:CDS 45.0%
GCAAGATTGCAAAGCGAACA+TGG + chr8.1:21941790-21941809 MS.gene62864:CDS 45.0%
GGTAAAAGGGATTAGGCCTA+GGG + chr8.1:21941754-21941773 MS.gene62864:CDS 45.0%
TGCACAGCACTATATTCCCT+AGG - chr8.1:21941773-21941792 None:intergenic 45.0%
! AGGCCTAATCCCTTTTACCT+TGG - chr8.1:21941753-21941772 None:intergenic 45.0%
! GGCTAGCCATGTAAAGAACA+AGG - chr8.1:21941517-21941536 None:intergenic 45.0%
! GGTTAAGGAGCTTGGACTTT+TGG + chr8.1:21941841-21941860 MS.gene62864:CDS 45.0%
!! GCAATTGGTGCTAAGGTTGT+TGG + chr8.1:21941995-21942014 MS.gene62864:CDS 45.0%
!! GGACTTTTGGGTAAGGCTAA+GGG + chr8.1:21941854-21941873 MS.gene62864:CDS 45.0%
!! TGGACTTTTGGGTAAGGCTA+AGG + chr8.1:21941853-21941872 MS.gene62864:CDS 45.0%
!! TTTTGGGTAAGGCTAAGGGA+GGG + chr8.1:21941858-21941877 MS.gene62864:CDS 45.0%
AGCGAACATGGATAGTAGCG+TGG + chr8.1:21941802-21941821 MS.gene62864:CDS 50.0%
TAAGGCTAAGGGAGGGGATT+TGG + chr8.1:21941865-21941884 MS.gene62864:CDS 50.0%
TTTGGGTAAGGCTAAGGGAG+GGG + chr8.1:21941859-21941878 MS.gene62864:CDS 50.0%
! CTAAGGGAGGGGATTTGGTT+TGG + chr8.1:21941870-21941889 MS.gene62864:CDS 50.0%
! GTAACGAGTGGCTCTACATG+AGG - chr8.1:21941597-21941616 None:intergenic 50.0%
!! CTTTTGGGTAAGGCTAAGGG+AGG + chr8.1:21941857-21941876 MS.gene62864:CDS 50.0%
!! GAAGGCTGCAATTGGTGCTA+AGG + chr8.1:21941988-21942007 MS.gene62864:CDS 50.0%
!! GGAGCTTGGACTTTTGGGTA+AGG + chr8.1:21941847-21941866 MS.gene62864:CDS 50.0%
GCTCACTGTCAAGGCAACGA+TGG - chr8.1:21941687-21941706 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 21941467 21942081 21941467 ID=MS.gene62864
chr8.1 mRNA 21941467 21942081 21941467 ID=MS.gene62864.t1;Parent=MS.gene62864
chr8.1 exon 21941467 21942081 21941467 ID=MS.gene62864.t1.exon1;Parent=MS.gene62864.t1
chr8.1 CDS 21941467 21942081 21941467 ID=cds.MS.gene62864.t1;Parent=MS.gene62864.t1
Gene Sequence

>MS.gene62864

ATGAAAGGAAGATTATTACTCAAACTTTCTTTGCTGGTCCTGATGAACCTTGTTCTTTACATGGCTAGCCCTGCTGAATCAACAATTGCAAAAGGATCCAACCAAAATTCAATAAGCTTTATCAAATCCTCATGTAGAGCCACTCGTTACCCTGATGTATGTGTTCAAACTCTCGTGGGCTATGCAACCTTGATTAACCAAAACGAGCAAAAACTAGCCATCGTTGCCTTGACAGTGAGCATATCAAGGACTCAATCAAGTGCATCATTCATGAAGAAATTTTCCAAGGTAAAAGGGATTAGGCCTAGGGAATATAGTGCTGTGCAAGATTGCAAAGCGAACATGGATAGTAGCGTGGACCGTCTTAACAAATCGGTTAAGGAGCTTGGACTTTTGGGTAAGGCTAAGGGAGGGGATTTGGTTTGGCACACAAGTAATGTTCAGACTTGGGTTAGTGCTGCTCTTACCGATCAGAACACTTGTATTGACAACTTTTCTAGTCCTCATATGGATCGAAATTTGAAGGCTGCAATTGGTGCTAAGGTTGTTGGTGTTTCTCAAGTTACTAGTAATGCACTTGCTTTGGTTAACAACTTTGCCTCCAAGCATCGTTAA
Protein sequence

>MS.gene62864.t1

MKGRLLLKLSLLVLMNLVLYMASPAESTIAKGSNQNSISFIKSSCRATRYPDVCVQTLVGYATLINQNEQKLAIVALTVSISRTQSSASFMKKFSKVKGIRPREYSAVQDCKANMDSSVDRLNKSVKELGLLGKAKGGDLVWHTSNVQTWVSAALTDQNTCIDNFSSPHMDRNLKAAIGAKVVGVSQVTSNALALVNNFASKHR