AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene91119

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene91119.t1 MTR_1g039040 94.180 189 8 1 1 186 1 189 1.11e-128 359
MS.gene91119.t1 MTR_4g133952 81.188 101 19 0 4 104 56 156 2.27e-58 183
MS.gene91119.t1 MTR_7g061270 65.625 96 33 0 4 99 24 119 4.03e-47 152
MS.gene91119.t1 MTR_2g026710 62.745 102 38 0 2 103 13 114 6.89e-47 151
MS.gene91119.t1 MTR_7g100650 65.625 96 33 0 4 99 24 119 7.84e-47 151
MS.gene91119.t1 MTR_5g095740 62.037 108 41 0 5 112 22 129 8.65e-47 152
MS.gene91119.t1 MTR_3g058980 68.421 95 30 0 5 99 26 120 1.90e-46 151
MS.gene91119.t1 MTR_1g072790 54.264 129 52 2 5 126 28 156 4.94e-45 147
MS.gene91119.t1 MTR_8g091720 62.745 102 38 0 5 106 27 128 5.62e-45 147
MS.gene91119.t1 MTR_8g093920 60.606 99 39 0 5 103 39 137 1.23e-43 144
MS.gene91119.t1 MTR_0392s0020 62.500 96 36 0 2 97 14 109 1.95e-42 139
MS.gene91119.t1 MTR_4g119500 63.830 94 34 0 4 97 20 113 3.63e-42 138
MS.gene91119.t1 MTR_1g088860 62.500 96 36 0 4 99 34 129 8.63e-42 139
MS.gene91119.t1 MTR_4g133938 57.426 101 41 1 2 100 13 113 1.31e-39 132
MS.gene91119.t1 MTR_1g083070 51.087 92 45 0 6 97 4 95 2.11e-31 110
MS.gene91119.t1 MTR_1g029070 51.579 95 46 0 5 99 51 145 4.69e-31 111
MS.gene91119.t1 MTR_5g095900 47.917 96 47 1 2 94 9 104 1.24e-24 95.1
MS.gene91119.t1 MTR_1g028480 57.353 68 29 0 36 103 19 86 9.04e-23 88.2
MS.gene91119.t1 MTR_1g029100 43.421 76 43 0 11 86 7 82 7.08e-19 77.4
MS.gene91119.t1 MTR_2g056000 30.337 89 62 0 6 94 41 129 7.32e-16 72.4
MS.gene91119.t1 MTR_4g112380 28.723 94 67 0 1 94 6 99 7.90e-15 68.9
MS.gene91119.t1 MTR_5g095860 38.554 83 41 1 11 93 21 93 1.02e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene91119.t1 AT5G47670 61.589 151 49 2 4 148 27 174 1.83e-58 182
MS.gene91119.t1 AT5G47670 61.589 151 49 2 4 148 56 203 4.59e-58 182
MS.gene91119.t1 AT5G47670 61.589 151 49 2 4 148 56 203 4.59e-58 182
MS.gene91119.t1 AT1G21970 69.231 130 22 2 5 116 58 187 4.87e-57 179
MS.gene91119.t1 AT4G14540 65.686 102 35 0 2 103 17 118 1.17e-48 155
MS.gene91119.t1 AT2G38880 64.583 96 34 0 4 99 19 114 2.49e-46 149
MS.gene91119.t1 AT2G38880 64.583 96 34 0 4 99 19 114 2.83e-46 149
MS.gene91119.t1 AT2G38880 64.583 96 34 0 4 99 19 114 2.83e-46 149
MS.gene91119.t1 AT2G38880 64.583 96 34 0 4 99 19 114 2.83e-46 149
MS.gene91119.t1 AT5G47640 64.356 101 36 0 5 105 26 126 6.04e-46 150
MS.gene91119.t1 AT3G53340 64.583 96 34 0 4 99 27 122 1.08e-45 149
MS.gene91119.t1 AT3G53340 64.583 96 34 0 4 99 27 122 1.08e-45 149
MS.gene91119.t1 AT2G38880 49.324 148 62 2 4 151 19 153 1.10e-45 148
MS.gene91119.t1 AT2G38880 49.324 148 62 2 4 151 19 153 1.10e-45 148
MS.gene91119.t1 AT2G37060 63.542 96 35 0 4 99 28 123 1.88e-45 148
MS.gene91119.t1 AT2G37060 63.542 96 35 0 4 99 28 123 1.88e-45 148
MS.gene91119.t1 AT2G37060 63.542 96 35 0 4 99 28 123 1.88e-45 148
MS.gene91119.t1 AT2G38880 63.830 94 34 0 4 97 19 112 3.20e-45 146
MS.gene91119.t1 AT2G38880 65.217 92 32 0 4 95 19 110 2.43e-44 143
MS.gene91119.t1 AT3G53340 63.366 101 35 1 4 102 27 127 3.00e-44 144
MS.gene91119.t1 AT3G53340 63.366 101 35 1 4 102 27 127 3.00e-44 144
MS.gene91119.t1 AT3G53340 65.217 92 32 0 4 95 27 118 6.32e-44 142
MS.gene91119.t1 AT2G38880 65.217 92 32 0 4 95 19 110 1.34e-43 142
MS.gene91119.t1 AT2G38880 65.217 92 32 0 4 95 19 110 1.34e-43 142
MS.gene91119.t1 AT2G38880 65.217 92 32 0 4 95 19 110 1.34e-43 142
MS.gene91119.t1 AT2G13570 63.158 95 35 0 5 99 35 129 2.04e-43 144
MS.gene91119.t1 AT2G47810 62.500 96 36 0 4 99 49 144 2.90e-41 137
MS.gene91119.t1 AT1G09030 53.191 94 44 0 6 99 3 96 6.18e-35 120
MS.gene91119.t1 AT5G08190 31.481 108 73 1 1 107 6 113 1.28e-15 71.2
MS.gene91119.t1 AT5G08190 32.558 86 58 0 1 86 6 91 1.81e-15 70.9
MS.gene91119.t1 AT5G23090 28.723 94 67 0 1 94 6 99 2.93e-15 70.1
MS.gene91119.t1 AT5G23090 28.723 94 67 0 1 94 6 99 3.15e-15 70.1
MS.gene91119.t1 AT5G23090 28.723 94 67 0 1 94 6 99 3.15e-15 70.1
MS.gene91119.t1 AT5G23090 28.723 94 67 0 1 94 6 99 3.15e-15 70.1
MS.gene91119.t1 AT5G23090 30.986 71 49 0 24 94 16 86 9.25e-11 57.8

Find 30 sgRNAs with CRISPR-Local

Find 36 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATAGCAATGGTCATGGTTA+TGG 0.302909 1.3:-22082892 MS.gene91119:CDS
ATACGAATCACGTTTGCTAT+TGG 0.343423 1.3:+22083270 None:intergenic
TGTTATGAAGCTTATGTATT+CGG 0.343577 1.3:+22083176 None:intergenic
CGTTGAAGGTAAAATGTTAA+AGG 0.361813 1.3:+22083051 None:intergenic
TTACAGCAGAAGATATACTA+TGG 0.368505 1.3:-22083110 MS.gene91119:CDS
TTATAATTATTATTAATTAG+AGG 0.371549 1.3:+22082913 None:intergenic
AGAAAACAACAATCAAAGTT+TGG 0.401488 1.3:+22082799 None:intergenic
CACTTTCACGGTAACGTTGA+AGG 0.420587 1.3:+22083037 None:intergenic
GAAGATATACTATGGGCAAT+GGG 0.428461 1.3:-22083102 MS.gene91119:CDS
CGTTTGCTATTGGCATGTAT+TGG 0.431652 1.3:+22083280 None:intergenic
CAGGTTCACCTTCACTTTCA+CGG 0.431684 1.3:+22083025 None:intergenic
TTCGGATACACATTCTTGAA+TGG 0.445869 1.3:+22083194 None:intergenic
GAAGAATGCTGCTGCATCAA+TGG 0.452030 1.3:+22082958 None:intergenic
TTGGCAACGATCGTTTGCTT+CGG 0.457557 1.3:+22083152 None:intergenic
TTATTATTAATTAGAGGAAG+TGG 0.469233 1.3:+22082919 None:intergenic
TGCTGCATCAATGGAAAAGA+AGG 0.472217 1.3:+22082967 None:intergenic
CTATGGGCAATGGGGAAACT+AGG 0.473445 1.3:-22083093 MS.gene91119:CDS
GAAGTGCGTCTAACAGAAGC+AGG 0.532121 1.3:+22083006 None:intergenic
AGAAGATATACTATGGGCAA+TGG 0.533910 1.3:-22083103 MS.gene91119:CDS
AGGTGATTTGAATCAATGGC+TGG 0.544068 1.3:-22083318 None:intergenic
AATAATAATTATAATAGCAA+TGG 0.551891 1.3:-22082904 MS.gene91119:CDS
GGTACAAAACTAGAGGAAGA+AGG 0.581984 1.3:+22082820 None:intergenic
AATTATAATAGCAATGGTCA+TGG 0.589262 1.3:-22082898 MS.gene91119:CDS
AAAGTTTGGTACAAAACTAG+AGG 0.609583 1.3:+22082813 None:intergenic
TACAGCAGAAGATATACTAT+GGG 0.616567 1.3:-22083109 MS.gene91119:CDS
CAACGTTACCGTGAAAGTGA+AGG 0.630890 1.3:-22083033 MS.gene91119:CDS
TTATGATTATCACGTTTGAG+AGG 0.639900 1.3:+22082775 None:intergenic
AAGATATACTATGGGCAATG+GGG 0.655865 1.3:-22083101 MS.gene91119:CDS
ATCGTTGCCAAAGAGAACAA+AGG 0.666703 1.3:-22083140 MS.gene91119:CDS
TGCATCAATGGAAAAGAAGG+AGG 0.672191 1.3:+22082970 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAATAATTATAATAGCAA+TGG - chr1.3:22083155-22083174 MS.gene91119:CDS 10.0%
!! TTATTATTAATTAGAGGAAG+TGG + chr1.3:22083143-22083162 None:intergenic 20.0%
! AATTATAATAGCAATGGTCA+TGG - chr1.3:22083161-22083180 MS.gene91119:CDS 25.0%
! AGAAAACAACAATCAAAGTT+TGG + chr1.3:22083263-22083282 None:intergenic 25.0%
! TGTTATGAAGCTTATGTATT+CGG + chr1.3:22082886-22082905 None:intergenic 25.0%
!!! ATGGTTTTGATTTTGATCAA+GGG - chr1.3:22083186-22083205 MS.gene91119:CDS 25.0%
!!! TATGGTTTTGATTTTGATCA+AGG - chr1.3:22083185-22083204 MS.gene91119:CDS 25.0%
AAAGTTTGGTACAAAACTAG+AGG + chr1.3:22083249-22083268 None:intergenic 30.0%
CGTTGAAGGTAAAATGTTAA+AGG + chr1.3:22083011-22083030 None:intergenic 30.0%
TACAGCAGAAGATATACTAT+GGG - chr1.3:22082950-22082969 MS.gene91119:CDS 30.0%
TTACAGCAGAAGATATACTA+TGG - chr1.3:22082949-22082968 MS.gene91119:CDS 30.0%
TTATGATTATCACGTTTGAG+AGG + chr1.3:22083287-22083306 None:intergenic 30.0%
AAGATATACTATGGGCAATG+GGG - chr1.3:22082958-22082977 MS.gene91119:CDS 35.0%
AATAGCAATGGTCATGGTTA+TGG - chr1.3:22083167-22083186 MS.gene91119:CDS 35.0%
AGAAGATATACTATGGGCAA+TGG - chr1.3:22082956-22082975 MS.gene91119:CDS 35.0%
GAAGATATACTATGGGCAAT+GGG - chr1.3:22082957-22082976 MS.gene91119:CDS 35.0%
TTCGGATACACATTCTTGAA+TGG + chr1.3:22082868-22082887 None:intergenic 35.0%
! CTGTTTTCCTTTGTTCTCTT+TGG + chr1.3:22082929-22082948 None:intergenic 35.0%
!! ATACGAATCACGTTTGCTAT+TGG + chr1.3:22082792-22082811 None:intergenic 35.0%
!! GATCAAGGGTTTTATAGAGA+TGG - chr1.3:22083200-22083219 MS.gene91119:CDS 35.0%
ATCGTTGCCAAAGAGAACAA+AGG - chr1.3:22082919-22082938 MS.gene91119:CDS 40.0%
GGTACAAAACTAGAGGAAGA+AGG + chr1.3:22083242-22083261 None:intergenic 40.0%
TGCATCAATGGAAAAGAAGG+AGG + chr1.3:22083092-22083111 None:intergenic 40.0%
TGCTGCATCAATGGAAAAGA+AGG + chr1.3:22083095-22083114 None:intergenic 40.0%
! AATGGTTTCTTTTGCGTCGT+CGG + chr1.3:22082850-22082869 None:intergenic 40.0%
!! CAAGGGTTTTATAGAGATGG+TGG - chr1.3:22083203-22083222 MS.gene91119:CDS 40.0%
!! CGTTTGCTATTGGCATGTAT+TGG + chr1.3:22082782-22082801 None:intergenic 40.0%
CAACGTTACCGTGAAAGTGA+AGG - chr1.3:22083026-22083045 MS.gene91119:CDS 45.0%
CACTTTCACGGTAACGTTGA+AGG + chr1.3:22083025-22083044 None:intergenic 45.0%
CAGGTTCACCTTCACTTTCA+CGG + chr1.3:22083037-22083056 None:intergenic 45.0%
GAAGAATGCTGCTGCATCAA+TGG + chr1.3:22083104-22083123 None:intergenic 45.0%
TTGGCAACGATCGTTTGCTT+CGG + chr1.3:22082910-22082929 None:intergenic 45.0%
! TCGGAGATTTTTGCATGCGA+CGG + chr1.3:22082831-22082850 None:intergenic 45.0%
!! TTATAATTATTATTAATTAG+AGG + chr1.3:22083149-22083168 None:intergenic 5.0%
CTATGGGCAATGGGGAAACT+AGG - chr1.3:22082966-22082985 MS.gene91119:CDS 50.0%
GAAGTGCGTCTAACAGAAGC+AGG + chr1.3:22083056-22083075 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 22082756 22083325 22082756 ID=MS.gene91119
chr1.3 mRNA 22082756 22083325 22082756 ID=MS.gene91119.t1;Parent=MS.gene91119
chr1.3 exon 22082756 22083325 22082756 ID=MS.gene91119.t1.exon1;Parent=MS.gene91119.t1
chr1.3 CDS 22082756 22083325 22082756 ID=cds.MS.gene91119.t1;Parent=MS.gene91119.t1
Gene Sequence

>MS.gene91119

ATGGCTGGAATAAGAGAACAAGACCAATACATGCCAATAGCAAACGTGATTCGTATAATGCGACGAATTCTTCCGTCGCATGCAAAAATCTCCGACGACGCAAAAGAAACCATTCAAGAATGTGTATCCGAATACATAAGCTTCATAACATCCGAAGCAAACGATCGTTGCCAAAGAGAACAAAGGAAAACAGTTACAGCAGAAGATATACTATGGGCAATGGGGAAACTAGGTTTTGATGATTATGTTCATCCTTTAACATTTTACCTTCAACGTTACCGTGAAAGTGAAGGTGAACCTGCTTCTGTTAGACGCACTTCTTCTCTTGCTTTGCCTCCTTCTTTTCCATTGATGCAGCAGCATTCTTCATCATTGTCATCAATGCCACTTCCTCTAATTAATAATAATTATAATAGCAATGGTCATGGTTATGGTTTTGATTTTGATCAAGGGTTTTATAGAGATGGTGGTGATGATGCTGCTCCTTCTTCCTCTAGTTTTGTACCAAACTTTGATTGTTGTTTTCTTCCTCTCAAACGTGATAATCATAATAATAATAATAATATGTGA
Protein sequence

>MS.gene91119.t1

MAGIREQDQYMPIANVIRIMRRILPSHAKISDDAKETIQECVSEYISFITSEANDRCQREQRKTVTAEDILWAMGKLGFDDYVHPLTFYLQRYRESEGEPASVRRTSSLALPPSFPLMQQHSSSLSSMPLPLINNNYNSNGHGYGFDFDQGFYRDGGDDAAPSSSSFVPNFDCCFLPLKRDNHNNNNNM