AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene026179

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene026179.t1 MTR_1g039040 94.211 190 8 1 1 187 1 190 2.07e-129 361
MS.gene026179.t1 MTR_4g133952 81.188 101 19 0 4 104 56 156 2.51e-58 183
MS.gene026179.t1 MTR_7g061270 65.625 96 33 0 4 99 24 119 4.01e-47 152
MS.gene026179.t1 MTR_2g026710 62.745 102 38 0 2 103 13 114 7.16e-47 151
MS.gene026179.t1 MTR_7g100650 65.625 96 33 0 4 99 24 119 8.15e-47 151
MS.gene026179.t1 MTR_5g095740 62.037 108 41 0 5 112 22 129 8.99e-47 152
MS.gene026179.t1 MTR_3g058980 68.421 95 30 0 5 99 26 120 1.98e-46 151
MS.gene026179.t1 MTR_8g091720 62.745 102 38 0 5 106 27 128 4.65e-45 148
MS.gene026179.t1 MTR_1g072790 54.264 129 52 2 5 126 28 156 4.87e-45 147
MS.gene026179.t1 MTR_8g093920 60.606 99 39 0 5 103 39 137 1.08e-43 145
MS.gene026179.t1 MTR_0392s0020 62.500 96 36 0 2 97 14 109 2.17e-42 139
MS.gene026179.t1 MTR_4g119500 63.830 94 34 0 4 97 20 113 3.82e-42 138
MS.gene026179.t1 MTR_1g088860 62.500 96 36 0 4 99 34 129 1.00e-41 139
MS.gene026179.t1 MTR_4g133938 57.426 101 41 1 2 100 13 113 1.40e-39 132
MS.gene026179.t1 MTR_1g083070 51.087 92 45 0 6 97 4 95 2.03e-31 110
MS.gene026179.t1 MTR_1g029070 51.579 95 46 0 5 99 51 145 4.35e-31 111
MS.gene026179.t1 MTR_5g095900 47.917 96 47 1 2 94 9 104 1.18e-24 95.1
MS.gene026179.t1 MTR_1g028480 57.353 68 29 0 36 103 19 86 8.01e-23 88.2
MS.gene026179.t1 MTR_1g029100 43.421 76 43 0 11 86 7 82 7.03e-19 77.4
MS.gene026179.t1 MTR_2g056000 30.337 89 62 0 6 94 41 129 7.27e-16 72.4
MS.gene026179.t1 MTR_4g112380 28.723 94 67 0 1 94 6 99 8.03e-15 68.9
MS.gene026179.t1 MTR_5g095860 38.554 83 41 1 11 93 21 93 9.56e-12 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.gene026179.t1 AT5G47670 61.589 151 49 2 4 148 27 174 2.49e-58 182
MS.gene026179.t1 AT5G47670 61.589 151 49 2 4 148 56 203 5.08e-58 182
MS.gene026179.t1 AT5G47670 61.589 151 49 2 4 148 56 203 5.08e-58 182
MS.gene026179.t1 AT1G21970 69.231 130 22 2 5 116 58 187 5.04e-57 179
MS.gene026179.t1 AT4G14540 65.686 102 35 0 2 103 17 118 1.27e-48 155
MS.gene026179.t1 AT2G38880 64.583 96 34 0 4 99 19 114 2.48e-46 149
MS.gene026179.t1 AT2G38880 64.583 96 34 0 4 99 19 114 2.98e-46 149
MS.gene026179.t1 AT2G38880 64.583 96 34 0 4 99 19 114 2.98e-46 149
MS.gene026179.t1 AT2G38880 64.583 96 34 0 4 99 19 114 2.98e-46 149
MS.gene026179.t1 AT5G47640 64.356 101 36 0 5 105 26 126 6.41e-46 150
MS.gene026179.t1 AT2G38880 49.324 148 62 2 4 151 19 153 1.03e-45 148
MS.gene026179.t1 AT2G38880 49.324 148 62 2 4 151 19 153 1.03e-45 148
MS.gene026179.t1 AT3G53340 64.583 96 34 0 4 99 27 122 1.34e-45 148
MS.gene026179.t1 AT3G53340 64.583 96 34 0 4 99 27 122 1.34e-45 148
MS.gene026179.t1 AT2G37060 63.542 96 35 0 4 99 28 123 2.11e-45 148
MS.gene026179.t1 AT2G37060 63.542 96 35 0 4 99 28 123 2.11e-45 148
MS.gene026179.t1 AT2G37060 63.542 96 35 0 4 99 28 123 2.11e-45 148
MS.gene026179.t1 AT2G38880 63.830 94 34 0 4 97 19 112 3.12e-45 146
MS.gene026179.t1 AT2G38880 65.217 92 32 0 4 95 19 110 2.42e-44 143
MS.gene026179.t1 AT3G53340 63.366 101 35 1 4 102 27 127 2.90e-44 144
MS.gene026179.t1 AT3G53340 63.366 101 35 1 4 102 27 127 2.90e-44 144
MS.gene026179.t1 AT3G53340 65.217 92 32 0 4 95 27 118 6.57e-44 142
MS.gene026179.t1 AT2G38880 65.217 92 32 0 4 95 19 110 1.32e-43 142
MS.gene026179.t1 AT2G38880 65.217 92 32 0 4 95 19 110 1.32e-43 142
MS.gene026179.t1 AT2G38880 65.217 92 32 0 4 95 19 110 1.32e-43 142
MS.gene026179.t1 AT2G13570 63.158 95 35 0 5 99 35 129 2.36e-43 144
MS.gene026179.t1 AT2G47810 62.500 96 36 0 4 99 49 144 2.93e-41 137
MS.gene026179.t1 AT1G09030 53.191 94 44 0 6 99 3 96 5.79e-35 120
MS.gene026179.t1 AT5G08190 31.481 108 73 1 1 107 6 113 1.06e-15 71.2
MS.gene026179.t1 AT5G08190 32.558 86 58 0 1 86 6 91 1.67e-15 70.9
MS.gene026179.t1 AT5G23090 28.723 94 67 0 1 94 6 99 2.74e-15 70.1
MS.gene026179.t1 AT5G23090 28.723 94 67 0 1 94 6 99 2.82e-15 70.1
MS.gene026179.t1 AT5G23090 28.723 94 67 0 1 94 6 99 2.82e-15 70.1
MS.gene026179.t1 AT5G23090 28.723 94 67 0 1 94 6 99 2.82e-15 70.1
MS.gene026179.t1 AT5G23090 30.986 71 49 0 24 94 16 86 8.36e-11 57.8

Find 28 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAGAATGCTGCTGCATTAA+TGG 0.212560 1.2:+24017198 None:intergenic
AATAGCAATGGTCATGGTTA+TGG 0.302909 1.2:-24017132 MS.gene026179:CDS
ATACGAATCACGTTTGCTAT+TGG 0.343423 1.2:+24017510 None:intergenic
CGTTGAAGGTAAAATGTTAA+AGG 0.361813 1.2:+24017291 None:intergenic
TTACAGCAGAAGATATACTA+TGG 0.368505 1.2:-24017350 MS.gene026179:CDS
TTATAATTATTATTAATTAG+AGG 0.371549 1.2:+24017153 None:intergenic
AGAAAACAACAATCAAAGTT+TGG 0.401488 1.2:+24017039 None:intergenic
CACTTTCACGGTAACGTTGA+AGG 0.420587 1.2:+24017277 None:intergenic
GAAGATATACTATGGGCAAT+GGG 0.428461 1.2:-24017342 MS.gene026179:CDS
CAGGTTCACCTTCACTTTCA+CGG 0.431684 1.2:+24017265 None:intergenic
TTCAGATACGCATTCTTGAA+TGG 0.454185 1.2:+24017434 None:intergenic
TTATTATTAATTAGAGGAAG+TGG 0.469233 1.2:+24017159 None:intergenic
CTATGGGCAATGGGGAAACT+AGG 0.473445 1.2:-24017333 MS.gene026179:CDS
CGTTTGCTATTGGCATGTAC+TGG 0.489893 1.2:+24017520 None:intergenic
GAAGTGCGTCGAACAGAAGC+AGG 0.501979 1.2:+24017246 None:intergenic
TGCTGCATTAATGGAAAAGA+TGG 0.528976 1.2:+24017207 None:intergenic
AGAAGATATACTATGGGCAA+TGG 0.533910 1.2:-24017343 MS.gene026179:CDS
AGGTGATTTGAATCAATGGC+TGG 0.544068 1.2:-24017558 None:intergenic
AATAATAATTATAATAGCAA+TGG 0.551891 1.2:-24017144 MS.gene026179:CDS
GGTACAAAACTAGAGGAAGA+AGG 0.581984 1.2:+24017060 None:intergenic
AATTATAATAGCAATGGTCA+TGG 0.589262 1.2:-24017138 MS.gene026179:CDS
AAAGTTTGGTACAAAACTAG+AGG 0.609583 1.2:+24017053 None:intergenic
TACAGCAGAAGATATACTAT+GGG 0.616567 1.2:-24017349 MS.gene026179:CDS
ATACATAAGCTTCATAACAT+CGG 0.628968 1.2:-24017412 MS.gene026179:CDS
CAACGTTACCGTGAAAGTGA+AGG 0.630890 1.2:-24017273 MS.gene026179:CDS
TTATGATTATCACGTTTGAG+AGG 0.639900 1.2:+24017015 None:intergenic
TGCATTAATGGAAAAGATGG+AGG 0.643868 1.2:+24017210 None:intergenic
AAGATATACTATGGGCAATG+GGG 0.655865 1.2:-24017341 MS.gene026179:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAATAATTATAATAGCAA+TGG - chr1.2:24017401-24017420 MS.gene026179:CDS 10.0%
!! TTATTATTAATTAGAGGAAG+TGG + chr1.2:24017389-24017408 None:intergenic 20.0%
! AATTATAATAGCAATGGTCA+TGG - chr1.2:24017407-24017426 MS.gene026179:CDS 25.0%
! AGAAAACAACAATCAAAGTT+TGG + chr1.2:24017509-24017528 None:intergenic 25.0%
! ATACATAAGCTTCATAACAT+CGG - chr1.2:24017133-24017152 MS.gene026179:CDS 25.0%
!!! ATGGTTTTGATTTTGATCAA+GGG - chr1.2:24017432-24017451 MS.gene026179:CDS 25.0%
!!! TATGGTTTTGATTTTGATCA+AGG - chr1.2:24017431-24017450 MS.gene026179:CDS 25.0%
AAAGTTTGGTACAAAACTAG+AGG + chr1.2:24017495-24017514 None:intergenic 30.0%
CGTTGAAGGTAAAATGTTAA+AGG + chr1.2:24017257-24017276 None:intergenic 30.0%
TACAGCAGAAGATATACTAT+GGG - chr1.2:24017196-24017215 MS.gene026179:CDS 30.0%
TTACAGCAGAAGATATACTA+TGG - chr1.2:24017195-24017214 MS.gene026179:CDS 30.0%
TTATGATTATCACGTTTGAG+AGG + chr1.2:24017533-24017552 None:intergenic 30.0%
!! CTGTTTTTCTTTGTTCTCTT+TGG + chr1.2:24017175-24017194 None:intergenic 30.0%
AAGATATACTATGGGCAATG+GGG - chr1.2:24017204-24017223 MS.gene026179:CDS 35.0%
AATAGCAATGGTCATGGTTA+TGG - chr1.2:24017413-24017432 MS.gene026179:CDS 35.0%
AGAAGATATACTATGGGCAA+TGG - chr1.2:24017202-24017221 MS.gene026179:CDS 35.0%
GAAGATATACTATGGGCAAT+GGG - chr1.2:24017203-24017222 MS.gene026179:CDS 35.0%
TGCATTAATGGAAAAGATGG+AGG + chr1.2:24017338-24017357 None:intergenic 35.0%
TGCTGCATTAATGGAAAAGA+TGG + chr1.2:24017341-24017360 None:intergenic 35.0%
TTCAGATACGCATTCTTGAA+TGG + chr1.2:24017114-24017133 None:intergenic 35.0%
! AATGGTTTCTTTTGCATCGT+CGG + chr1.2:24017096-24017115 None:intergenic 35.0%
!! ATACGAATCACGTTTGCTAT+TGG + chr1.2:24017038-24017057 None:intergenic 35.0%
!! GATCAAGGGTTTTATAGAGA+TGG - chr1.2:24017446-24017465 MS.gene026179:CDS 35.0%
GAAGAATGCTGCTGCATTAA+TGG + chr1.2:24017350-24017369 None:intergenic 40.0%
GGTACAAAACTAGAGGAAGA+AGG + chr1.2:24017488-24017507 None:intergenic 40.0%
!! CAAGGGTTTTATAGAGATGG+TGG - chr1.2:24017449-24017468 MS.gene026179:CDS 40.0%
CAACGTTACCGTGAAAGTGA+AGG - chr1.2:24017272-24017291 MS.gene026179:CDS 45.0%
CACTTTCACGGTAACGTTGA+AGG + chr1.2:24017271-24017290 None:intergenic 45.0%
CAGGTTCACCTTCACTTTCA+CGG + chr1.2:24017283-24017302 None:intergenic 45.0%
! TCGGAGATTTTTGCATGCGA+CGG + chr1.2:24017077-24017096 None:intergenic 45.0%
!! CGTTTGCTATTGGCATGTAC+TGG + chr1.2:24017028-24017047 None:intergenic 45.0%
!! TTATAATTATTATTAATTAG+AGG + chr1.2:24017395-24017414 None:intergenic 5.0%
CTATGGGCAATGGGGAAACT+AGG - chr1.2:24017212-24017231 MS.gene026179:CDS 50.0%
GAAGTGCGTCGAACAGAAGC+AGG + chr1.2:24017302-24017321 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 24017002 24017565 24017002 ID=MS.gene026179
chr1.2 mRNA 24017002 24017565 24017002 ID=MS.gene026179.t1;Parent=MS.gene026179
chr1.2 exon 24017002 24017565 24017002 ID=MS.gene026179.t1.exon1;Parent=MS.gene026179.t1
chr1.2 CDS 24017002 24017565 24017002 ID=cds.MS.gene026179.t1;Parent=MS.gene026179.t1
Gene Sequence

>MS.gene026179

ATGGCTGGAATAAGAGAACAAGACCAGTACATGCCAATAGCAAACGTGATTCGTATAATGCGACGAATTCTTCCGTCGCATGCAAAAATCTCCGACGATGCAAAAGAAACCATTCAAGAATGCGTATCTGAATACATAAGCTTCATAACATCGGAAGCAAACGATCGTTGCCAAAGAGAACAAAGAAAAACAGTTACAGCAGAAGATATACTATGGGCAATGGGGAAACTAGGTTTTGATGATTATGTTCATCCTTTAACATTTTACCTTCAACGTTACCGTGAAAGTGAAGGTGAACCTGCTTCTGTTCGACGCACTTCTTCTCTTGCTTTGCCTCCATCTTTTCCATTAATGCAGCAGCATTCTTCATCATTGTCATCAATGCCACTTCCTCTAATTAATAATAATTATAATAGCAATGGTCATGGTTATGGTTTTGATTTTGATCAAGGGTTTTATAGAGATGGTGGTGATGATGCTGCTCCTTCTTCCTCTAGTTTTGTACCAAACTTTGATTGTTGTTTTCTTCCTCTCAAACGTGATAATCATAATAATAATATGTGA
Protein sequence

>MS.gene026179.t1

MAGIREQDQYMPIANVIRIMRRILPSHAKISDDAKETIQECVSEYISFITSEANDRCQREQRKTVTAEDILWAMGKLGFDDYVHPLTFYLQRYRESEGEPASVRRTSSLALPPSFPLMQQHSSSLSSMPLPLINNNYNSNGHGYGFDFDQGFYRDGGDDAAPSSSSFVPNFDCCFLPLKRDNHNNNM